Diff of the two buildlogs: -- --- b1/build.log 2024-05-24 16:27:55.100603240 +0000 +++ b2/build.log 2024-05-24 17:30:25.861019085 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Jun 26 10:17:38 -12 2025 -I: pbuilder-time-stamp: 1750976258 +I: Current time: Sat May 25 06:28:36 +14 2024 +I: pbuilder-time-stamp: 1716568116 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -56,52 +56,84 @@ dpkg-source: info: applying 0032-no-future.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2418927/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2788930/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 May 24 16:28 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/2788930/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2788930/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.21(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='ed236aa3a1b2474fa81a24f19619312c' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='2418927' - PS1='# ' - PS2='> ' + INVOCATION_ID=6d0242dcc61b439e88a68e43a3b01298 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=2788930 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.HxxcUfmS/pbuilderrc_GIHe --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.HxxcUfmS/b1 --logfile b1/build.log cctbx_2023.12+ds2+~3.17.0+ds1-4.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.HxxcUfmS/pbuilderrc_hieL --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.HxxcUfmS/b2 --logfile b2/build.log cctbx_2023.12+ds2+~3.17.0+ds1-4.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink01-arm64 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Jun 25 14:05 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2418927/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 23 07:44 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2788930/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -694,7 +726,7 @@ Get: 460 http://deb.debian.org/debian unstable/main arm64 python3-tqdm all 4.66.4-1 [90.8 kB] Get: 461 http://deb.debian.org/debian unstable/main arm64 python3-wxgtk4.0 arm64 4.2.1+dfsg-3+b2 [9595 kB] Get: 462 http://deb.debian.org/debian unstable/main arm64 scons all 4.5.2+dfsg-1 [676 kB] -Fetched 301 MB in 13s (23.7 MB/s) +Fetched 301 MB in 2s (131 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libapparmor1:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19763 files and directories currently installed.) @@ -2173,8 +2205,8 @@ Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' -Local time is now: Thu Jun 26 22:19:46 UTC 2025. -Universal Time is now: Thu Jun 26 22:19:46 UTC 2025. +Local time is now: Fri May 24 16:30:54 UTC 2024. +Universal Time is now: Fri May 24 16:30:54 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libboost-atomic1.83.0:arm64 (1.83.0-2.1+b1) ... @@ -2635,7 +2667,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../cctbx_2023.12+ds2+~3.17.0+ds1-4_source.changes +I: user script /srv/workspace/pbuilder/2788930/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/2788930/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../cctbx_2023.12+ds2+~3.17.0+ds1-4_source.changes dpkg-buildpackage: info: source package cctbx dpkg-buildpackage: info: source version 2023.12+ds2+~3.17.0+ds1-4 dpkg-buildpackage: info: source distribution unstable @@ -11024,23 +11060,23 @@ g++ -o cctbx/maptbx/blobs_cmd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/blobs_cmd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/asymmetric_map.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/asymmetric_map.cpp -g++ -o cctbx/maptbx/skeletons.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/skeletons.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/maptbx/skeletons.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/skeletons.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/dijkstra.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/dijkstra.cpp -g++ -o iotbx/xplor/map_reader.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/xplor/map_reader.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/xplor/map_reader.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/xplor/map_reader.cpp g++ -o iotbx/xplor/map_writer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/xplor/map_writer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/cut.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/direct_space_asu/proto/cut.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/reference_table.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/direct_space_asu/proto/reference_table.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.cpp g++ -o cctbx/eltbx/basic.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/basic.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/it1992.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering/it1992.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/wk1995.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering/wk1995.cpp @@ -11050,27 +11086,27 @@ g++ -o cctbx/eltbx/xray_scattering/n_gaussian.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering/n_gaussian.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/fp_fdp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/fp_fdp.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libiotbx_xplor.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_xplor.so.0 iotbx/xplor/map_reader.o iotbx/xplor/map_writer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o cctbx/eltbx/henke.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/libiotbx_xplor.so.0.0.1' - 'lib/libiotbx_xplor.so.0'->'lib/libiotbx_xplor.so.0.0.1' - 'lib/libiotbx_xplor.so'->'lib/libiotbx_xplor.so.0.0.1' +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_01_12.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_01_12.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libiotbx_xplor.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_xplor.so.0 iotbx/xplor/map_reader.o iotbx/xplor/map_writer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o cctbx/eltbx/henke_tables_13_24.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_13_24.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_25_36.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/libiotbx_xplor.so.0.0.1' + 'lib/libiotbx_xplor.so.0'->'lib/libiotbx_xplor.so.0.0.1' + 'lib/libiotbx_xplor.so'->'lib/libiotbx_xplor.so.0.0.1' g++ -o cctbx/eltbx/henke_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_37_48.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_49_60.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_49_60.cpp -g++ -o cctbx/eltbx/henke_tables_61_72.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_61_72.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/eltbx/henke_tables_61_72.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_61_72.cpp g++ -o cctbx/eltbx/henke_tables_73_84.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_73_84.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_85_92.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_85_92.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/icsd_radii.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/icsd_radii.cpp @@ -11078,38 +11114,38 @@ g++ -o cctbx/eltbx/covalent_radii.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/covalent_radii.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/neutron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/neutron.cpp -g++ -o cctbx/eltbx/sasaki.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/eltbx/sasaki.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_01_12.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_01_12.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_13_24.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_13_24.cpp -g++ -o cctbx/eltbx/sasaki_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_25_36.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/eltbx/sasaki_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_25_36.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_37_48.cpp -g++ -o cctbx/eltbx/sasaki_tables_49_60.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_49_60.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/eltbx/sasaki_tables_49_60.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_49_60.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_61_72.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_61_72.cpp -g++ -o cctbx/eltbx/sasaki_tables_73_82.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_73_82.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/eltbx/sasaki_tables_73_82.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_73_82.cpp g++ -o cctbx/eltbx/tiny_pse.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/tiny_pse.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/wavelengths.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/wavelengths.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/electron_scattering/peng1996.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/electron_scattering/peng1996.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/attenuation_coefficient.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/attenuation_coefficient.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/miller/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/miller/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/asu.cpp g++ -o cctbx/miller/bins.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/bins.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/index_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/index_generator.cpp -g++ -o cctbx/miller/index_span.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/index_span.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/miller/index_span.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/index_span.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/match_bijvoet_mates.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/match_bijvoet_mates.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -11128,12 +11164,12 @@ g++ -o cctbx/sgtbx/group_codes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/group_codes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/hall_in.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/hall_in.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/lattice_tr.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/lattice_tr.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/lattice_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/lattice_symmetry.cpp -g++ -o cctbx/sgtbx/miller.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/miller.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/miller.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/miller.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reciprocal_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/reciprocal_space_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -11144,24 +11180,24 @@ g++ -o cctbx/sgtbx/rot_mx_info.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx_info.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/row_echelon_solve.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/row_echelon_solve.cpp -g++ -o cctbx/sgtbx/rt_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/rt_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/select_generators.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/select_generators.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/seminvariant.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/seminvariant.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/site_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.cpp -g++ -o cctbx/sgtbx/space_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/space_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/space_group_type.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group_type.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/symbols.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/symbols.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensor_rank_2.cpp -g++ -o cctbx/sgtbx/tr_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/tr_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tr_vec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_vec.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -11185,20 +11221,20 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o omptbx/stubs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/omptbx/stubs.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libomptbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libomptbx.so.0 omptbx/stubs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -Create symlinks for: 'lib/libomptbx.so.0.0.1' - 'lib/libomptbx.so.0'->'lib/libomptbx.so.0.0.1' - 'lib/libomptbx.so'->'lib/libomptbx.so.0.0.1' g++ -o boost_adaptbx/graph/breadth_first_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libomptbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libomptbx.so.0 omptbx/stubs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o boost_adaptbx/graph/clustering_algorithm_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/connected_component_algorithm_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/libomptbx.so.0.0.1' + 'lib/libomptbx.so.0'->'lib/libomptbx.so.0.0.1' + 'lib/libomptbx.so'->'lib/libomptbx.so.0.0.1' g++ -o boost_adaptbx/graph/graph_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/graph_structure_comparison_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/maximum_clique_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/metric_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/metric_ext.cpp @@ -11208,8 +11244,8 @@ g++ -o boost_adaptbx/graph/utility_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/utility_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/hybrid_times_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/hybrid_times_ext.cpp -g++ -o lib/libcctbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcctbx.so.0 cctbx/eltbx/basic.o cctbx/eltbx/xray_scattering/it1992.o cctbx/eltbx/xray_scattering/wk1995.o cctbx/eltbx/xray_scattering/n_gaussian_raw.o cctbx/eltbx/xray_scattering/n_gaussian.o cctbx/eltbx/fp_fdp.o cctbx/eltbx/henke.o cctbx/eltbx/henke_tables_01_12.o cctbx/eltbx/henke_tables_13_24.o cctbx/eltbx/henke_tables_25_36.o cctbx/eltbx/henke_tables_37_48.o cctbx/eltbx/henke_tables_49_60.o cctbx/eltbx/henke_tables_61_72.o cctbx/eltbx/henke_tables_73_84.o cctbx/eltbx/henke_tables_85_92.o cctbx/eltbx/icsd_radii.o cctbx/eltbx/covalent_radii.o cctbx/eltbx/neutron.o cctbx/eltbx/sasaki.o cctbx/eltbx/sasaki_tables_01_12.o cctbx/eltbx/sasaki_tables_13_24.o cctbx/eltbx/sasaki_tables_25_36.o cctbx/eltbx/sasaki_tables_37_48.o cctbx/eltbx/sasaki_tables_49_60.o cctbx/eltbx/sasaki_tables_61_72.o cctbx/eltbx/sasaki_tables_73_82.o cctbx/eltbx/tiny_pse.o cctbx/eltbx/wavelengths.o cctbx/eltbx/electron_scattering/peng1996.o cctbx/eltbx/attenuation_coefficient.o cctbx/miller/asu.o cctbx/miller/bins.o cctbx/miller/index_generator.o cctbx/miller/index_span.o cctbx/miller/match_bijvoet_mates.o cctbx/miller/match_indices.o cctbx/miller/match_multi_indices.o cctbx/miller/sym_equiv.o cctbx/sgtbx/bricks.o cctbx/sgtbx/change_of_basis_op.o cctbx/sgtbx/find_affine.o cctbx/sgtbx/group_codes.o cctbx/sgtbx/hall_in.o cctbx/sgtbx/lattice_tr.o cctbx/sgtbx/lattice_symmetry.o cctbx/sgtbx/miller.o cctbx/sgtbx/reciprocal_space_asu.o cctbx/sgtbx/reciprocal_space_ref_asu.o cctbx/sgtbx/rot_mx.o cctbx/sgtbx/rot_mx_info.o cctbx/sgtbx/row_echelon_solve.o cctbx/sgtbx/rt_mx.o cctbx/sgtbx/select_generators.o cctbx/sgtbx/seminvariant.o cctbx/sgtbx/site_symmetry.o cctbx/sgtbx/space_group.o cctbx/sgtbx/space_group_type.o cctbx/sgtbx/symbols.o cctbx/sgtbx/tensor_rank_2.o cctbx/sgtbx/tr_group.o cctbx/sgtbx/tr_vec.o cctbx/sgtbx/utils.o cctbx/sgtbx/wyckoff.o cctbx/sgtbx/reference_settings/hall_symbol_table.o cctbx/sgtbx/reference_settings/matrix_group_code_table.o cctbx/sgtbx/reference_settings/normalizer.o cctbx/sgtbx/reference_settings/wyckoff.o cctbx/uctbx/uctbx.o cctbx/uctbx/spoil_optimization.o cctbx/uctbx/crystal_orientation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libcctbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcctbx.so.0 cctbx/eltbx/basic.o cctbx/eltbx/xray_scattering/it1992.o cctbx/eltbx/xray_scattering/wk1995.o cctbx/eltbx/xray_scattering/n_gaussian_raw.o cctbx/eltbx/xray_scattering/n_gaussian.o cctbx/eltbx/fp_fdp.o cctbx/eltbx/henke.o cctbx/eltbx/henke_tables_01_12.o cctbx/eltbx/henke_tables_13_24.o cctbx/eltbx/henke_tables_25_36.o cctbx/eltbx/henke_tables_37_48.o cctbx/eltbx/henke_tables_49_60.o cctbx/eltbx/henke_tables_61_72.o cctbx/eltbx/henke_tables_73_84.o cctbx/eltbx/henke_tables_85_92.o cctbx/eltbx/icsd_radii.o cctbx/eltbx/covalent_radii.o cctbx/eltbx/neutron.o cctbx/eltbx/sasaki.o cctbx/eltbx/sasaki_tables_01_12.o cctbx/eltbx/sasaki_tables_13_24.o cctbx/eltbx/sasaki_tables_25_36.o cctbx/eltbx/sasaki_tables_37_48.o cctbx/eltbx/sasaki_tables_49_60.o cctbx/eltbx/sasaki_tables_61_72.o cctbx/eltbx/sasaki_tables_73_82.o cctbx/eltbx/tiny_pse.o cctbx/eltbx/wavelengths.o cctbx/eltbx/electron_scattering/peng1996.o cctbx/eltbx/attenuation_coefficient.o cctbx/miller/asu.o cctbx/miller/bins.o cctbx/miller/index_generator.o cctbx/miller/index_span.o cctbx/miller/match_bijvoet_mates.o cctbx/miller/match_indices.o cctbx/miller/match_multi_indices.o cctbx/miller/sym_equiv.o cctbx/sgtbx/bricks.o cctbx/sgtbx/change_of_basis_op.o cctbx/sgtbx/find_affine.o cctbx/sgtbx/group_codes.o cctbx/sgtbx/hall_in.o cctbx/sgtbx/lattice_tr.o cctbx/sgtbx/lattice_symmetry.o cctbx/sgtbx/miller.o cctbx/sgtbx/reciprocal_space_asu.o cctbx/sgtbx/reciprocal_space_ref_asu.o cctbx/sgtbx/rot_mx.o cctbx/sgtbx/rot_mx_info.o cctbx/sgtbx/row_echelon_solve.o cctbx/sgtbx/rt_mx.o cctbx/sgtbx/select_generators.o cctbx/sgtbx/seminvariant.o cctbx/sgtbx/site_symmetry.o cctbx/sgtbx/space_group.o cctbx/sgtbx/space_group_type.o cctbx/sgtbx/symbols.o cctbx/sgtbx/tensor_rank_2.o cctbx/sgtbx/tr_group.o cctbx/sgtbx/tr_vec.o cctbx/sgtbx/utils.o cctbx/sgtbx/wyckoff.o cctbx/sgtbx/reference_settings/hall_symbol_table.o cctbx/sgtbx/reference_settings/matrix_group_code_table.o cctbx/sgtbx/reference_settings/normalizer.o cctbx/sgtbx/reference_settings/wyckoff.o cctbx/uctbx/uctbx.o cctbx/uctbx/spoil_optimization.o cctbx/uctbx/crystal_orientation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm Create symlinks for: 'lib/libcctbx.so.0.0.1' 'lib/libcctbx.so.0'->'lib/libcctbx.so.0.0.1' 'lib/libcctbx.so'->'lib/libcctbx.so.0.0.1' @@ -11230,7 +11266,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -11247,7 +11283,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -11264,7 +11300,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/metric_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -11281,7 +11317,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -11298,7 +11334,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/utility_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -11315,7 +11351,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -11332,7 +11368,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -11349,7 +11385,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/utility_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -11366,7 +11402,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/metric_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -11382,13 +11418,8 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tuple_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/tuple_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o boost_adaptbx/tests/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread boost_adaptbx/tests/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DSWIG_PYTHON_STRICT_BYTE_CHAR -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/boost_python/cbflib_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cbflib_adaptbx/detectors/buffer_based_service.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/buffer_based_service.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cbflib_adaptbx/detectors/cbf_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/cbf_adaptor.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, from /usr/include/boost/function/detail/prologue.hpp:12, from /usr/include/boost/function/function_template.hpp:13, @@ -11404,11 +11435,16 @@ /usr/include/boost/timer.hpp:25:1: note: ‘#pragma message: This header is deprecated. Use the facilities in instead.’ 25 | BOOST_HEADER_DEPRECATED( "the facilities in " ) | ^~~~~~~~~~~~~~~~~~~~~~~ +g++ -o boost_adaptbx/tests/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread boost_adaptbx/tests/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o cbflib_adaptbx/detectors/buffer_based_service.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/buffer_based_service.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cbflib_adaptbx/detectors/cbf_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/cbf_adaptor.cpp g++ -o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/cbf_byte_offset_optimized.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/mar_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/mar_adaptor.cpp -g++ -o cbflib_adaptbx/detectors/tst_memory.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DCBF_NO_REGEX -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/tst_memory.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cbflib_adaptbx/detectors/tst_memory.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DCBF_NO_REGEX -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/tst_memory.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o ccp4io_adaptbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ccp4io -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ccp4io_adaptbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -11556,25 +11592,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/wyckoff.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_sorted.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_sorted_bpl.cpp:9: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i, scitbx::af::trivial_accessor>&, const cctbx::geometry_restraints::bond_similarity_proxy&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity.h:84:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 84 | for(int i=0;i, scitbx::af::trivial_accessor>&, const cctbx::geometry_restraints::bond_similarity_proxy&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity.h:108:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 108 | for(int i=0;i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i, scitbx::af::trivial_accessor>&, const cctbx::geometry_restraints::bond_similarity_proxy&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity.h:84:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 84 | for(int i=0;i, scitbx::af::trivial_accessor>&, const cctbx::geometry_restraints::bond_similarity_proxy&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity.h:108:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 108 | for(int i=0;i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -11654,35 +11671,19 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:11: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::chirality_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:75:60: required from here + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:9: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_similarity_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:55:44: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h: In instantiation of ‘int cctbx::crystal::direct_space_asu::asu_mappings::find_i_sym(unsigned int, const cctbx::sgtbx::rt_mx&) const [with FloatType = double; IntShiftType = int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/pair_tables.h:643:46: required from ‘bool cctbx::crystal::pair_asu_table::process_pair(unsigned int, unsigned int, const cctbx::sgtbx::rt_mx&) [with FloatType = double; IntShiftType = int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/pair_tables.h:543:35: required from ‘cctbx::crystal::pair_asu_table& cctbx::crystal::pair_asu_table::add_pair(const scitbx::af::tiny&) [with FloatType = double; IntShiftType = int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_sorted.h:16:30: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:859:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, std::allocator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 859 | for(int i_sym=0; i_sym, std::allocator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 869 | for(int i_sym=0; i_sym::convertible(PyObject*) [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny, 2>; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:79:54: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -11694,19 +11695,34 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:9: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_similarity_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:55:44: required from here + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:10: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::map; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:129:23: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny, 2>; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:79:54: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_simple_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:232:25: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_asu_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:340:25: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/restraints.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/chirality.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:13: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -11718,14 +11734,19 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/restraints.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:12: +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/wyckoff.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_sorted.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_sorted_bpl.cpp:9: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::map; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:129:23: required from here + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:11: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::chirality_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:75:60: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_simple_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:232:25: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_asu_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:340:25: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +g++ -o cctbx/geometry_restraints/nonbonded_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h: In instantiation of ‘int cctbx::crystal::direct_space_asu::asu_mappings::find_i_sym(unsigned int, const cctbx::sgtbx::rt_mx&) const [with FloatType = double; IntShiftType = int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/pair_tables.h:643:46: required from ‘bool cctbx::crystal::pair_asu_table::process_pair(unsigned int, unsigned int, const cctbx::sgtbx::rt_mx&) [with FloatType = double; IntShiftType = int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/pair_tables.h:543:35: required from ‘cctbx::crystal::pair_asu_table& cctbx::crystal::pair_asu_table::add_pair(const scitbx::af::tiny&) [with FloatType = double; IntShiftType = int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_sorted.h:16:30: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:859:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, std::allocator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 859 | for(int i_sym=0; i_sym, std::allocator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 869 | for(int i_sym=0; i_sym::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = dihedral_proxy]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:110:17: required from here @@ -11791,16 +11833,20 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -g++ -o cctbx/geometry_restraints/geometry_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/geometry_restraints_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/geometry_restraints/motif_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/motif_bpl.cpp -g++ -o cctbx/geometry_restraints/nonbonded_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/nonbonded_sorted_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/parallelity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/wyckoff.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:11: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); @@ -11823,18 +11869,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ -g++ -o cctbx/geometry_restraints/planarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/planarity_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/wyckoff.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:11: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -11846,6 +11880,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +g++ -o cctbx/geometry_restraints/planarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/planarity_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -11969,7 +12005,6 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/math/time_trigonometry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/math/time_trigonometry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/merging/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/merging/ext.cpp In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, from /usr/include/boost/smart_ptr/shared_array.hpp:17, from /usr/include/boost/shared_array.hpp:17, @@ -11978,10 +12013,11 @@ /usr/include/boost/timer.hpp:25:1: note: ‘#pragma message: This header is deprecated. Use the facilities in instead.’ 25 | BOOST_HEADER_DEPRECATED( "the facilities in " ) | ^~~~~~~~~~~~~~~~~~~~~~~ +g++ -o cctbx/merging/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/merging/ext.cpp +g++ -o cctbx/math/time_trigonometry -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/math/time_trigonometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/amplitude_normalisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/amplitude_normalisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/math/time_trigonometry -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/math/time_trigonometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lm g++ -o cctbx/miller/boost_python/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/bins.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/bins.cpp @@ -12003,9 +12039,9 @@ g++ -o cctbx/miller/boost_python/match_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/match_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/match_multi_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/match_multi_indices.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/merge_equivalents.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/merge_equivalents.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/miller_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/miller_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/phase_integrator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/phase_integrator.cpp @@ -12088,8 +12124,8 @@ g++ -o cctbx/xray/boost_python/curvatures_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/curvatures_simple.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/each_hkl_gradients_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/each_hkl_gradients_direct.cpp -g++ -o cctbx/xray/boost_python/extinction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/extinction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/extinction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/extinction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/f_model_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/f_model_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -12114,31 +12150,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx.h:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_constraints.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:4: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] - 69 | if (N < last - first) throw_range_error(); - | ~~^~~~~~~~~~~~~~ g++ -o cctbx/xray/boost_python/gradients_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/gradients_direct.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: @@ -12166,17 +12177,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/grouped_data.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/grouped_data.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sampling_base.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/fast_gradients.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/fast_gradients.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -12202,6 +12202,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/grouped_data.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/grouped_data.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/minimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/minimization.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/f_model.h:11, @@ -12244,8 +12248,15 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/minimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/minimization.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sampling_base.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/fast_gradients.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/fast_gradients.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i cctbx::xray::f_model_core_data::f_model_core_data::select(const scitbx::af::const_ref&) const [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/f_model_bpl.cpp:174:32: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/f_model.h:732:38: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -12256,8 +12267,31 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/f_model.h:732:10: note: in expansion of macro ‘CCTBX_ASSERT’ 732 | CCTBX_ASSERT( iselection[ii]::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx.h:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_constraints.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:4: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] + 69 | if (N < last - first) throw_range_error(); + | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/gradients_direct.h:4, @@ -12266,7 +12300,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -12278,7 +12311,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, @@ -12293,12 +12325,34 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/parameter_map.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/parameter_map.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/sampled_model_density.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sampled_model_density.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/sampling_base.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sampling_base.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/minimization.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/minimization.cpp:8: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/grouped_data.h:14, @@ -12341,18 +12395,13 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/minimization.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/minimization.cpp:8: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::bic() [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:68:29: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/grouped_data.h:257:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for (long int ii=0;ii::r_abs() [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/grouped_data.cpp:69:31: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/grouped_data.h:271:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -12367,17 +12416,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/grouped_data.h:231:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 231 | for (int ii=1;ii::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/grouped_data.h: In instantiation of ‘cctbx::xray::grouped_data::unmerged_data::unmerged_data(scitbx::af::const_ref >, scitbx::af::const_ref >, const cctbx::sgtbx::space_group&, const bool&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; Value = cctbx::xray::grouped_data::unmerged_data; PyObject = _object]’ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<4>::apply::execute(PyObject*, t0, t1, t2, t3) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector4 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref >&; t2 = const cctbx::sgtbx::space_group&; t3 = const bool&]’ @@ -12421,49 +12459,21 @@ 167 | for (int ii=0; ii::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -g++ -o cctbx/xray/boost_python/scattering_type_registry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sampling_base.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sampled_model_density.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sampled_model_density.cpp:3: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:3: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::init_scatterer_part(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/parameter_map.h:54:7: required from ‘cctbx::xray::parameter_map::parameter_map(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’ -/usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0) [with A0 = boost::python::objects::reference_to_value, scitbx::af::trivial_accessor>&>; Value = cctbx::xray::parameter_map >; PyObject = _object]’ -/usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<1>::apply::execute(PyObject*, t0) [with Holder = boost::python::objects::value_holder > >; ArgList = boost::mpl::vector1, scitbx::af::trivial_accessor>&>; PyObject = _object; t0 = const scitbx::af::const_ref, scitbx::af::trivial_accessor>&]’ -/usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector1, scitbx::af::trivial_accessor>&>; Arity = boost::mpl::size, scitbx::af::trivial_accessor>&> >; Holder = boost::python::objects::value_holder > >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ -/usr/include/boost/python/init.hpp:310:66: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedT = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ -/usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >; classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ -/usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedVisitor = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ -/usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>; W = cctbx::xray::parameter_map >; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:46:11: required from ‘static void cctbx::xray::boost_python::parameter_map_wrapper::wrap(const char*) [with XRayScattererType = cctbx::xray::scatterer<>]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:60:50: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/parameter_map.h:61:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 61 | for(int i_sc=0; i_sc < scatterers.size(); ++i_sc) { - | ~~~~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sampling_base.h:4, @@ -12472,6 +12482,42 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::henke::table]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:349:54: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 426 | for (int i=0; i < scatterers.size(); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h: In instantiation of ‘static void cctbx::xray::inelastic_form_factors::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::sasaki::table]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:353:55: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -12497,13 +12543,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -12529,29 +12568,22 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/sigmaa.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sigmaa.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h: In instantiation of ‘static void cctbx::xray::inelastic_form_factors::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::henke::table]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:349:54: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 426 | for (int i=0; i < scatterers.size(); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h: In instantiation of ‘static void cctbx::xray::inelastic_form_factors::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::sasaki::table]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:353:55: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -g++ -o cctbx/xray/boost_python/structure_factors_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:9: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/parameter_map.h: In instantiation of ‘void cctbx::xray::parameter_map::init_scatterer_part(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/parameter_map.h:54:7: required from ‘cctbx::xray::parameter_map::parameter_map(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’ +/usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0) [with A0 = boost::python::objects::reference_to_value, scitbx::af::trivial_accessor>&>; Value = cctbx::xray::parameter_map >; PyObject = _object]’ +/usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<1>::apply::execute(PyObject*, t0) [with Holder = boost::python::objects::value_holder > >; ArgList = boost::mpl::vector1, scitbx::af::trivial_accessor>&>; PyObject = _object; t0 = const scitbx::af::const_ref, scitbx::af::trivial_accessor>&]’ +/usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector1, scitbx::af::trivial_accessor>&>; Arity = boost::mpl::size, scitbx::af::trivial_accessor>&> >; Holder = boost::python::objects::value_holder > >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ +/usr/include/boost/python/init.hpp:310:66: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedT = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ +/usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_> >; classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ +/usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>; DerivedVisitor = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>]’ +/usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init, scitbx::af::trivial_accessor>&, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_, mpl_::void_>; W = cctbx::xray::parameter_map >; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:46:11: required from ‘static void cctbx::xray::boost_python::parameter_map_wrapper::wrap(const char*) [with XRayScattererType = cctbx::xray::scatterer<>]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:60:50: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/parameter_map.h:61:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 61 | for(int i_sc=0; i_sc < scatterers.size(); ++i_sc) { + | ~~~~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer_flags.cpp:7: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: @@ -12581,6 +12613,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/sigmaa.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sigmaa.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp:3: @@ -12588,6 +12622,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 49 | std::auto_ptr @@ -12611,6 +12647,8 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +g++ -o cctbx/xray/boost_python/structure_factors_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -12636,14 +12674,23 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/targets.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/twin_components.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_components.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/twin_targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_targets.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/xray_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/xray_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/structure_factors_direct.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp:3: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sigmaa.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sigmaa.cpp:8: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -12655,34 +12702,27 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -g++ -o cctbx/xray/boost_python/structure_factors_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp +g++ -o cctbx/xray/observations/boost_python/observations_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/observations/boost_python/observations_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx.h:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_constraints.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:4: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] - 69 | if (N < last - first) throw_range_error(); - | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/targets.cpp +g++ -o cctbx/xray/targets/shelxl_wght_ls_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/targets/shelxl_wght_ls_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/boost_python/twin_components.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_components.cpp In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sigmaa.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sigmaa.cpp:8: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/structure_factors_direct.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp:3: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: @@ -12695,27 +12735,20 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -g++ -o cctbx/xray/boost_python/xray_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/xray_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/observations/boost_python/observations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/observations/boost_python/observations.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/observations/boost_python/observations_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/observations/boost_python/observations_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/targets/shelxl_wght_ls_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/targets/shelxl_wght_ls_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o chiltbx/handle_test.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/chiltbx/handle_test.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o chiltbx/handle_test -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread chiltbx/handle_test.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o cma_es/cma/cmaes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cma_es/cma/cmaes.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/structure_factors_simple.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] + 69 | if (N < last - first) throw_range_error(); + | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -12741,6 +12774,9 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ +g++ -o chiltbx/handle_test -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread chiltbx/handle_test.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o cma_es/cma/cmaes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cma_es/cma/cmaes.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, from /usr/include/boost/shared_ptr.hpp:17, @@ -12768,28 +12804,43 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] g++ -o cma_es/cma_es_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cma_es/cma_es_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o dxtbx/src/dxtbx/boost_python/compression.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc: In function ‘unsigned int dxtbx::boost_python::cbf_decompress(const char*, std::size_t, int*, std::size_t)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:123:50: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 123 | while ((j < packed_sz) && ((values - original) < values_sz)) { - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc: In function ‘void dxtbx::boost_python::rod_TY6_decompress(int*, const char*, const char*, int, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:203:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] - 203 | for (size_t iy = 0; iy < slow; iy++) { - | ~~~^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:224:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] - 224 | for (int k = 0; k < nblock; k++) { - | ~~^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:250:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] - 250 | for (int j = 0; j < nbit; j++) { - | ~~^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:257:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] - 257 | for (int j = 0; j < BLOCKSIZE; j++) { - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/compression.cc:278:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] - 278 | for (int i = 0; i < nrest; i++) { - | ~~^~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/io.hpp:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/close_chain.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem.hpp:10, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/targets/shelxl_wght_ls.hpp:1, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/targets/shelxl_wght_ls_bpl.cpp:23: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 63 | if (i < sz) s[i++] = c; + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:9: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] + 115 | if (dexp <= ad_hoc_limits::max_digit_count) { + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 653 | if (iw+1 != ed.size()) { + | ~~~~~^~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/variant.hpp:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 93 | if (c0e[0] == i0) { + | ~~~~~~~^~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:8: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] + 704 | while (pos < internal_file_len) { + | ~~~~^~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:14, @@ -12832,43 +12883,6 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/io.hpp:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/close_chain.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem.hpp:10, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/targets/shelxl_wght_ls.hpp:1, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/targets/shelxl_wght_ls_bpl.cpp:23: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 63 | if (i < sz) s[i++] = c; - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:9: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] - 115 | if (dexp <= ad_hoc_limits::max_digit_count) { - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 653 | if (iw+1 != ed.size()) { - | ~~~~~^~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/variant.hpp:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 93 | if (c0e[0] == i0) { - | ~~~~~~~^~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:8: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] - 704 | while (pos < internal_file_len) { - | ~~~~^~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘scitbx::af::shared cctbx::xray::twin_targets::twin_completion::get_free_model_selection(scitbx::af::const_ref >, const scitbx::af::const_ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:42:50: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:128:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -12943,7 +12957,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:649:6: note: in expansion of macro ‘CCTBX_ASSERT’ 649 | CCTBX_ASSERT( obs_size_ == f_obs.size() ); | ^~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/ext.cpp /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:650:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 650 | CCTBX_ASSERT( calc_size_ == f_model.size() ); /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ @@ -13056,9 +13069,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:948:17: note: in expansion of macro ‘CCTBX_ASSERT’ 948 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o dxtbx/src/dxtbx/boost_python/flumpy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘cctbx::xray::twin_targets::hemihedral_r_values::hemihedral_r_values(const scitbx::af::const_ref >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value&>; Value = cctbx::xray::twin_targets::hemihedral_r_values; PyObject = _object]’ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<5>::apply::execute(PyObject*, t0, t1, t2, t3, t4) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref >&; t2 = const cctbx::sgtbx::space_group&; t3 = const bool&; t4 = const scitbx::mat3&]’ @@ -13089,6 +13099,32 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/quadrature.h:546:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 546 | for (int ii=0;ii > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = bool]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 51 | for (std::size_t i = 0; i < boost::python::len(data); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = bool]’: +/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = int]’: +/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = double]’: +/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = bool; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:247:31: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:254:36: required from here @@ -13132,7 +13201,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = long unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:247:31: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -13143,7 +13211,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = unsigned char; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -13164,12 +13231,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = bool]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 51 | for (std::size_t i = 0; i < boost::python::len(data); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -13180,14 +13241,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +g++ -o dxtbx/src/dxtbx/model/boost_python/detector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -13198,6 +13252,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = long int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -13228,13 +13283,52 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = bool]’: -/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:24, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:9: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 560 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:549:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] + 549 | vec3 direction_; + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:91:5: warning: when initialized here [-Wreorder] + 91 | Beam() + | ^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 560 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 550 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:124:5: warning: when initialized here [-Wreorder] + 124 | Beam(vec3 direction, double wavelength) + | ^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 560 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 550 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:163:5: warning: when initialized here [-Wreorder] + 163 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 560 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 550 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:191:5: warning: when initialized here [-Wreorder] + 191 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 560 | double wavelength_; + | ^~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = float; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -13245,11 +13339,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = int]’: -/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 550 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:225:5: warning: when initialized here [-Wreorder] + 225 | Beam(vec3 direction, + | ^~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = double; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -13280,6 +13375,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:90:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 90 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:52: warning: left operand of comma operator has no effect [-Wunused-value] + 740 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -13290,11 +13389,9 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:140:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 140 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = double]’: -/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] + 740 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid >) [with T = double; grid > = scitbx::af::versa, scitbx::af::flex_grid<> >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -13335,67 +13432,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:115:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 115 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/detector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:24, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:9: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 560 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:549:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] - 549 | vec3 direction_; - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:91:5: warning: when initialized here [-Wreorder] - 91 | Beam() - | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 560 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 550 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:124:5: warning: when initialized here [-Wreorder] - 124 | Beam(vec3 direction, double wavelength) - | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 560 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 550 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:163:5: warning: when initialized here [-Wreorder] - 163 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 560 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 550 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:191:5: warning: when initialized here [-Wreorder] - 191 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 560 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 550 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:225:5: warning: when initialized here [-Wreorder] - 225 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:52: warning: left operand of comma operator has no effect [-Wunused-value] - 740 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] - 740 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:25: @@ -13409,7 +13445,6 @@ 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -g++ -o dxtbx/src/dxtbx/model/boost_python/experiment.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; @@ -13427,8 +13462,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:17: +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc:3: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 560 | double wavelength_; @@ -13537,9 +13572,7 @@ 237 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:18: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:17: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; @@ -13567,81 +13600,23 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 85 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:504:32: warning: ‘dxtbx::model::Scan::epochs_’ will be initialized after [-Wreorder] - 504 | scitbx::af::shared epochs_; - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:502:9: warning: ‘int dxtbx::model::Scan::batch_offset_’ [-Wreorder] - 502 | int batch_offset_; - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:39:5: warning: when initialized here [-Wreorder] - 39 | Scan() - | ^~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:17: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, scitbx::vec2, const scitbx::af::shared&, const scitbx::af::shared&, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:43: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:35: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 100 | DXTBX_ASSERT(epochs_.size() == num_images_); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 100 | DXTBX_ASSERT(epochs_.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 237 | DXTBX_ASSERT(epochs.size() == num_images_); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 237 | DXTBX_ASSERT(epochs.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_tuple(dxtbx::model::Beam&, boost::python::tuple)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:209:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 209 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_list(dxtbx::model::Beam&, boost::python::list)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:219:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 219 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/experiment_list.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o dxtbx/src/dxtbx/model/boost_python/goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_tuple(dxtbx::model::CrystalBase&, boost::python::tuple)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:119:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 119 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_list(dxtbx::model::CrystalBase&, boost::python::list)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:129:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 129 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_B_covariance_from_tuple(dxtbx::model::CrystalBase&, boost::python::api::object)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:141:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 141 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 79 | for (std::size_t j = y0; j < y1; ++j) { + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 80 | for (std::size_t i = x0; i < x1; ++i) { + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 143 | for (std::size_t j = y0; j < y1; ++j) { + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 144 | for (std::size_t i = x0; i < x1; ++i) { + | ~~^~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/experiment.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc:3: +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:17: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 560 | double wavelength_; @@ -13700,7 +13675,9 @@ 740 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:17: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:18: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; @@ -13728,22 +13705,81 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 79 | for (std::size_t j = y0; j < y1; ++j) { - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 80 | for (std::size_t i = x0; i < x1; ++i) { - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 143 | for (std::size_t j = y0; j < y1; ++j) { - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 144 | for (std::size_t i = x0; i < x1; ++i) { - | ~~^~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 85 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:504:32: warning: ‘dxtbx::model::Scan::epochs_’ will be initialized after [-Wreorder] + 504 | scitbx::af::shared epochs_; + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:502:9: warning: ‘int dxtbx::model::Scan::batch_offset_’ [-Wreorder] + 502 | int batch_offset_; + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:39:5: warning: when initialized here [-Wreorder] + 39 | Scan() + | ^~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:17: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, scitbx::vec2, const scitbx::af::shared&, const scitbx::af::shared&, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:43: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:35: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 100 | DXTBX_ASSERT(epochs_.size() == num_images_); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 100 | DXTBX_ASSERT(epochs_.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 237 | DXTBX_ASSERT(epochs.size() == num_images_); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 237 | DXTBX_ASSERT(epochs.size() == num_images_); + | ^~~~~~~~~~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/experiment_list.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_tuple(dxtbx::model::Beam&, boost::python::tuple)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:209:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 209 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_list(dxtbx::model::Beam&, boost::python::list)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:219:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 219 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_tuple(dxtbx::model::CrystalBase&, boost::python::tuple)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:119:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 119 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_list(dxtbx::model::CrystalBase&, boost::python::list)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:129:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 129 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_B_covariance_from_tuple(dxtbx::model::CrystalBase&, boost::python::api::object)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:141:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 141 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/goniometer_shadow_masking.h:12, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:30: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: @@ -13760,6 +13796,58 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 144 | for (std::size_t i = x0; i < x1; ++i) { | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::ImageBuffer dxtbx::ImageSet::get_raw_data(std::size_t)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:647:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 647 | if (data_cache_.index == index) { + | ~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::Image dxtbx::ImageSet::get_raw_data_as_double(std::size_t)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1115:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 1115 | if (double_raw_data_cache_.index == index) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1062:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] + 1062 | virtual ImageSet partial_set(boost::python::object reader, + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1202:12: note: by ‘dxtbx::ImageSet dxtbx::ImageGrid::partial_set(std::size_t, std::size_t) const’ + 1202 | ImageSet partial_set(std::size_t first, std::size_t last) const { + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, scitbx::af::int2)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1138:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 1138 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1138:5: note: in expansion of macro ‘DXTBX_ASSERT’ + 1138 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, scitbx::af::int2)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1152:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 1152 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1152:5: note: in expansion of macro ‘DXTBX_ASSERT’ + 1152 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1062:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] + 1062 | virtual ImageSet partial_set(boost::python::object reader, + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1473:12: note: by ‘dxtbx::ImageSet dxtbx::ImageSequence::partial_set(std::size_t, std::size_t) const’ + 1473 | ImageSet partial_set(std::size_t first, std::size_t last) const { + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1237:23: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 1237 | if (data.size() != scan->get_num_images()) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1276:26: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 1276 | if (indices.size() != scan->get_num_images()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘void dxtbx::ImageSequence::set_scan(const dxtbx::ImageSet::scan_ptr&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1398:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 1398 | if (scan->get_num_images() != size()) { + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1414:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 1414 | DXTBX_ASSERT(scan->get_num_images() == size()); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1414:5: note: in expansion of macro ‘DXTBX_ASSERT’ + 1414 | DXTBX_ASSERT(scan->get_num_images() == size()); + | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:22: @@ -13849,6 +13937,17 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] 740 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:468:56: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 501 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:470:55: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:472:53: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: @@ -13883,6 +13982,86 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:7: note: in expansion of macro ‘DXTBX_ASSERT’ 100 | DXTBX_ASSERT(epochs_.size() == num_images_); | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 237 | DXTBX_ASSERT(epochs.size() == num_images_); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 237 | DXTBX_ASSERT(epochs.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::BeamBase; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:249:56: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Detector; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:253:56: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Goniometer; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:257:58: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Scan; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:261:52: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘void dxtbx::model::boost_python::detector_detail::node_from_dict(boost::python::dict, dxtbx::model::Detector::Node*, boost::python::list, scitbx::af::ref)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:9: note: in expansion of macro ‘DXTBX_ASSERT’ + 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:9: note: in expansion of macro ‘DXTBX_ASSERT’ + 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:100:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 100 | for (std::size_t i = 0; i < boost::python::len(obj["children"]); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:124:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 124 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:134:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 134 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict, const dxtbx::format::Image&, const dxtbx::format::Image&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:158:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 158 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:168:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 168 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In static member function ‘static void dxtbx::model::boost_python::detector_detail::DetectorPickleSuite::copy_node(dxtbx::model::Detector::Node::pointer, boost::python::dict, boost::python::list)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:228:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 228 | for (std::size_t i = 0; i < boost::python::len(node["children"]); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc:17: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: @@ -13909,20 +14088,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 560 | double wavelength_; | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 237 | DXTBX_ASSERT(epochs.size() == num_images_); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 237 | DXTBX_ASSERT(epochs.size() == num_images_); - | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] 550 | double divergence_; | ^~~~~~~~~~~ @@ -14035,92 +14200,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ 237 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘void dxtbx::model::boost_python::detector_detail::node_from_dict(boost::python::dict, dxtbx::model::Detector::Node*, boost::python::list, scitbx::af::ref)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:9: note: in expansion of macro ‘DXTBX_ASSERT’ - 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:9: note: in expansion of macro ‘DXTBX_ASSERT’ - 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:100:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 100 | for (std::size_t i = 0; i < boost::python::len(obj["children"]); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:124:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 124 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:134:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 134 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict, const dxtbx::format::Image&, const dxtbx::format::Image&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:158:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 158 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:168:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 168 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In static member function ‘static void dxtbx::model::boost_python::detector_detail::DetectorPickleSuite::copy_node(dxtbx::model::Detector::Node::pointer, boost::python::dict, boost::python::list)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:228:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 228 | for (std::size_t i = 0; i < boost::python::len(node["children"]); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::ImageBuffer dxtbx::ImageSet::get_raw_data(std::size_t)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:647:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 647 | if (data_cache_.index == index) { - | ~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::Image dxtbx::ImageSet::get_raw_data_as_double(std::size_t)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1115:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 1115 | if (double_raw_data_cache_.index == index) { - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1062:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] - 1062 | virtual ImageSet partial_set(boost::python::object reader, - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1202:12: note: by ‘dxtbx::ImageSet dxtbx::ImageGrid::partial_set(std::size_t, std::size_t) const’ - 1202 | ImageSet partial_set(std::size_t first, std::size_t last) const { - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, scitbx::af::int2)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1138:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 1138 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1138:5: note: in expansion of macro ‘DXTBX_ASSERT’ - 1138 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, scitbx::af::int2)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1152:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 1152 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1152:5: note: in expansion of macro ‘DXTBX_ASSERT’ - 1152 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1062:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] - 1062 | virtual ImageSet partial_set(boost::python::object reader, - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1473:12: note: by ‘dxtbx::ImageSet dxtbx::ImageSequence::partial_set(std::size_t, std::size_t) const’ - 1473 | ImageSet partial_set(std::size_t first, std::size_t last) const { - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1237:23: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 1237 | if (data.size() != scan->get_num_images()) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1276:26: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 1276 | if (indices.size() != scan->get_num_images()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘void dxtbx::ImageSequence::set_scan(const dxtbx::ImageSet::scan_ptr&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1398:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 1398 | if (scan->get_num_images() != size()) { - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1414:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 1414 | DXTBX_ASSERT(scan->get_num_images() == size()); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1414:5: note: in expansion of macro ‘DXTBX_ASSERT’ - 1414 | DXTBX_ASSERT(scan->get_num_images() == size()); - | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment_list.h:23, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:20: @@ -14211,49 +14290,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:468:56: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 501 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:470:55: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:472:53: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::BeamBase; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:249:56: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Detector; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:253:56: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Goniometer; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:257:58: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Scan; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:261:52: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:25: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: @@ -14305,6 +14341,26 @@ | ^~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/model_ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList* dxtbx::model::boost_python::make_experiment_list(boost::python::api::object)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:30:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 30 | for (std::size_t i = 0; i < boost::python::len(items); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_setitem(dxtbx::model::ExperimentList&, int, dxtbx::model::Experiment)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:174:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 174 | if (n >= self.size() || n < 0) { + | ~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::Experiment& dxtbx::model::boost_python::experiment_list_getitem(dxtbx::model::ExperimentList&, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:184:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 184 | if (n >= self.size() || n < 0) { + | ~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList dxtbx::model::boost_python::experiment_list_getitem_slice(const dxtbx::model::ExperimentList&, boost::python::slice)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:193:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] + 193 | for (std::size_t i = as.start; i < as.stop && i < self.size(); i += as.step) { + | ~~^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_delitem(dxtbx::model::ExperimentList&, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:203:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 203 | if (n >= self.size() || n < 0) { + | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: @@ -14394,26 +14450,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList* dxtbx::model::boost_python::make_experiment_list(boost::python::api::object)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:30:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 30 | for (std::size_t i = 0; i < boost::python::len(items); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_setitem(dxtbx::model::ExperimentList&, int, dxtbx::model::Experiment)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:174:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 174 | if (n >= self.size() || n < 0) { - | ~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::Experiment& dxtbx::model::boost_python::experiment_list_getitem(dxtbx::model::ExperimentList&, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:184:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 184 | if (n >= self.size() || n < 0) { - | ~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList dxtbx::model::boost_python::experiment_list_getitem_slice(const dxtbx::model::ExperimentList&, boost::python::slice)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:193:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] - 193 | for (std::size_t i = as.start; i < as.stop && i < self.size(); i += as.step) { - | ~~^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_delitem(dxtbx::model::ExperimentList&, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:203:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 203 | if (n >= self.size() || n < 0) { - | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: @@ -14617,6 +14653,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ 237 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc: In function ‘T* dxtbx::model::boost_python::from_dict(boost::python::dict) [with T = dxtbx::model::MultiAxisGoniometer]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc:105:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 105 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/panel.cc:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: @@ -14753,64 +14793,31 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ 237 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc: In function ‘T* dxtbx::model::boost_python::from_dict(boost::python::dict) [with T = dxtbx::model::MultiAxisGoniometer]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.cc:105:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 105 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ g++ -o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc -g++ -o dxtbx/src/dxtbx/model/boost_python/scan.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o dxtbx/src/dxtbx/model/boost_python/scan.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/spectrum.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.12 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libcbf-private.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcbf-private.so.0 cbflib_adaptbx/detectors/mar_adaptor.o cbflib_adaptbx/detectors/cbf_adaptor.o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o cbflib_adaptbx/detectors/buffer_based_service.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lboost_thread -lboost_system -lhdf5 -lcbf -g++ -o exe_dev/cctbx.convert_ccp4_symop_lib -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/convert_ccp4_symop_lib.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm Create symlinks for: 'lib/libcbf-private.so.0.0.1' 'lib/libcbf-private.so.0'->'lib/libcbf-private.so.0.0.1' 'lib/libcbf-private.so'->'lib/libcbf-private.so.0.0.1' g++ -o exe_dev/cbflib.tst_memory -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cbflib_adaptbx/detectors/tst_memory.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lcbf -lcbf-private -lm -lhdf5 +g++ -o exe_dev/cctbx.convert_ccp4_symop_lib -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/convert_ccp4_symop_lib.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm g++ -o exe_dev/cctbx.find_distances -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/find_distances.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm g++ -o exe_dev/cctbx.getting_started -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/getting_started.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm g++ -o exe_dev/cctbx.lattice_symmetry -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/lattice_symmetry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm g++ -o exe_dev/cctbx.sym_equiv_sites -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sym_equiv_sites.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm g++ -o exe_dev/cctbx.sys_abs_equiv_space_groups -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sys_abs_equiv_space_groups.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc:14: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 367 | for (std::size_t y = y0; y < y1; ++y) { - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 368 | for (std::size_t x = x0; x < x1; ++x) { - | ~~^~~~ g++ -o fable/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/ext.cpp -g++ -o gltbx/font_ucs_10x20.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/font_ucs_10x20.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o gltbx/font_ucs_10x20.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/font_ucs_10x20.cpp g++ -o gltbx/font_ucs_8x13.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/font_ucs_8x13.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:19: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: @@ -14860,6 +14867,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ 237 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ +g++ -o gltbx/font_ucs_9x15.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/font_ucs_9x15.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: @@ -14920,6 +14929,35 @@ 740 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc:14: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 367 | for (std::size_t y = y0; y < y1; ++y) { + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 368 | for (std::size_t x = x0; x < x1; ++x) { + | ~~^~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: @@ -14949,23 +14987,18 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -g++ -o gltbx/font_ucs_9x15.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/font_ucs_9x15.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc:16: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 85 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ g++ -o gltbx/fonts_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/gltbx/fonts_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In function ‘boost::python::dict dxtbx::model::boost_python::MaptoPythonDict(dxtbx::model::ExpImgRangeMap)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:62:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 62 | for (int k = 0; k < val.size(); ++k) { | ~~^~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In function ‘boost::python::list dxtbx::model::boost_python::get_valid_image_ranges(dxtbx::model::Scan&, std::string)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:191:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 191 | for (int k = 0; k < ranges.size(); ++k) { | ~~^~~~~~~~~~~~~~~ +g++ -o gltbx/gl_defines_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/gl_defines_00_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc:10: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: @@ -15025,8 +15058,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] 740 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ -g++ -o gltbx/gl_defines_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/gl_defines_00_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: @@ -15063,6 +15094,11 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 85 | for (std::size_t i = 0; i < n_angles; ++i) { | ~~^~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc:16: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 85 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:504:32: warning: ‘dxtbx::model::Scan::epochs_’ will be initialized after [-Wreorder] 504 | scitbx::af::shared epochs_; @@ -15156,15 +15192,15 @@ g++ -o gltbx/gl_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/gltbx/gl_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/gl_functions_00_bpl.cpp -g++ -o gltbx/gl_functions_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/gl_functions_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o gltbx/gl_functions_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/gl_functions_01_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/gl_functions_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/gl_functions_03_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_04_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/gl_functions_04_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_05_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/gl_functions_05_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_functions_06_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/gl_functions_06_bpl.cpp @@ -15196,8 +15232,8 @@ g++ -o gltbx/glu_functions_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/glu_functions_00_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/glu_functions_01_bpl.cpp -g++ -o gltbx/glu_functions_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/glu_functions_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o gltbx/glu_functions_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/glu_functions_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/glu_functions_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 gltbx/glu_functions_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -15353,6 +15389,37 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/mtz/dataset.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 591 | IOTBX_ASSERT(iref[0] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ + 591 | IOTBX_ASSERT(iref[0] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 594 | IOTBX_ASSERT(iref[i] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ + 594 | IOTBX_ASSERT(iref[i] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp: In member function ‘void iotbx::mtz::column::set_reals(const scitbx::af::const_ref&, const scitbx::af::const_ref&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp:253:48: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp:253:5: note: in expansion of macro ‘IOTBX_ASSERT’ + 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); + | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -15394,6 +15461,36 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch_bpl.cpp:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 591 | IOTBX_ASSERT(iref[0] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ + 591 | IOTBX_ASSERT(iref[0] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 594 | IOTBX_ASSERT(iref[i] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ + 594 | IOTBX_ASSERT(iref[i] < oldsize); + | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -15446,57 +15543,21 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/mtz/dataset.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 591 | IOTBX_ASSERT(iref[0] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ - 591 | IOTBX_ASSERT(iref[0] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 594 | IOTBX_ASSERT(iref[i] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ - 594 | IOTBX_ASSERT(iref[i] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp: In member function ‘void iotbx::mtz::column::set_reals(const scitbx::af::const_ref&, const scitbx::af::const_ref&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp:253:48: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp:253:5: note: in expansion of macro ‘IOTBX_ASSERT’ - 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); - | ^~~~~~~~~~~~ g++ -o iotbx/mtz/dataset_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset_bpl.cpp -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 591 | IOTBX_ASSERT(iref[0] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ - 591 | IOTBX_ASSERT(iref[0] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 594 | IOTBX_ASSERT(iref[i] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ - 594 | IOTBX_ASSERT(iref[i] < oldsize); - | ^~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /usr/include/boost/assert.hpp:58, + from /usr/include/boost/smart_ptr/shared_array.hpp:23, + from /usr/include/boost/shared_array.hpp:17, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:9, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:13: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::batch; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch_bpl.cpp:78:60: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +g++ -o iotbx/mtz/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, @@ -15540,6 +15601,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/mtz/object.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -15592,21 +15655,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/mtz/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/ext.cpp +g++ -o iotbx/mtz/object_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch_bpl.cpp:6: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); @@ -15624,28 +15676,19 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ -g++ -o iotbx/mtz/object.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp -g++ -o iotbx/mtz/object_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/smart_ptr/shared_array.hpp:23, - from /usr/include/boost/shared_array.hpp:17, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:9, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:13: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::batch; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch_bpl.cpp:78:60: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -g++ -o iotbx/pdb/atom_selection.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/atom_selection.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/pdb/common_residue_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/common_residue_names_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column_bpl.cpp:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); @@ -15663,19 +15706,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ +g++ -o iotbx/pdb/atom_selection.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/atom_selection.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/common_residue_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/common_residue_names_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column_bpl.cpp:6: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); @@ -15693,14 +15729,24 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ +In file included from /usr/include/boost/assert.hpp:58, + from /usr/include/boost/smart_ptr/shared_array.hpp:23, + from /usr/include/boost/shared_array.hpp:17, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:9, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:13: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::column; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column_bpl.cpp:76:60: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/namespace.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/atom_selection.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/sym_equiv.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/asu.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:5: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -15727,18 +15773,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/smart_ptr/shared_array.hpp:23, - from /usr/include/boost/shared_array.hpp:17, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:9, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:13: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::column; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column_bpl.cpp:76:60: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -15765,13 +15799,14 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/pdb/construct_hierarchy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/construct_hierarchy.cpp In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/sym_equiv.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/asu.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:5: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/namespace.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/atom_selection.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -15824,6 +15859,36 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/construct_hierarchy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/construct_hierarchy.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, @@ -15853,21 +15918,46 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/smart_ptr/shared_array.hpp:23, - from /usr/include/boost/shared_array.hpp:17, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:9, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:13: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::crystal; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal_bpl.cpp:42:60: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -g++ -o iotbx/pdb/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 591 | IOTBX_ASSERT(iref[0] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ + 591 | IOTBX_ASSERT(iref[0] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 594 | IOTBX_ASSERT(iref[i] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ + 594 | IOTBX_ASSERT(iref[i] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp: In member function ‘void iotbx::mtz::object::replace_miller_indices(const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:433:40: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:433:5: note: in expansion of macro ‘IOTBX_ASSERT’ + 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:435:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 435 | for(int i_refl=0;i_refl iotbx::mtz::object::extract_integers(const scitbx::af::const_ref&, const char*) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:624:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 624 | for(int i=0;i iotbx::mtz::object::extract_reals(const scitbx::af::const_ref&, const char*) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:684:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 684 | for(int i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::crystal; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal_bpl.cpp:42:60: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -15929,72 +16031,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 591 | IOTBX_ASSERT(iref[0] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ - 591 | IOTBX_ASSERT(iref[0] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 594 | IOTBX_ASSERT(iref[i] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ - 594 | IOTBX_ASSERT(iref[i] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp: In member function ‘void iotbx::mtz::object::replace_miller_indices(const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:433:40: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:433:5: note: in expansion of macro ‘IOTBX_ASSERT’ - 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:435:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 435 | for(int i_refl=0;i_refl iotbx::mtz::object::extract_integers(const scitbx::af::const_ref&, const char*) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:624:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 624 | for(int i=0;i iotbx::mtz::object::extract_reals(const scitbx::af::const_ref&, const char*) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:684:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 684 | for(int i=0;i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 157 | std::auto_ptr @@ -16387,19 +16424,109 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +g++ -o iotbx/pdb/hybrid_36_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hybrid_36_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:13: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h: At global scope: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | std::auto_ptr + | ^~~~~~~~ +In file included from /usr/include/c++/13/memory:78, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/misc.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_flags.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:4: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:163:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 163 | std::auto_ptr + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp: In function ‘void iotbx::pdb::hierarchy::atoms::bpl_wrap()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:84:17: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 84 | std::auto_ptr, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +gcc -o iotbx/pdb/hybrid_36_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hybrid_36_c.c +g++ -o iotbx/pdb/hybrid_36_cpp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hybrid_36_cpp.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_ext.cpp:11: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | std::auto_ptr + | ^~~~~~~~ +In file included from /usr/include/c++/13/memory:78, + from /usr/include/boost/config/no_tr1/memory.hpp:21, + from /usr/include/boost/get_pointer.hpp:14, + from /usr/include/boost/python/object/pointer_holder.hpp:11, + from /usr/include/boost/python/to_python_indirect.hpp:10, + from /usr/include/boost/python/converter/arg_to_python.hpp:10, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object/class.hpp:9, + from /usr/include/boost/python/class.hpp:13, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_ext.cpp:4: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:163:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 163 | std::auto_ptr + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /usr/include/boost/assert.hpp:58, + from /usr/include/boost/function/function_base.hpp:28, + from /usr/include/boost/function/detail/prologue.hpp:18, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/converter/arg_to_python_base.hpp:7, + from /usr/include/boost/python/converter/arg_to_python.hpp:14, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object/class.hpp:9, + from /usr/include/boost/python/class.hpp:13, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::pdb::hierarchy::atom; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:87:36: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::pdb::hierarchy::atom_with_labels; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:91:44: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] g++ -o iotbx/pdb/hybrid_36_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable iotbx/pdb/hybrid_36_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/input.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/input_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:2: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:9: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] - 115 | if (dexp <= ad_hoc_limits::max_digit_count) { - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 653 | if (iw+1 != ed.size()) { - | ~~~~~^~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -16487,6 +16599,20 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:9: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] + 115 | if (dexp <= ad_hoc_limits::max_digit_count) { + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 653 | if (iw+1 != ed.size()) { + | ~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/variant.hpp:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:7: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: @@ -16498,30 +16624,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 704 | while (pos < internal_file_len) { | ~~~~^~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_ext.cpp:11: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | std::auto_ptr - | ^~~~~~~~ -In file included from /usr/include/c++/13/memory:78, - from /usr/include/boost/config/no_tr1/memory.hpp:21, - from /usr/include/boost/get_pointer.hpp:14, - from /usr/include/boost/python/object/pointer_holder.hpp:11, - from /usr/include/boost/python/to_python_indirect.hpp:10, - from /usr/include/boost/python/converter/arg_to_python.hpp:10, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object/class.hpp:9, - from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_ext.cpp:4: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:163:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 163 | std::auto_ptr - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/file_utils.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input.cpp:3: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: @@ -16540,6 +16642,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | if (j < size) { | ~~^~~~~~ +g++ -o iotbx/pdb/input_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input_write.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/overall_counts.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/overall_counts.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -16575,29 +16681,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:13: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h: At global scope: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | std::auto_ptr - | ^~~~~~~~ -In file included from /usr/include/c++/13/memory:78, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/misc.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_flags.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:4: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:163:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 163 | std::auto_ptr - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -16624,55 +16707,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp: In function ‘void iotbx::pdb::hierarchy::atoms::bpl_wrap()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:84:17: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 84 | std::auto_ptr, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -g++ -o iotbx/pdb/overall_counts.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/overall_counts.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/function/function_base.hpp:28, - from /usr/include/boost/function/detail/prologue.hpp:18, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/converter/arg_to_python_base.hpp:7, - from /usr/include/boost/python/converter/arg_to_python.hpp:14, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object/class.hpp:9, - from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:6: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::pdb::hierarchy::atom; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:87:36: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::pdb::hierarchy::atom_with_labels; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:91:44: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -g++ -o iotbx/pdb/rna_dna_atom_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/rna_dna_atom_names_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -16733,6 +16767,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/rna_dna_atom_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/rna_dna_atom_names_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/write_utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/write_utils.cpp @@ -16804,15 +16840,33 @@ 43 | "Failure writing to file: \"" + file_name + "\""); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/write_utils.cpp:42:7: note: in C++11 destructors default to ‘noexcept’ +g++ -o iotbx/pdb/hybrid_36_fem -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread iotbx/pdb/hybrid_36_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o iotbx/pdb/xray_structure_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/xray_structure_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/pdb/hybrid_36_fem -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread iotbx/pdb/hybrid_36_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o iotbx/shelx/shelx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/shelx/shelx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/wildcard_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/wildcard_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/xplor/boost_python/xplor_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/xplor/boost_python/xplor_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/xray_structure.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/xray_structure_bpl.cpp:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] g++ -o lib/libann_adaptor.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libann_adaptor.so.0 annlib_adaptbx/ann/ann_adaptor.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lann-cctbx Create symlinks for: 'lib/libann_adaptor.so.0.0.1' 'lib/libann_adaptor.so.0'->'lib/libann_adaptor.so.0.0.1' @@ -16838,33 +16892,12 @@ 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_ext.so.0 boost_adaptbx/graph/graph_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/xray_structure.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/xray_structure_bpl.cpp:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] Create symlinks for: 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' +g++ -o lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_maximum_clique_ext.so.0 boost_adaptbx/graph/maximum_clique_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/boost_adaptbx_graph_metric_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_metric_ext.so.0 boost_adaptbx/graph/metric_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/boost_adaptbx_graph_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_ext.so.0'->'lib/boost_adaptbx_graph_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_ext.so'->'lib/boost_adaptbx_graph_ext.so.0.0.1' Create symlinks for: 'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' 'lib/boost_adaptbx_graph_metric_ext.so.0'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' 'lib/boost_adaptbx_graph_metric_ext.so'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' @@ -16874,58 +16907,61 @@ 'lib/boost_adaptbx_graph_maximum_clique_ext.so.0'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' 'lib/boost_adaptbx_graph_maximum_clique_ext.so'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' g++ -o lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_python_streambuf_test_ext.so.0 boost_adaptbx/tests/python_streambuf_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' - 'lib/boost_adaptbx_python_streambuf_test_ext.so.0'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' - 'lib/boost_adaptbx_python_streambuf_test_ext.so'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' -g++ -o lib/boost_optional_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_optional_ext.so.0 boost_adaptbx/optional_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/boost_adaptbx_graph_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_ext.so.0'->'lib/boost_adaptbx_graph_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_ext.so'->'lib/boost_adaptbx_graph_ext.so.0.0.1' +Create symlinks for: 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' Create symlinks for: 'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' 'lib/boost_adaptbx_graph_utility_ext.so.0'->'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' 'lib/boost_adaptbx_graph_utility_ext.so'->'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' +g++ -o lib/boost_optional_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_optional_ext.so.0 boost_adaptbx/optional_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' + 'lib/boost_adaptbx_python_streambuf_test_ext.so.0'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' + 'lib/boost_adaptbx_python_streambuf_test_ext.so'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' g++ -o lib/boost_python_hybrid_times_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_hybrid_times_ext.so.0 boost_adaptbx/hybrid_times_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' g++ -o lib/boost_python_meta_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_meta_ext.so.0 boost_adaptbx/meta_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/boost_python_hybrid_times_ext.so.0.0.1' - 'lib/boost_python_hybrid_times_ext.so.0'->'lib/boost_python_hybrid_times_ext.so.0.0.1' - 'lib/boost_python_hybrid_times_ext.so'->'lib/boost_python_hybrid_times_ext.so.0.0.1' g++ -o lib/boost_rational_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_rational_ext.so.0 boost_adaptbx/rational_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/boost_optional_ext.so.0.0.1' 'lib/boost_optional_ext.so.0'->'lib/boost_optional_ext.so.0.0.1' 'lib/boost_optional_ext.so'->'lib/boost_optional_ext.so.0.0.1' g++ -o lib/boost_tuple_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_tuple_ext.so.0 boost_adaptbx/tuple_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/boost_python_hybrid_times_ext.so.0.0.1' + 'lib/boost_python_hybrid_times_ext.so.0'->'lib/boost_python_hybrid_times_ext.so.0.0.1' + 'lib/boost_python_hybrid_times_ext.so'->'lib/boost_python_hybrid_times_ext.so.0.0.1' g++ -o lib/cbflib_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cbflib_ext.so.0 cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lcbf-private -lcbf -lboost_thread -lboost_system -lboost_python312 -lm -lhdf5 -Create symlinks for: 'lib/boost_python_meta_ext.so.0.0.1' - 'lib/boost_python_meta_ext.so.0'->'lib/boost_python_meta_ext.so.0.0.1' - 'lib/boost_python_meta_ext.so'->'lib/boost_python_meta_ext.so.0.0.1' Create symlinks for: 'lib/boost_tuple_ext.so.0.0.1' 'lib/boost_tuple_ext.so.0'->'lib/boost_tuple_ext.so.0.0.1' 'lib/boost_tuple_ext.so'->'lib/boost_tuple_ext.so.0.0.1' g++ -o lib/libccp4io.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libccp4io.so.0 ccp4io_adaptbx/fortran_call_stubs.o ccp4io_adaptbx/printf_wrappers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lm -lccp4c +Create symlinks for: 'lib/boost_rational_ext.so.0.0.1' + 'lib/boost_rational_ext.so.0'->'lib/boost_rational_ext.so.0.0.1' + 'lib/boost_rational_ext.so'->'lib/boost_rational_ext.so.0.0.1' +Create symlinks for: 'lib/boost_python_meta_ext.so.0.0.1' + 'lib/boost_python_meta_ext.so.0'->'lib/boost_python_meta_ext.so.0.0.1' + 'lib/boost_python_meta_ext.so'->'lib/boost_python_meta_ext.so.0.0.1' g++ -o scitbx/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/utils.cpp +g++ -o scitbx/boost_python/slice.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/slice.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/utils.cpp Create symlinks for: 'lib/libccp4io.so.0.0.1' 'lib/libccp4io.so.0'->'lib/libccp4io.so.0.0.1' 'lib/libccp4io.so'->'lib/libccp4io.so.0.0.1' g++ -o lib/ccp4io_adaptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=ccp4io_adaptbx_ext.so.0 ccp4io_adaptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lccp4io -lccp4c -lssm -lmmdb2 -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/boost_rational_ext.so.0.0.1' - 'lib/boost_rational_ext.so.0'->'lib/boost_rational_ext.so.0.0.1' - 'lib/boost_rational_ext.so'->'lib/boost_rational_ext.so.0.0.1' +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/cbflib_ext.so.0.0.1' 'lib/cbflib_ext.so.0'->'lib/cbflib_ext.so.0.0.1' 'lib/cbflib_ext.so'->'lib/cbflib_ext.so.0.0.1' -g++ -o scitbx/boost_python/slice.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/slice.cpp -g++ -o scitbx/array_family/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/utils.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/cma_es_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cma_es_ext.so.0 cma_es/cma_es_ext.o cma_es/cma/cmaes.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/ccp4io_adaptbx_ext.so.0.0.1' 'lib/ccp4io_adaptbx_ext.so.0'->'lib/ccp4io_adaptbx_ext.so.0.0.1' 'lib/ccp4io_adaptbx_ext.so'->'lib/ccp4io_adaptbx_ext.so.0.0.1' -g++ -o lib/dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_ext.so.0 dxtbx/src/dxtbx/boost_python/ext.o dxtbx/src/dxtbx/boost_python/compression.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python312 -lcbf Create symlinks for: 'lib/cma_es_ext.so.0.0.1' 'lib/cma_es_ext.so.0'->'lib/cma_es_ext.so.0.0.1' 'lib/cma_es_ext.so'->'lib/cma_es_ext.so.0.0.1' +g++ -o lib/dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_ext.so.0 dxtbx/src/dxtbx/boost_python/ext.o dxtbx/src/dxtbx/boost_python/compression.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python312 -lcbf g++ -o lib/dxtbx_format_image_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_image_ext.so.0 dxtbx/src/dxtbx/format/boost_python/image_ext.o dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python312 -lcbf -lhdf5 Create symlinks for: 'lib/dxtbx_ext.so.0.0.1' 'lib/dxtbx_ext.so.0'->'lib/dxtbx_ext.so.0.0.1' @@ -17056,280 +17092,280 @@ 'lib/fable_ext.so'->'lib/fable_ext.so.0.0.1' g++ -o lib/iotbx_ccp4_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_ccp4_map_ext.so.0 iotbx/ccp4_map/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lccp4c -lboost_thread -lboost_system -lboost_python312 -lm g++ -o ucif/cifParser.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ucif/cifParser.cpp -Create symlinks for: 'lib/iotbx_ccp4_map_ext.so.0.0.1' - 'lib/iotbx_ccp4_map_ext.so.0'->'lib/iotbx_ccp4_map_ext.so.0.0.1' - 'lib/iotbx_ccp4_map_ext.so'->'lib/iotbx_ccp4_map_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o ucif/cifLexer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ucif/cifLexer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/iotbx_ccp4_map_ext.so.0.0.1' + 'lib/iotbx_ccp4_map_ext.so.0'->'lib/iotbx_ccp4_map_ext.so.0.0.1' + 'lib/iotbx_ccp4_map_ext.so'->'lib/iotbx_ccp4_map_ext.so.0.0.1' g++ -o lib/iotbx_detectors_bruker_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_bruker_ext.so.0 iotbx/detectors/bruker_ext.o iotbx/detectors/bruker.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/dxtbx_imageset_ext.so.0.0.1' + 'lib/dxtbx_imageset_ext.so.0'->'lib/dxtbx_imageset_ext.so.0.0.1' + 'lib/dxtbx_imageset_ext.so'->'lib/dxtbx_imageset_ext.so.0.0.1' Create symlinks for: 'lib/iotbx_detectors_bruker_ext.so.0.0.1' 'lib/iotbx_detectors_bruker_ext.so.0'->'lib/iotbx_detectors_bruker_ext.so.0.0.1' 'lib/iotbx_detectors_bruker_ext.so'->'lib/iotbx_detectors_bruker_ext.so.0.0.1' g++ -o lib/iotbx_detectors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_ext.so.0 iotbx/detectors/detectors_ext.o iotbx/detectors/image_divider.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/dxtbx_imageset_ext.so.0.0.1' - 'lib/dxtbx_imageset_ext.so.0'->'lib/dxtbx_imageset_ext.so.0.0.1' - 'lib/dxtbx_imageset_ext.so'->'lib/dxtbx_imageset_ext.so.0.0.1' -Create symlinks for: 'lib/iotbx_detectors_ext.so.0.0.1' - 'lib/iotbx_detectors_ext.so.0'->'lib/iotbx_detectors_ext.so.0.0.1' - 'lib/iotbx_detectors_ext.so'->'lib/iotbx_detectors_ext.so.0.0.1' g++ -o lib/iotbx_dsn6_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dsn6_map_ext.so.0 iotbx/dsn6/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/iotbx_dtrek_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dtrek_ext.so.0 iotbx/misc/boost_python/dtrek_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/iotbx_dsn6_map_ext.so.0.0.1' 'lib/iotbx_dsn6_map_ext.so.0'->'lib/iotbx_dsn6_map_ext.so.0.0.1' 'lib/iotbx_dsn6_map_ext.so'->'lib/iotbx_dsn6_map_ext.so.0.0.1' -g++ -o lib/libiotbx_mtz.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_mtz.so.0 iotbx/mtz/object.o iotbx/mtz/crystal.o iotbx/mtz/dataset.o iotbx/mtz/column.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lccp4io -lccp4c -lm -lboost_thread -lboost_system +g++ -o lib/iotbx_dtrek_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dtrek_ext.so.0 iotbx/misc/boost_python/dtrek_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/iotbx_dtrek_ext.so.0.0.1' 'lib/iotbx_dtrek_ext.so.0'->'lib/iotbx_dtrek_ext.so.0.0.1' 'lib/iotbx_dtrek_ext.so'->'lib/iotbx_dtrek_ext.so.0.0.1' +Create symlinks for: 'lib/iotbx_detectors_ext.so.0.0.1' + 'lib/iotbx_detectors_ext.so.0'->'lib/iotbx_detectors_ext.so.0.0.1' + 'lib/iotbx_detectors_ext.so'->'lib/iotbx_detectors_ext.so.0.0.1' +g++ -o lib/libiotbx_mtz.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_mtz.so.0 iotbx/mtz/object.o iotbx/mtz/crystal.o iotbx/mtz/dataset.o iotbx/mtz/column.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lccp4io -lccp4c -lm -lboost_thread -lboost_system g++ -o lib/iotbx_scalepack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_scalepack_ext.so.0 iotbx/misc/boost_python/scalepack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/iotbx_wildcard_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_wildcard_ext.so.0 iotbx/wildcard_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/iotbx_shelx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_shelx_ext.so.0 iotbx/shelx/shelx_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/iotbx_wildcard_ext.so.0.0.1' + 'lib/iotbx_wildcard_ext.so.0'->'lib/iotbx_wildcard_ext.so.0.0.1' + 'lib/iotbx_wildcard_ext.so'->'lib/iotbx_wildcard_ext.so.0.0.1' Create symlinks for: 'lib/iotbx_scalepack_ext.so.0.0.1' 'lib/iotbx_scalepack_ext.so.0'->'lib/iotbx_scalepack_ext.so.0.0.1' 'lib/iotbx_scalepack_ext.so'->'lib/iotbx_scalepack_ext.so.0.0.1' Create symlinks for: 'lib/libiotbx_mtz.so.0.0.1' 'lib/libiotbx_mtz.so.0'->'lib/libiotbx_mtz.so.0.0.1' 'lib/libiotbx_mtz.so'->'lib/libiotbx_mtz.so.0.0.1' +Create symlinks for: 'lib/iotbx_shelx_ext.so.0.0.1' + 'lib/iotbx_shelx_ext.so.0'->'lib/iotbx_shelx_ext.so.0.0.1' + 'lib/iotbx_shelx_ext.so'->'lib/iotbx_shelx_ext.so.0.0.1' g++ -o spotfinder/dxtbx_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/libdistl.cpp -Create symlinks for: 'lib/iotbx_wildcard_ext.so.0.0.1' - 'lib/iotbx_wildcard_ext.so.0'->'lib/iotbx_wildcard_ext.so.0.0.1' - 'lib/iotbx_wildcard_ext.so'->'lib/iotbx_wildcard_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/dxtbx_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/distl.cpp g++ -o spotfinder/core_toolbox/spot.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/spot.cpp g++ -o spotfinder/core_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/libdistl.cpp +g++ -o spotfinder/core_toolbox/hough.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/hough.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/iotbx_shelx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_shelx_ext.so.0 iotbx/shelx/shelx_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/iotbx_cif_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_cif_ext.so.0 iotbx/cif/boost_python/cif_ext.o ucif/cifParser.o ucif/cifLexer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 -lm -lantlr3c -g++ -o lib/libiotbx_pdb.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_pdb.so.0 iotbx/pdb/hybrid_36_c.o iotbx/pdb/hybrid_36_cpp.o iotbx/pdb/utils.o iotbx/pdb/write_utils.o iotbx/pdb/hierarchy.o iotbx/pdb/hierarchy_select.o iotbx/pdb/hierarchy_atoms.o iotbx/pdb/construct_hierarchy.o iotbx/pdb/overall_counts.o iotbx/pdb/hierarchy_write.o iotbx/pdb/atom_selection.o iotbx/pdb/input.o iotbx/pdb/input_write.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -Create symlinks for: 'lib/iotbx_shelx_ext.so.0.0.1' - 'lib/iotbx_shelx_ext.so.0'->'lib/iotbx_shelx_ext.so.0.0.1' - 'lib/iotbx_shelx_ext.so'->'lib/iotbx_shelx_ext.so.0.0.1' -g++ -o spotfinder/core_toolbox/hough.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/hough.cpp +g++ -o spotfinder/core_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/distl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libscitbx_boost_python.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -shared -rdynamic -std=c++14 -Wl,-soname=libscitbx_boost_python.so.0 scitbx/boost_python/utils.o scitbx/boost_python/slice.o scitbx/array_family/boost_python/utils.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 Create symlinks for: 'lib/iotbx_cif_ext.so.0.0.1' 'lib/iotbx_cif_ext.so.0'->'lib/iotbx_cif_ext.so.0.0.1' 'lib/iotbx_cif_ext.so'->'lib/iotbx_cif_ext.so.0.0.1' -g++ -o spotfinder/core_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/distl.cpp +g++ -o spotfinder/core_toolbox/spotfilter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/spotfilter.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libscitbx_boost_python.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -shared -rdynamic -std=c++14 -Wl,-soname=libscitbx_boost_python.so.0 scitbx/boost_python/utils.o scitbx/boost_python/slice.o scitbx/array_family/boost_python/utils.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python312 Create symlinks for: 'lib/libscitbx_boost_python.so.0.0.1' 'lib/libscitbx_boost_python.so.0'->'lib/libscitbx_boost_python.so.0.0.1' 'lib/libscitbx_boost_python.so'->'lib/libscitbx_boost_python.so.0.0.1' g++ -o lib/cctbx_adptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adptbx_ext.so.0 cctbx/adptbx/boost_python/adptbx_ext.o cctbx/adptbx/boost_python/hirshfeld.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/libiotbx_pdb.so.0.0.1' - 'lib/libiotbx_pdb.so.0'->'lib/libiotbx_pdb.so.0.0.1' - 'lib/libiotbx_pdb.so'->'lib/libiotbx_pdb.so.0.0.1' -g++ -o lib/cctbx_asymmetric_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_asymmetric_map_ext.so.0 cctbx/maptbx/asymmetric_map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/iotbx_xplor_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_xplor_ext.so.0 iotbx/xplor/boost_python/xplor_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_xplor -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/iotbx_xplor_ext.so.0.0.1' + 'lib/iotbx_xplor_ext.so.0'->'lib/iotbx_xplor_ext.so.0.0.1' + 'lib/iotbx_xplor_ext.so'->'lib/iotbx_xplor_ext.so.0.0.1' +g++ -o lib/gltbx_util_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_util_ext.so.0 gltbx/util_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm Create symlinks for: 'lib/cctbx_adptbx_ext.so.0.0.1' 'lib/cctbx_adptbx_ext.so.0'->'lib/cctbx_adptbx_ext.so.0.0.1' 'lib/cctbx_adptbx_ext.so'->'lib/cctbx_adptbx_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_neutron_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_neutron_ext.so.0 cctbx/eltbx/boost_python/neutron_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/gltbx_util_ext.so.0.0.1' + 'lib/gltbx_util_ext.so.0'->'lib/gltbx_util_ext.so.0.0.1' + 'lib/gltbx_util_ext.so'->'lib/gltbx_util_ext.so.0.0.1' g++ -o lib/cctbx_covariance_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_covariance_ext.so.0 cctbx/covariance/boost_python/covariance_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_asymmetric_map_ext.so.0.0.1' - 'lib/cctbx_asymmetric_map_ext.so.0'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' - 'lib/cctbx_asymmetric_map_ext.so'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' -g++ -o lib/dxtbx_flumpy.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_flumpy.so.0 dxtbx/src/dxtbx/boost_python/flumpy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python312 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python312 -lcbf -lhdf5 +Create symlinks for: 'lib/cctbx_eltbx_neutron_ext.so.0.0.1' + 'lib/cctbx_eltbx_neutron_ext.so.0'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' + 'lib/cctbx_eltbx_neutron_ext.so'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' +g++ -o lib/cctbx_uctbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_uctbx_ext.so.0 cctbx/uctbx/boost_python/uctbx_ext.o cctbx/uctbx/boost_python/fast_minimum_reduction.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_tiny_pse_ext.so.0 cctbx/eltbx/boost_python/tiny_pse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/cctbx_covariance_ext.so.0.0.1' 'lib/cctbx_covariance_ext.so.0'->'lib/cctbx_covariance_ext.so.0.0.1' 'lib/cctbx_covariance_ext.so'->'lib/cctbx_covariance_ext.so.0.0.1' g++ -o lib/cctbx_multipolar_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_multipolar_ext.so.0 cctbx/multipolar/aspherical_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' + 'lib/cctbx_eltbx_tiny_pse_ext.so.0'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' + 'lib/cctbx_eltbx_tiny_pse_ext.so'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' +g++ -o lib/libiotbx_pdb.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_pdb.so.0 iotbx/pdb/hybrid_36_c.o iotbx/pdb/hybrid_36_cpp.o iotbx/pdb/utils.o iotbx/pdb/write_utils.o iotbx/pdb/hierarchy.o iotbx/pdb/hierarchy_select.o iotbx/pdb/hierarchy_atoms.o iotbx/pdb/construct_hierarchy.o iotbx/pdb/overall_counts.o iotbx/pdb/hierarchy_write.o iotbx/pdb/atom_selection.o iotbx/pdb/input.o iotbx/pdb/input_write.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o lib/gltbx_quadrics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_quadrics_ext.so.0 gltbx/quadrics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm Create symlinks for: 'lib/cctbx_multipolar_ext.so.0.0.1' 'lib/cctbx_multipolar_ext.so.0'->'lib/cctbx_multipolar_ext.so.0.0.1' 'lib/cctbx_multipolar_ext.so'->'lib/cctbx_multipolar_ext.so.0.0.1' -g++ -o lib/iotbx_pdb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_ext.so.0 iotbx/pdb/ext.o iotbx/pdb/hybrid_36_bpl.o iotbx/pdb/common_residue_names_bpl.o iotbx/pdb/rna_dna_atom_names_bpl.o iotbx/pdb/input_bpl.o iotbx/pdb/xray_structure_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_icsd_radii_ext.so.0 cctbx/eltbx/boost_python/icsd_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/gltbx_fonts_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_fonts_ext.so.0 gltbx/fonts_ext.o gltbx/font_ucs_8x13.o gltbx/font_ucs_9x15.o gltbx/font_ucs_10x20.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm -Create symlinks for: 'lib/dxtbx_flumpy.so.0.0.1' - 'lib/dxtbx_flumpy.so.0'->'lib/dxtbx_flumpy.so.0.0.1' - 'lib/dxtbx_flumpy.so'->'lib/dxtbx_flumpy.so.0.0.1' -g++ -o lib/cctbx_emma_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_emma_ext.so.0 cctbx/boost_python/emma_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/gltbx_fonts_ext.so.0.0.1' - 'lib/gltbx_fonts_ext.so.0'->'lib/gltbx_fonts_ext.so.0.0.1' - 'lib/gltbx_fonts_ext.so'->'lib/gltbx_fonts_ext.so.0.0.1' -g++ -o lib/cctbx_french_wilson_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_french_wilson_ext.so.0 cctbx/boost_python/french_wilson_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' - 'lib/cctbx_eltbx_icsd_radii_ext.so.0'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' - 'lib/cctbx_eltbx_icsd_radii_ext.so'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_xray_scattering_ext.so.0 cctbx/eltbx/boost_python/xray_scattering_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_uctbx_ext.so.0.0.1' + 'lib/cctbx_uctbx_ext.so.0'->'lib/cctbx_uctbx_ext.so.0.0.1' + 'lib/cctbx_uctbx_ext.so'->'lib/cctbx_uctbx_ext.so.0.0.1' g++ -o lib/cctbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_masks_ext.so.0 cctbx/masks/boost_python/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_masks_ext.so.0.0.1' + 'lib/cctbx_masks_ext.so.0'->'lib/cctbx_masks_ext.so.0.0.1' + 'lib/cctbx_masks_ext.so'->'lib/cctbx_masks_ext.so.0.0.1' +g++ -o lib/cctbx_emma_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_emma_ext.so.0 cctbx/boost_python/emma_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' + 'lib/cctbx_eltbx_xray_scattering_ext.so.0'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' + 'lib/cctbx_eltbx_xray_scattering_ext.so'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_attenuation_coefficient_ext.so.0 cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/gltbx_quadrics_ext.so.0.0.1' + 'lib/gltbx_quadrics_ext.so.0'->'lib/gltbx_quadrics_ext.so.0.0.1' + 'lib/gltbx_quadrics_ext.so'->'lib/gltbx_quadrics_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_chemical_elements_ext.so.0 cctbx/eltbx/boost_python/chemical_elements_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/libiotbx_pdb.so.0.0.1' + 'lib/libiotbx_pdb.so.0'->'lib/libiotbx_pdb.so.0.0.1' + 'lib/libiotbx_pdb.so'->'lib/libiotbx_pdb.so.0.0.1' +Create symlinks for: 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' + 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' + 'lib/cctbx_eltbx_attenuation_coefficient_ext.so'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' + 'lib/cctbx_eltbx_chemical_elements_ext.so.0'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' + 'lib/cctbx_eltbx_chemical_elements_ext.so'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_emma_ext.so.0.0.1' 'lib/cctbx_emma_ext.so.0'->'lib/cctbx_emma_ext.so.0.0.1' 'lib/cctbx_emma_ext.so'->'lib/cctbx_emma_ext.so.0.0.1' +g++ -o lib/iotbx_pdb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_ext.so.0 iotbx/pdb/ext.o iotbx/pdb/hybrid_36_bpl.o iotbx/pdb/common_residue_names_bpl.o iotbx/pdb/rna_dna_atom_names_bpl.o iotbx/pdb/input_bpl.o iotbx/pdb/xray_structure_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/cctbx_french_wilson_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_french_wilson_ext.so.0 cctbx/boost_python/french_wilson_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/cctbx_miller_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_miller_ext.so.0 cctbx/miller/boost_python/miller_ext.o cctbx/miller/boost_python/asu.o cctbx/miller/boost_python/bins.o cctbx/miller/boost_python/change_basis.o cctbx/miller/boost_python/expand_to_p1.o cctbx/miller/boost_python/index_generator.o cctbx/miller/boost_python/index_span.o cctbx/miller/boost_python/match_bijvoet_mates.o cctbx/miller/boost_python/match_indices.o cctbx/miller/boost_python/match_multi_indices.o cctbx/miller/boost_python/merge_equivalents.o cctbx/miller/boost_python/phase_integrator.o cctbx/miller/boost_python/phase_transfer.o cctbx/miller/boost_python/sym_equiv.o cctbx/miller/boost_python/f_calc_map.o cctbx/miller/boost_python/lookup_utils.o cctbx/miller/boost_python/amplitude_normalisation.o cctbx/miller/boost_python/randomize_amplitude_and_phase.o cctbx/miller/boost_python/slices.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/iotbx_pdb_ext.so.0.0.1' - 'lib/iotbx_pdb_ext.so.0'->'lib/iotbx_pdb_ext.so.0.0.1' - 'lib/iotbx_pdb_ext.so'->'lib/iotbx_pdb_ext.so.0.0.1' g++ -o lib/cctbx_merging_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_merging_ext.so.0 cctbx/merging/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_french_wilson_ext.so.0.0.1' - 'lib/cctbx_french_wilson_ext.so.0'->'lib/cctbx_french_wilson_ext.so.0.0.1' - 'lib/cctbx_french_wilson_ext.so'->'lib/cctbx_french_wilson_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_sasaki_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_sasaki_ext.so.0 cctbx/eltbx/boost_python/sasaki_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_masks_ext.so.0.0.1' - 'lib/cctbx_masks_ext.so.0'->'lib/cctbx_masks_ext.so.0.0.1' - 'lib/cctbx_masks_ext.so'->'lib/cctbx_masks_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_wavelengths_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_wavelengths_ext.so.0 cctbx/eltbx/boost_python/wavelengths_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/cctbx_merging_ext.so.0.0.1' 'lib/cctbx_merging_ext.so.0'->'lib/cctbx_merging_ext.so.0.0.1' 'lib/cctbx_merging_ext.so'->'lib/cctbx_merging_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_covalent_radii_ext.so.0 cctbx/eltbx/boost_python/covalent_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' - 'lib/cctbx_eltbx_sasaki_ext.so.0'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' - 'lib/cctbx_eltbx_sasaki_ext.so'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' -g++ -o lib/gltbx_util_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_util_ext.so.0 gltbx/util_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm -Create symlinks for: 'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' - 'lib/cctbx_eltbx_wavelengths_ext.so.0'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' - 'lib/cctbx_eltbx_wavelengths_ext.so'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' -g++ -o lib/gltbx_quadrics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_quadrics_ext.so.0 gltbx/quadrics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm -Create symlinks for: 'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' - 'lib/cctbx_eltbx_covalent_radii_ext.so.0'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' - 'lib/cctbx_eltbx_covalent_radii_ext.so'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_fp_fdp_ext.so.0 cctbx/eltbx/boost_python/fp_fdp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/gltbx_util_ext.so.0.0.1' - 'lib/gltbx_util_ext.so.0'->'lib/gltbx_util_ext.so.0.0.1' - 'lib/gltbx_util_ext.so'->'lib/gltbx_util_ext.so.0.0.1' +g++ -o lib/dxtbx_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_model_ext.so.0 dxtbx/src/dxtbx/model/boost_python/beam.o dxtbx/src/dxtbx/model/boost_python/spectrum.o dxtbx/src/dxtbx/model/boost_python/goniometer.o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o dxtbx/src/dxtbx/model/boost_python/panel.o dxtbx/src/dxtbx/model/boost_python/detector.o dxtbx/src/dxtbx/model/boost_python/scan.o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o dxtbx/src/dxtbx/model/boost_python/crystal.o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o dxtbx/src/dxtbx/model/boost_python/experiment.o dxtbx/src/dxtbx/model/boost_python/experiment_list.o dxtbx/src/dxtbx/model/boost_python/model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python312 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python312 -lcbf -lhdf5 +Create symlinks for: 'lib/cctbx_french_wilson_ext.so.0.0.1' + 'lib/cctbx_french_wilson_ext.so.0'->'lib/cctbx_french_wilson_ext.so.0.0.1' + 'lib/cctbx_french_wilson_ext.so'->'lib/cctbx_french_wilson_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_icsd_radii_ext.so.0 cctbx/eltbx/boost_python/icsd_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/iotbx_pdb_ext.so.0.0.1' + 'lib/iotbx_pdb_ext.so.0'->'lib/iotbx_pdb_ext.so.0.0.1' + 'lib/iotbx_pdb_ext.so'->'lib/iotbx_pdb_ext.so.0.0.1' g++ -o lib/cctbx_xray_observations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_observations_ext.so.0 cctbx/xray/observations/boost_python/observations.o cctbx/xray/observations/boost_python/observations_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/iotbx_xplor_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_xplor_ext.so.0 iotbx/xplor/boost_python/xplor_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_xplor -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' + 'lib/cctbx_eltbx_icsd_radii_ext.so.0'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' + 'lib/cctbx_eltbx_icsd_radii_ext.so'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' g++ -o lib/cctbx_sgtbx_asu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_asu_ext.so.0 cctbx/sgtbx/direct_space_asu/proto/asu_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' - 'lib/cctbx_eltbx_fp_fdp_ext.so.0'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' - 'lib/cctbx_eltbx_fp_fdp_ext.so'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' -g++ -o lib/cctbx_geometry_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_restraints_ext.so.0 cctbx/geometry_restraints/geometry_restraints_ext.o cctbx/geometry_restraints/bond_bpl.o cctbx/geometry_restraints/bond_similarity_bpl.o cctbx/geometry_restraints/bond_sorted_bpl.o cctbx/geometry_restraints/nonbonded_bpl.o cctbx/geometry_restraints/nonbonded_sorted_bpl.o cctbx/geometry_restraints/angle_bpl.o cctbx/geometry_restraints/dihedral_bpl.o cctbx/geometry_restraints/chirality_bpl.o cctbx/geometry_restraints/planarity_bpl.o cctbx/geometry_restraints/parallelity_bpl.o cctbx/geometry_restraints/motif_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/gltbx_quadrics_ext.so.0.0.1' - 'lib/gltbx_quadrics_ext.so.0'->'lib/gltbx_quadrics_ext.so.0.0.1' - 'lib/gltbx_quadrics_ext.so'->'lib/gltbx_quadrics_ext.so.0.0.1' -Create symlinks for: 'lib/iotbx_xplor_ext.so.0.0.1' - 'lib/iotbx_xplor_ext.so.0'->'lib/iotbx_xplor_ext.so.0.0.1' - 'lib/iotbx_xplor_ext.so'->'lib/iotbx_xplor_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_chemical_elements_ext.so.0 cctbx/eltbx/boost_python/chemical_elements_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/cctbx_anharmonic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_anharmonic_ext.so.0 cctbx/adptbx/boost_python/anharmonic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/cctbx_xray_observations_ext.so.0.0.1' 'lib/cctbx_xray_observations_ext.so.0'->'lib/cctbx_xray_observations_ext.so.0.0.1' 'lib/cctbx_xray_observations_ext.so'->'lib/cctbx_xray_observations_ext.so.0.0.1' -g++ -o lib/cctbx_crystal_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_crystal_ext.so.0 cctbx/crystal/crystal_ext.o cctbx/crystal/asu_clusters_bpl.o cctbx/crystal/close_packing_bpl.o cctbx/crystal/coordination_sequences_bpl.o cctbx/crystal/direct_space_asu_bpl.o cctbx/crystal/incremental_pairs_bpl.o cctbx/crystal/neighbors_bpl.o cctbx/crystal/pair_tables_bpl.o cctbx/crystal/site_cluster_analysis_bpl.o cctbx/crystal/symmetry_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' - 'lib/cctbx_eltbx_chemical_elements_ext.so.0'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' - 'lib/cctbx_eltbx_chemical_elements_ext.so'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' -g++ -o lib/dxtbx_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_model_ext.so.0 dxtbx/src/dxtbx/model/boost_python/beam.o dxtbx/src/dxtbx/model/boost_python/spectrum.o dxtbx/src/dxtbx/model/boost_python/goniometer.o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o dxtbx/src/dxtbx/model/boost_python/panel.o dxtbx/src/dxtbx/model/boost_python/detector.o dxtbx/src/dxtbx/model/boost_python/scan.o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o dxtbx/src/dxtbx/model/boost_python/crystal.o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o dxtbx/src/dxtbx/model/boost_python/experiment.o dxtbx/src/dxtbx/model/boost_python/experiment_list.o dxtbx/src/dxtbx/model/boost_python/model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python312 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python312 -lcbf -lhdf5 -Create symlinks for: 'lib/cctbx_anharmonic_ext.so.0.0.1' - 'lib/cctbx_anharmonic_ext.so.0'->'lib/cctbx_anharmonic_ext.so.0.0.1' - 'lib/cctbx_anharmonic_ext.so'->'lib/cctbx_anharmonic_ext.so.0.0.1' -g++ -o lib/cctbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_math_ext.so.0 cctbx/math/boost_python/math_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/cctbx_geometry_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_restraints_ext.so.0 cctbx/geometry_restraints/geometry_restraints_ext.o cctbx/geometry_restraints/bond_bpl.o cctbx/geometry_restraints/bond_similarity_bpl.o cctbx/geometry_restraints/bond_sorted_bpl.o cctbx/geometry_restraints/nonbonded_bpl.o cctbx/geometry_restraints/nonbonded_sorted_bpl.o cctbx/geometry_restraints/angle_bpl.o cctbx/geometry_restraints/dihedral_bpl.o cctbx/geometry_restraints/chirality_bpl.o cctbx/geometry_restraints/planarity_bpl.o cctbx/geometry_restraints/parallelity_bpl.o cctbx/geometry_restraints/motif_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/cctbx_anharmonic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_anharmonic_ext.so.0 cctbx/adptbx/boost_python/anharmonic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/cctbx_sgtbx_asu_ext.so.0.0.1' 'lib/cctbx_sgtbx_asu_ext.so.0'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' 'lib/cctbx_sgtbx_asu_ext.so'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' +g++ -o lib/cctbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_math_ext.so.0 cctbx/math/boost_python/math_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_anharmonic_ext.so.0.0.1' + 'lib/cctbx_anharmonic_ext.so.0'->'lib/cctbx_anharmonic_ext.so.0.0.1' + 'lib/cctbx_anharmonic_ext.so'->'lib/cctbx_anharmonic_ext.so.0.0.1' +g++ -o lib/cctbx_crystal_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_crystal_ext.so.0 cctbx/crystal/crystal_ext.o cctbx/crystal/asu_clusters_bpl.o cctbx/crystal/close_packing_bpl.o cctbx/crystal/coordination_sequences_bpl.o cctbx/crystal/direct_space_asu_bpl.o cctbx/crystal/incremental_pairs_bpl.o cctbx/crystal/neighbors_bpl.o cctbx/crystal/pair_tables_bpl.o cctbx/crystal/site_cluster_analysis_bpl.o cctbx/crystal/symmetry_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_math_ext.so.0.0.1' + 'lib/cctbx_math_ext.so.0'->'lib/cctbx_math_ext.so.0.0.1' + 'lib/cctbx_math_ext.so'->'lib/cctbx_math_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_sasaki_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_sasaki_ext.so.0 cctbx/eltbx/boost_python/sasaki_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' + 'lib/cctbx_eltbx_sasaki_ext.so.0'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' + 'lib/cctbx_eltbx_sasaki_ext.so'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' +g++ -o lib/gltbx_glu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_glu_ext.so.0 gltbx/glu_ext.o gltbx/glu_defines_00_bpl.o gltbx/glu_defines_01_bpl.o gltbx/glu_functions_00_bpl.o gltbx/glu_functions_01_bpl.o gltbx/glu_functions_02_bpl.o gltbx/glu_functions_03_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm g++ -o lib/cctbx_adp_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adp_restraints_ext.so.0 cctbx/adp_restraints/adp_restraints_bpl.o cctbx/adp_restraints/adp_restraints_ext.o cctbx/adp_restraints/rigid_bond_bpl.o cctbx/adp_restraints/rigu_bpl.o cctbx/adp_restraints/adp_similarity_bpl.o cctbx/adp_restraints/isotropic_adp_bpl.o cctbx/adp_restraints/aniso_restraints_bpl.o cctbx/adp_restraints/fixed_u_eq_adp_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/cctbx_eltbx_wavelengths_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_wavelengths_ext.so.0 cctbx/eltbx/boost_python/wavelengths_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/cctbx_miller_ext.so.0.0.1' 'lib/cctbx_miller_ext.so.0'->'lib/cctbx_miller_ext.so.0.0.1' 'lib/cctbx_miller_ext.so'->'lib/cctbx_miller_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_math_ext.so.0.0.1' - 'lib/cctbx_math_ext.so.0'->'lib/cctbx_math_ext.so.0.0.1' - 'lib/cctbx_math_ext.so'->'lib/cctbx_math_ext.so.0.0.1' +Create symlinks for: 'lib/gltbx_glu_ext.so.0.0.1' + 'lib/gltbx_glu_ext.so.0'->'lib/gltbx_glu_ext.so.0.0.1' + 'lib/gltbx_glu_ext.so'->'lib/gltbx_glu_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' + 'lib/cctbx_eltbx_wavelengths_ext.so.0'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' + 'lib/cctbx_eltbx_wavelengths_ext.so'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' +g++ -o lib/gltbx_viewer_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_viewer_utils_ext.so.0 gltbx/viewer_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm g++ -o lib/gltbx_gl_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_gl_ext.so.0 gltbx/gl_ext.o gltbx/gl_defines_00_bpl.o gltbx/gl_defines_01_bpl.o gltbx/gl_defines_02_bpl.o gltbx/gl_defines_03_bpl.o gltbx/gl_defines_04_bpl.o gltbx/gl_defines_05_bpl.o gltbx/gl_defines_06_bpl.o gltbx/gl_defines_07_bpl.o gltbx/gl_functions_00_bpl.o gltbx/gl_functions_01_bpl.o gltbx/gl_functions_02_bpl.o gltbx/gl_functions_03_bpl.o gltbx/gl_functions_04_bpl.o gltbx/gl_functions_05_bpl.o gltbx/gl_functions_06_bpl.o gltbx/gl_functions_07_bpl.o gltbx/gl_functions_08_bpl.o gltbx/gl_functions_09_bpl.o gltbx/gl_functions_10_bpl.o gltbx/gl_functions_11_bpl.o gltbx/gl_functions_12_bpl.o gltbx/gl_functions_13_bpl.o gltbx/gl_functions_14_bpl.o gltbx/gl_functions_15_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm -g++ -o lib/iotbx_mtz_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_mtz_ext.so.0 iotbx/mtz/ext.o iotbx/mtz/object_bpl.o iotbx/mtz/crystal_bpl.o iotbx/mtz/dataset_bpl.o iotbx/mtz/column_bpl.o iotbx/mtz/batch_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_mtz -lcctbx -lccp4io -lccp4c -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/gltbx_gl_ext.so.0.0.1' - 'lib/gltbx_gl_ext.so.0'->'lib/gltbx_gl_ext.so.0.0.1' - 'lib/gltbx_gl_ext.so'->'lib/gltbx_gl_ext.so.0.0.1' g++ -o lib/cctbx_statistics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_statistics_ext.so.0 cctbx/boost_python/statistics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/cctbx_statistics_ext.so.0.0.1' 'lib/cctbx_statistics_ext.so.0'->'lib/cctbx_statistics_ext.so.0.0.1' 'lib/cctbx_statistics_ext.so'->'lib/cctbx_statistics_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_covalent_radii_ext.so.0 cctbx/eltbx/boost_python/covalent_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/gltbx_viewer_utils_ext.so.0.0.1' + 'lib/gltbx_viewer_utils_ext.so.0'->'lib/gltbx_viewer_utils_ext.so.0.0.1' + 'lib/gltbx_viewer_utils_ext.so'->'lib/gltbx_viewer_utils_ext.so.0.0.1' g++ -o lib/cctbx_orientation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_orientation_ext.so.0 cctbx/boost_python/orientation_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/iotbx_mtz_ext.so.0.0.1' - 'lib/iotbx_mtz_ext.so.0'->'lib/iotbx_mtz_ext.so.0.0.1' - 'lib/iotbx_mtz_ext.so'->'lib/iotbx_mtz_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' + 'lib/cctbx_eltbx_covalent_radii_ext.so.0'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' + 'lib/cctbx_eltbx_covalent_radii_ext.so'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' g++ -o lib/determine_unit_cell_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=determine_unit_cell_ext.so.0 cctbx/uctbx/determine_unit_cell/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_adp_restraints_ext.so.0.0.1' - 'lib/cctbx_adp_restraints_ext.so.0'->'lib/cctbx_adp_restraints_ext.so.0.0.1' - 'lib/cctbx_adp_restraints_ext.so'->'lib/cctbx_adp_restraints_ext.so.0.0.1' -g++ -o lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_bcr_bcr_ext.so.0 cctbx/maptbx/bcr/bcr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/cctbx_orientation_ext.so.0.0.1' 'lib/cctbx_orientation_ext.so.0'->'lib/cctbx_orientation_ext.so.0.0.1' 'lib/cctbx_orientation_ext.so'->'lib/cctbx_orientation_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_neutron_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_neutron_ext.so.0 cctbx/eltbx/boost_python/neutron_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_crystal_ext.so.0.0.1' - 'lib/cctbx_crystal_ext.so.0'->'lib/cctbx_crystal_ext.so.0.0.1' - 'lib/cctbx_crystal_ext.so'->'lib/cctbx_crystal_ext.so.0.0.1' +g++ -o lib/iotbx_mtz_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_mtz_ext.so.0 iotbx/mtz/ext.o iotbx/mtz/object_bpl.o iotbx/mtz/crystal_bpl.o iotbx/mtz/dataset_bpl.o iotbx/mtz/column_bpl.o iotbx/mtz/batch_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_mtz -lcctbx -lccp4io -lccp4c -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/determine_unit_cell_ext.so.0.0.1' 'lib/determine_unit_cell_ext.so.0'->'lib/determine_unit_cell_ext.so.0.0.1' 'lib/determine_unit_cell_ext.so'->'lib/determine_unit_cell_ext.so.0.0.1' +g++ -o lib/dxtbx_masking_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_masking_ext.so.0 dxtbx/src/dxtbx/masking/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python312 -lcbf -lhdf5 +Create symlinks for: 'lib/gltbx_gl_ext.so.0.0.1' + 'lib/gltbx_gl_ext.so.0'->'lib/gltbx_gl_ext.so.0.0.1' + 'lib/gltbx_gl_ext.so'->'lib/gltbx_gl_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_fp_fdp_ext.so.0 cctbx/eltbx/boost_python/fp_fdp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' + 'lib/cctbx_eltbx_fp_fdp_ext.so.0'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' + 'lib/cctbx_eltbx_fp_fdp_ext.so'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_adp_restraints_ext.so.0.0.1' + 'lib/cctbx_adp_restraints_ext.so.0'->'lib/cctbx_adp_restraints_ext.so.0.0.1' + 'lib/cctbx_adp_restraints_ext.so'->'lib/cctbx_adp_restraints_ext.so.0.0.1' +g++ -o lib/cctbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_array_family_flex_ext.so.0 cctbx/array_family/boost_python/flex_ext.o cctbx/array_family/boost_python/flex_hendrickson_lattman.o cctbx/array_family/boost_python/flex_miller_index.o cctbx/array_family/boost_python/flex_xray_scatterer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/cctbx_translation_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_translation_search_ext.so.0 cctbx/translation_search/boost_python/translation_search_ext.o cctbx/translation_search/boost_python/fast_nv1995.o cctbx/translation_search/boost_python/fast_terms.o cctbx/translation_search/boost_python/symmetry_flags.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/cctbx_uctbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_uctbx_ext.so.0 cctbx/uctbx/boost_python/uctbx_ext.o cctbx/uctbx/boost_python/fast_minimum_reduction.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_eltbx_neutron_ext.so.0.0.1' - 'lib/cctbx_eltbx_neutron_ext.so.0'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' - 'lib/cctbx_eltbx_neutron_ext.so'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_henke_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_henke_ext.so.0 cctbx/eltbx/boost_python/henke_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' - 'lib/cctbx_maptbx_bcr_bcr_ext.so.0'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' - 'lib/cctbx_maptbx_bcr_bcr_ext.so'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_tiny_pse_ext.so.0 cctbx/eltbx/boost_python/tiny_pse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_crystal_ext.so.0.0.1' + 'lib/cctbx_crystal_ext.so.0'->'lib/cctbx_crystal_ext.so.0.0.1' + 'lib/cctbx_crystal_ext.so'->'lib/cctbx_crystal_ext.so.0.0.1' +g++ -o lib/cctbx_dmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_dmtbx_ext.so.0 cctbx/dmtbx/boost_python/dmtbx_ext.o cctbx/dmtbx/boost_python/triplet_phase_relation.o cctbx/dmtbx/boost_python/triplet_generator.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/dxtbx_model_ext.so.0.0.1' 'lib/dxtbx_model_ext.so.0'->'lib/dxtbx_model_ext.so.0.0.1' 'lib/dxtbx_model_ext.so'->'lib/dxtbx_model_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_translation_search_ext.so.0.0.1' 'lib/cctbx_translation_search_ext.so.0'->'lib/cctbx_translation_search_ext.so.0.0.1' 'lib/cctbx_translation_search_ext.so'->'lib/cctbx_translation_search_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_eltbx_henke_ext.so.0.0.1' - 'lib/cctbx_eltbx_henke_ext.so.0'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' - 'lib/cctbx_eltbx_henke_ext.so'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' - 'lib/cctbx_eltbx_tiny_pse_ext.so.0'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' - 'lib/cctbx_eltbx_tiny_pse_ext.so'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_uctbx_ext.so.0.0.1' - 'lib/cctbx_uctbx_ext.so.0'->'lib/cctbx_uctbx_ext.so.0.0.1' - 'lib/cctbx_uctbx_ext.so'->'lib/cctbx_uctbx_ext.so.0.0.1' -g++ -o lib/cctbx_dmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_dmtbx_ext.so.0 cctbx/dmtbx/boost_python/dmtbx_ext.o cctbx/dmtbx/boost_python/triplet_phase_relation.o cctbx/dmtbx/boost_python/triplet_generator.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/cctbx_symmetry_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_symmetry_search_ext.so.0 cctbx/symmetry_search/boost_python/symmetry_search_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_xray_scattering_ext.so.0 cctbx/eltbx/boost_python/xray_scattering_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_attenuation_coefficient_ext.so.0 cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/cctbx_geometry_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_ext.so.0 cctbx/geometry/boost_python/geometry_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/gltbx_glu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_glu_ext.so.0 gltbx/glu_ext.o gltbx/glu_defines_00_bpl.o gltbx/glu_defines_01_bpl.o gltbx/glu_functions_00_bpl.o gltbx/glu_functions_01_bpl.o gltbx/glu_functions_02_bpl.o gltbx/glu_functions_03_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm +Create symlinks for: 'lib/dxtbx_masking_ext.so.0.0.1' + 'lib/dxtbx_masking_ext.so.0'->'lib/dxtbx_masking_ext.so.0.0.1' + 'lib/dxtbx_masking_ext.so'->'lib/dxtbx_masking_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_dmtbx_ext.so.0.0.1' + 'lib/cctbx_dmtbx_ext.so.0'->'lib/cctbx_dmtbx_ext.so.0.0.1' + 'lib/cctbx_dmtbx_ext.so'->'lib/cctbx_dmtbx_ext.so.0.0.1' +g++ -o lib/gltbx_fonts_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_fonts_ext.so.0 gltbx/fonts_ext.o gltbx/font_ucs_8x13.o gltbx/font_ucs_9x15.o gltbx/font_ucs_10x20.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm +g++ -o lib/dxtbx_flumpy.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_flumpy.so.0 dxtbx/src/dxtbx/boost_python/flumpy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python312 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python312 -lcbf -lhdf5 +Create symlinks for: 'lib/iotbx_mtz_ext.so.0.0.1' + 'lib/iotbx_mtz_ext.so.0'->'lib/iotbx_mtz_ext.so.0.0.1' + 'lib/iotbx_mtz_ext.so'->'lib/iotbx_mtz_ext.so.0.0.1' g++ -o lib/cctbx_xray_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_ext.so.0 cctbx/xray/boost_python/xray_ext.o cctbx/xray/boost_python/conversions.o cctbx/xray/boost_python/gradient_flags.o cctbx/xray/boost_python/gradients_direct.o cctbx/xray/boost_python/each_hkl_gradients_direct.o cctbx/xray/boost_python/fast_gradients.o cctbx/xray/boost_python/minimization.o cctbx/xray/boost_python/scatterer_flags.o cctbx/xray/boost_python/scatterer.o cctbx/xray/boost_python/scattering_type_registry.o cctbx/xray/boost_python/sampling_base.o cctbx/xray/boost_python/sampled_model_density.o cctbx/xray/boost_python/structure_factors_direct.o cctbx/xray/boost_python/structure_factors_simple.o cctbx/xray/boost_python/curvatures_simple.o cctbx/xray/boost_python/targets.o cctbx/xray/boost_python/f_model_bpl.o cctbx/xray/boost_python/twin_targets.o cctbx/xray/boost_python/grouped_data.o cctbx/xray/boost_python/parameter_map.o cctbx/xray/boost_python/twin_components.o cctbx/xray/boost_python/extinction.o cctbx/xray/boost_python/sigmaa.o cctbx/xray/targets/shelxl_wght_ls_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' - 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' - 'lib/cctbx_eltbx_attenuation_coefficient_ext.so'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' -g++ -o lib/gltbx_viewer_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_viewer_utils_ext.so.0 gltbx/viewer_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lGLU -lGL -lm +g++ -o lib/cctbx_sgtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_ext.so.0 cctbx/sgtbx/boost_python/sgtbx_ext.o cctbx/sgtbx/boost_python/brick.o cctbx/sgtbx/boost_python/change_of_basis.o cctbx/sgtbx/boost_python/find_affine.o cctbx/sgtbx/boost_python/lattice_symmetry.o cctbx/sgtbx/boost_python/phase_info.o cctbx/sgtbx/boost_python/reciprocal_space_asu.o cctbx/sgtbx/boost_python/rot_mx.o cctbx/sgtbx/boost_python/rt_mx.o cctbx/sgtbx/boost_python/search_symmetry.o cctbx/sgtbx/boost_python/seminvariant.o cctbx/sgtbx/boost_python/site_symmetry.o cctbx/sgtbx/boost_python/space_group.o cctbx/sgtbx/boost_python/space_group_type.o cctbx/sgtbx/boost_python/sym_equiv_sites.o cctbx/sgtbx/boost_python/symbols.o cctbx/sgtbx/boost_python/tensor_rank_2.o cctbx/sgtbx/boost_python/tensors.o cctbx/sgtbx/boost_python/tr_vec.o cctbx/sgtbx/boost_python/wyckoff.o cctbx/sgtbx/boost_python/select_generators.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/cctbx_symmetry_search_ext.so.0.0.1' 'lib/cctbx_symmetry_search_ext.so.0'->'lib/cctbx_symmetry_search_ext.so.0.0.1' 'lib/cctbx_symmetry_search_ext.so'->'lib/cctbx_symmetry_search_ext.so.0.0.1' -g++ -o lib/cctbx_sgtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_ext.so.0 cctbx/sgtbx/boost_python/sgtbx_ext.o cctbx/sgtbx/boost_python/brick.o cctbx/sgtbx/boost_python/change_of_basis.o cctbx/sgtbx/boost_python/find_affine.o cctbx/sgtbx/boost_python/lattice_symmetry.o cctbx/sgtbx/boost_python/phase_info.o cctbx/sgtbx/boost_python/reciprocal_space_asu.o cctbx/sgtbx/boost_python/rot_mx.o cctbx/sgtbx/boost_python/rt_mx.o cctbx/sgtbx/boost_python/search_symmetry.o cctbx/sgtbx/boost_python/seminvariant.o cctbx/sgtbx/boost_python/site_symmetry.o cctbx/sgtbx/boost_python/space_group.o cctbx/sgtbx/boost_python/space_group_type.o cctbx/sgtbx/boost_python/sym_equiv_sites.o cctbx/sgtbx/boost_python/symbols.o cctbx/sgtbx/boost_python/tensor_rank_2.o cctbx/sgtbx/boost_python/tensors.o cctbx/sgtbx/boost_python/tr_vec.o cctbx/sgtbx/boost_python/wyckoff.o cctbx/sgtbx/boost_python/select_generators.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_dmtbx_ext.so.0.0.1' - 'lib/cctbx_dmtbx_ext.so.0'->'lib/cctbx_dmtbx_ext.so.0.0.1' - 'lib/cctbx_dmtbx_ext.so'->'lib/cctbx_dmtbx_ext.so.0.0.1' -g++ -o lib/dxtbx_masking_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_masking_ext.so.0 dxtbx/src/dxtbx/masking/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python312 -lcbf -lhdf5 +g++ -o lib/cctbx_maptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_ext.so.0 cctbx/maptbx/boost_python/maptbx_ext.o cctbx/maptbx/boost_python/grid_indices_around_sites.o cctbx/maptbx/boost_python/grid_tags.o cctbx/maptbx/boost_python/gridding.o cctbx/maptbx/boost_python/misc.o cctbx/maptbx/boost_python/peak_search.o cctbx/maptbx/boost_python/pymol_interface.o cctbx/maptbx/boost_python/statistics.o cctbx/maptbx/boost_python/structure_factors.o cctbx/maptbx/boost_python/coordinate_transformers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/gltbx_fonts_ext.so.0.0.1' + 'lib/gltbx_fonts_ext.so.0'->'lib/gltbx_fonts_ext.so.0.0.1' + 'lib/gltbx_fonts_ext.so'->'lib/gltbx_fonts_ext.so.0.0.1' +g++ -o lib/cctbx_asymmetric_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_asymmetric_map_ext.so.0 cctbx/maptbx/asymmetric_map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/cctbx_geometry_ext.so.0.0.1' 'lib/cctbx_geometry_ext.so.0'->'lib/cctbx_geometry_ext.so.0.0.1' 'lib/cctbx_geometry_ext.so'->'lib/cctbx_geometry_ext.so.0.0.1' -g++ -o lib/cctbx_maptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_ext.so.0 cctbx/maptbx/boost_python/maptbx_ext.o cctbx/maptbx/boost_python/grid_indices_around_sites.o cctbx/maptbx/boost_python/grid_tags.o cctbx/maptbx/boost_python/gridding.o cctbx/maptbx/boost_python/misc.o cctbx/maptbx/boost_python/peak_search.o cctbx/maptbx/boost_python/pymol_interface.o cctbx/maptbx/boost_python/statistics.o cctbx/maptbx/boost_python/structure_factors.o cctbx/maptbx/boost_python/coordinate_transformers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' - 'lib/cctbx_eltbx_xray_scattering_ext.so.0'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' - 'lib/cctbx_eltbx_xray_scattering_ext.so'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' -g++ -o lib/cctbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_array_family_flex_ext.so.0 cctbx/array_family/boost_python/flex_ext.o cctbx/array_family/boost_python/flex_hendrickson_lattman.o cctbx/array_family/boost_python/flex_miller_index.o cctbx/array_family/boost_python/flex_xray_scatterer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/cctbx_geometry_restraints_ext.so.0.0.1' - 'lib/cctbx_geometry_restraints_ext.so.0'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' - 'lib/cctbx_geometry_restraints_ext.so'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' -Create symlinks for: 'lib/gltbx_glu_ext.so.0.0.1' - 'lib/gltbx_glu_ext.so.0'->'lib/gltbx_glu_ext.so.0.0.1' - 'lib/gltbx_glu_ext.so'->'lib/gltbx_glu_ext.so.0.0.1' -Create symlinks for: 'lib/gltbx_viewer_utils_ext.so.0.0.1' - 'lib/gltbx_viewer_utils_ext.so.0'->'lib/gltbx_viewer_utils_ext.so.0.0.1' - 'lib/gltbx_viewer_utils_ext.so'->'lib/gltbx_viewer_utils_ext.so.0.0.1' -g++ -o spotfinder/core_toolbox/spotfilter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/spotfilter.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_bcr_bcr_ext.so.0 cctbx/maptbx/bcr/bcr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/dxtbx_flumpy.so.0.0.1' + 'lib/dxtbx_flumpy.so.0'->'lib/dxtbx_flumpy.so.0.0.1' + 'lib/dxtbx_flumpy.so'->'lib/dxtbx_flumpy.so.0.0.1' +g++ -o lib/cctbx_eltbx_henke_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_henke_ext.so.0 cctbx/eltbx/boost_python/henke_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/cctbx_array_family_flex_ext.so.0.0.1' + 'lib/cctbx_array_family_flex_ext.so.0'->'lib/cctbx_array_family_flex_ext.so.0.0.1' + 'lib/cctbx_array_family_flex_ext.so'->'lib/cctbx_array_family_flex_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' + 'lib/cctbx_maptbx_bcr_bcr_ext.so.0'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' + 'lib/cctbx_maptbx_bcr_bcr_ext.so'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' g++ -o mmtbx/masks/atom_mask.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/masks/atom_mask.cpp -g++ -o mmtbx/tls/decompose.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/decompose.cpp -Create symlinks for: 'lib/dxtbx_masking_ext.so.0.0.1' - 'lib/dxtbx_masking_ext.so.0'->'lib/dxtbx_masking_ext.so.0.0.1' - 'lib/dxtbx_masking_ext.so'->'lib/dxtbx_masking_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_asymmetric_map_ext.so.0.0.1' + 'lib/cctbx_asymmetric_map_ext.so.0'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' + 'lib/cctbx_asymmetric_map_ext.so'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/cctbx_eltbx_henke_ext.so.0.0.1' + 'lib/cctbx_eltbx_henke_ext.so.0'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' + 'lib/cctbx_eltbx_henke_ext.so'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' +g++ -o mmtbx/tls/decompose.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/decompose.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/dps_core/dps_core.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/dps_core.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/dps_core/directional_fft.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/directional_fft.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/cctbx_array_family_flex_ext.so.0.0.1' - 'lib/cctbx_array_family_flex_ext.so.0'->'lib/cctbx_array_family_flex_ext.so.0.0.1' - 'lib/cctbx_array_family_flex_ext.so'->'lib/cctbx_array_family_flex_ext.so.0.0.1' +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/cctbx_geometry_restraints_ext.so.0.0.1' + 'lib/cctbx_geometry_restraints_ext.so.0'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' + 'lib/cctbx_geometry_restraints_ext.so'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' g++ -o rstbx/dps_core/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/indexing_api/indexing_api.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/indexing_api.cpp @@ -17342,44 +17378,44 @@ Create symlinks for: 'lib/cctbx_sgtbx_ext.so.0.0.1' 'lib/cctbx_sgtbx_ext.so.0'->'lib/cctbx_sgtbx_ext.so.0.0.1' 'lib/cctbx_sgtbx_ext.so'->'lib/cctbx_sgtbx_ext.so.0.0.1' +g++ -o rstbx/diffraction/partial_spot_position_partial_H.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/partial_spot_position_partial_H.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/cctbx_xray_ext.so.0.0.1' 'lib/cctbx_xray_ext.so.0'->'lib/cctbx_xray_ext.so.0.0.1' 'lib/cctbx_xray_ext.so'->'lib/cctbx_xray_ext.so.0.0.1' -g++ -o rstbx/diffraction/partial_spot_position_partial_H.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/partial_spot_position_partial_H.cpp +g++ -o lib/libspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libspotfinder.so.0 spotfinder/core_toolbox/spot.o spotfinder/core_toolbox/libdistl.o spotfinder/core_toolbox/hough.o spotfinder/core_toolbox/distl.o spotfinder/core_toolbox/spotfilter.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lomptbx -lm g++ -o scitbx/minpack/raw.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/minpack/raw.cpp -gcc -o scitbx/slatec/lib_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/slatec/lib_c.c -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +gcc -o scitbx/slatec/lib_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/slatec/lib_c.c +Create symlinks for: 'lib/libspotfinder.so.0.0.1' + 'lib/libspotfinder.so.0'->'lib/libspotfinder.so.0.0.1' + 'lib/libspotfinder.so'->'lib/libspotfinder.so.0.0.1' +g++ -o lib/libdxtbxspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libdxtbxspotfinder.so.0 spotfinder/dxtbx_toolbox/libdistl.o spotfinder/dxtbx_toolbox/distl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lann-cctbx -lomptbx -lm g++ -o lib/libscitbx_slatec.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_slatec.so.0 scitbx/slatec/lib_c.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lm Create symlinks for: 'lib/libscitbx_slatec.so.0.0.1' 'lib/libscitbx_slatec.so.0'->'lib/libscitbx_slatec.so.0.0.1' 'lib/libscitbx_slatec.so'->'lib/libscitbx_slatec.so.0.0.1' +Create symlinks for: 'lib/libdxtbxspotfinder.so.0.0.1' + 'lib/libdxtbxspotfinder.so.0'->'lib/libdxtbxspotfinder.so.0.0.1' + 'lib/libdxtbxspotfinder.so'->'lib/libdxtbxspotfinder.so.0.0.1' g++ -o smtbx/refinement/constraints/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/geometrical_hydrogens.cpp +g++ -o smtbx/refinement/constraints/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/occupancy.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libscitbx_minpack.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_minpack.so.0 scitbx/minpack/raw.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lm Create symlinks for: 'lib/libscitbx_minpack.so.0.0.1' 'lib/libscitbx_minpack.so.0'->'lib/libscitbx_minpack.so.0.0.1' 'lib/libscitbx_minpack.so'->'lib/libscitbx_minpack.so.0.0.1' -g++ -o smtbx/refinement/constraints/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/occupancy.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/reparametrisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libspotfinder.so.0 spotfinder/core_toolbox/spot.o spotfinder/core_toolbox/libdistl.o spotfinder/core_toolbox/hough.o spotfinder/core_toolbox/distl.o spotfinder/core_toolbox/spotfilter.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lomptbx -lm g++ -o smtbx/refinement/constraints/rigid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/rigid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/libspotfinder.so.0.0.1' - 'lib/libspotfinder.so.0'->'lib/libspotfinder.so.0.0.1' - 'lib/libspotfinder.so'->'lib/libspotfinder.so.0.0.1' -g++ -o lib/libdxtbxspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libdxtbxspotfinder.so.0 spotfinder/dxtbx_toolbox/libdistl.o spotfinder/dxtbx_toolbox/distl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lann-cctbx -lomptbx -lm g++ -o smtbx/refinement/constraints/same_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/same_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/scaled_adp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/scaled_adp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/libdxtbxspotfinder.so.0.0.1' - 'lib/libdxtbxspotfinder.so.0'->'lib/libdxtbxspotfinder.so.0.0.1' - 'lib/libdxtbxspotfinder.so'->'lib/libdxtbxspotfinder.so.0.0.1' g++ -o smtbx/refinement/constraints/shared.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/shared.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libmmtbx_tls.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libmmtbx_tls.so.0 mmtbx/tls/decompose.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lm @@ -17403,10 +17439,9 @@ g++ -o mmtbx/building/loop_closure/ccd_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/building/loop_closure/ccd_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/bulk_solvent/bulk_solvent_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/bulk_solvent/bulk_solvent_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/bulk_solvent/bulk_solvent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/bulk_solvent/bulk_solvent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/iotbx_pdb_hierarchy_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_hierarchy_ext.so.0 iotbx/pdb/hierarchy_ext.o iotbx/pdb/hierarchy_atom_bpl.o iotbx/pdb/hierarchy_atoms_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/cablam/boost_python/cablam_align_utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/cablam/boost_python/cablam_align_utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/den/boost_python/den_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/den/boost_python/den_ext.cpp @@ -17415,23 +17450,18 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/dynamics/dynamics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/dynamics/dynamics_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' - 'lib/iotbx_pdb_hierarchy_ext.so.0'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' - 'lib/iotbx_pdb_hierarchy_ext.so'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' g++ -o mmtbx/dynamics/dynamics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/dynamics/dynamics.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o mmtbx/f_model/f_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/f_model/f_model_ext.cpp g++ -o lib/libsmtbx_refinement_constraints.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libsmtbx_refinement_constraints.so.0 smtbx/refinement/constraints/affine.o smtbx/refinement/constraints/geometrical_hydrogens.o smtbx/refinement/constraints/occupancy.o smtbx/refinement/constraints/reparametrisation.o smtbx/refinement/constraints/rigid.o smtbx/refinement/constraints/same_group.o smtbx/refinement/constraints/scaled_adp.o smtbx/refinement/constraints/shared.o smtbx/refinement/constraints/special_position.o smtbx/refinement/constraints/symmetry_equivalent.o smtbx/refinement/constraints/u_eq_dependent_u_iso.o smtbx/refinement/constraints/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libsmtbx_refinement_constraints.so.0.0.1' 'lib/libsmtbx_refinement_constraints.so.0'->'lib/libsmtbx_refinement_constraints.so.0.0.1' 'lib/libsmtbx_refinement_constraints.so'->'lib/libsmtbx_refinement_constraints.so.0.0.1' +g++ -o mmtbx/f_model/f_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/f_model/f_model_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/geometry/boost_python/asa_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/asa_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/geometry/boost_python/clash_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/clash_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o mmtbx/geometry/boost_python/indexing_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/wyckoff.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:4, @@ -17443,6 +17473,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -17466,25 +17497,35 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -g++ -o lib/mmtbx_alignment_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_alignment_ext.so.0 mmtbx/alignment/alignment_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/mmtbx_dssp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dssp_ext.so.0 mmtbx/secondary_structure/dssp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/mmtbx_alignment_ext.so.0.0.1' - 'lib/mmtbx_alignment_ext.so.0'->'lib/mmtbx_alignment_ext.so.0.0.1' - 'lib/mmtbx_alignment_ext.so'->'lib/mmtbx_alignment_ext.so.0.0.1' -g++ -o mmtbx/geometry/boost_python/primitive_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/primitive_ext.cpp +Create symlinks for: 'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' + 'lib/iotbx_pdb_hierarchy_ext.so.0'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' + 'lib/iotbx_pdb_hierarchy_ext.so'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' +g++ -o mmtbx/geometry/boost_python/indexing_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_dssp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dssp_ext.so.0 mmtbx/secondary_structure/dssp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/mmtbx_dssp_ext.so.0.0.1' 'lib/mmtbx_dssp_ext.so.0'->'lib/mmtbx_dssp_ext.so.0.0.1' 'lib/mmtbx_dssp_ext.so'->'lib/mmtbx_dssp_ext.so.0.0.1' +g++ -o mmtbx/geometry/boost_python/primitive_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/primitive_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_alignment_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_alignment_ext.so.0 mmtbx/alignment/alignment_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/mmtbx_dynamics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dynamics_ext.so.0 mmtbx/dynamics/dynamics_ext.o mmtbx/dynamics/dynamics.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_alignment_ext.so.0.0.1' + 'lib/mmtbx_alignment_ext.so.0'->'lib/mmtbx_alignment_ext.so.0.0.1' + 'lib/mmtbx_alignment_ext.so'->'lib/mmtbx_alignment_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/shared_types_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/mmtbx_dynamics_ext.so.0.0.1' + 'lib/mmtbx_dynamics_ext.so.0'->'lib/mmtbx_dynamics_ext.so.0.0.1' + 'lib/mmtbx_dynamics_ext.so'->'lib/mmtbx_dynamics_ext.so.0.0.1' +g++ -o mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/sphere_surface_sampling_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_cablam_align_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_cablam_align_utils_ext.so.0 mmtbx/cablam/boost_python/cablam_align_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/mmtbx_cablam_align_utils_ext.so.0.0.1' 'lib/mmtbx_cablam_align_utils_ext.so.0'->'lib/mmtbx_cablam_align_utils_ext.so.0.0.1' 'lib/mmtbx_cablam_align_utils_ext.so'->'lib/mmtbx_cablam_align_utils_ext.so.0.0.1' -g++ -o mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/sphere_surface_sampling_ext.cpp +g++ -o mmtbx/hydrogens/hydrogens_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/hydrogens/hydrogens_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_dynamics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dynamics_ext.so.0 mmtbx/dynamics/dynamics_ext.o mmtbx/dynamics/dynamics.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, from /usr/include/boost/function/detail/prologue.hpp:12, from /usr/include/boost/function/function_template.hpp:13, @@ -17498,35 +17539,16 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/asa_ext.cpp:2: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/clash_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -Create symlinks for: 'lib/mmtbx_dynamics_ext.so.0.0.1' - 'lib/mmtbx_dynamics_ext.so.0'->'lib/mmtbx_dynamics_ext.so.0.0.1' - 'lib/mmtbx_dynamics_ext.so'->'lib/mmtbx_dynamics_ext.so.0.0.1' -g++ -o mmtbx/hydrogens/hydrogens_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/hydrogens/hydrogens_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libmmtbx_masks.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libmmtbx_masks.so.0 mmtbx/masks/atom_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm -In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, - from /usr/include/boost/function/detail/prologue.hpp:12, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/converter/object_manager.hpp:8, - from /usr/include/boost/python/extract.hpp:10, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp:2: -/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ Create symlinks for: 'lib/libmmtbx_masks.so.0.0.1' 'lib/libmmtbx_masks.so.0'->'lib/libmmtbx_masks.so.0.0.1' 'lib/libmmtbx_masks.so'->'lib/libmmtbx_masks.so.0.0.1' g++ -o mmtbx/masks/masks_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/masks/masks_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_building_loop_closure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_building_loop_closure_ext.so.0 mmtbx/building/loop_closure/ccd_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -liotbx_pdb -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, from /usr/include/boost/function/detail/prologue.hpp:12, from /usr/include/boost/function/function_template.hpp:13, @@ -17540,15 +17562,10 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/clash_ext.cpp:2: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -Create symlinks for: 'lib/mmtbx_building_loop_closure_ext.so.0.0.1' - 'lib/mmtbx_building_loop_closure_ext.so.0'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' - 'lib/mmtbx_building_loop_closure_ext.so'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' -g++ -o mmtbx/max_lik/max_lik_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/max_lik/max_lik_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, from /usr/include/boost/function/detail/prologue.hpp:12, from /usr/include/boost/function/function_template.hpp:13, @@ -17562,38 +17579,57 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object/class.hpp:9, from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp:2: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/asa_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -g++ -o lib/mmtbx_geometry_primitive_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_primitive_ext.so.0 mmtbx/geometry/boost_python/primitive_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/mmtbx_geometry_primitive_ext.so.0.0.1' - 'lib/mmtbx_geometry_primitive_ext.so.0'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' - 'lib/mmtbx_geometry_primitive_ext.so'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' -g++ -o mmtbx/max_lik/max_lik.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/max_lik/max_lik.cpp +g++ -o lib/mmtbx_building_loop_closure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_building_loop_closure_ext.so.0 mmtbx/building/loop_closure/ccd_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -liotbx_pdb -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, + from /usr/include/boost/function/detail/prologue.hpp:12, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/converter/object_manager.hpp:8, + from /usr/include/boost/python/extract.hpp:10, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp:2: +/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ +Create symlinks for: 'lib/mmtbx_building_loop_closure_ext.so.0.0.1' + 'lib/mmtbx_building_loop_closure_ext.so.0'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' + 'lib/mmtbx_building_loop_closure_ext.so'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' +g++ -o mmtbx/max_lik/max_lik_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/max_lik/max_lik_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_shared_types_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_shared_types_ext.so.0 mmtbx/geometry/boost_python/shared_types_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' 'lib/mmtbx_geometry_shared_types_ext.so.0'->'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' 'lib/mmtbx_geometry_shared_types_ext.so'->'lib/mmtbx_geometry_shared_types_ext.so.0.0.1' +g++ -o mmtbx/max_lik/max_lik.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/max_lik/max_lik.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_geometry_primitive_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_primitive_ext.so.0 mmtbx/geometry/boost_python/primitive_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_geometry_primitive_ext.so.0.0.1' + 'lib/mmtbx_geometry_primitive_ext.so.0'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' + 'lib/mmtbx_geometry_primitive_ext.so'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' g++ -o mmtbx/bulk_solvent/mosaic_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/bulk_solvent/mosaic_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_f_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_f_model_ext.so.0 mmtbx/f_model/f_model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/mmtbx_den_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_den_restraints_ext.so.0 mmtbx/den/boost_python/den_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_f_model_ext.so.0.0.1' + 'lib/mmtbx_f_model_ext.so.0'->'lib/mmtbx_f_model_ext.so.0.0.1' + 'lib/mmtbx_f_model_ext.so'->'lib/mmtbx_f_model_ext.so.0.0.1' +g++ -o mmtbx/ncs/cartesian_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/ncs/cartesian_restraints_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/mmtbx_den_restraints_ext.so.0.0.1' 'lib/mmtbx_den_restraints_ext.so.0'->'lib/mmtbx_den_restraints_ext.so.0.0.1' 'lib/mmtbx_den_restraints_ext.so'->'lib/mmtbx_den_restraints_ext.so.0.0.1' -g++ -o mmtbx/ncs/cartesian_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/ncs/cartesian_restraints_ext.cpp +g++ -o mmtbx/ncs/tncs_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/ncs/tncs_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_sphere_surface_sampling_ext.so.0 mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0'->'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so'->'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' -g++ -o lib/mmtbx_f_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_f_model_ext.so.0 mmtbx/f_model/f_model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o mmtbx/ncs/tncs_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/ncs/tncs_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_f_model_ext.so.0.0.1' - 'lib/mmtbx_f_model_ext.so.0'->'lib/mmtbx_f_model_ext.so.0.0.1' - 'lib/mmtbx_f_model_ext.so'->'lib/mmtbx_f_model_ext.so.0.0.1' g++ -o mmtbx/pair_interaction/interaction_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/pair_interaction/interaction_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_hydrogens_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_hydrogens_ext.so.0 mmtbx/hydrogens/hydrogens_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm @@ -17604,41 +17640,42 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/probe/Scoring.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/probe/Scoring.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_geometry_indexing_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_indexing_ext.so.0 mmtbx/geometry/boost_python/indexing_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/mmtbx_geometry_indexing_ext.so.0.0.1' - 'lib/mmtbx_geometry_indexing_ext.so.0'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' - 'lib/mmtbx_geometry_indexing_ext.so'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' -g++ -o mmtbx/probe/DotSpheres.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/probe/DotSpheres.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_masks_ext.so.0 mmtbx/masks/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_masks -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/mmtbx_masks_ext.so.0.0.1' 'lib/mmtbx_masks_ext.so.0'->'lib/mmtbx_masks_ext.so.0.0.1' 'lib/mmtbx_masks_ext.so'->'lib/mmtbx_masks_ext.so.0.0.1' -g++ -o mmtbx/probe/SpatialQuery.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/probe/SpatialQuery.cpp +g++ -o mmtbx/probe/DotSpheres.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/probe/DotSpheres.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_geometry_clash_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_clash_ext.so.0 mmtbx/geometry/boost_python/clash_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_cartesian_restraints_ext.so.0 mmtbx/ncs/cartesian_restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/mmtbx_mosaic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_mosaic_ext.so.0 mmtbx/bulk_solvent/mosaic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_geometry_clash_ext.so.0.0.1' + 'lib/mmtbx_geometry_clash_ext.so.0'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' + 'lib/mmtbx_geometry_clash_ext.so'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' +Create symlinks for: 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' + 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' + 'lib/mmtbx_ncs_cartesian_restraints_ext.so'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' +g++ -o mmtbx/probe/SpatialQuery.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/probe/SpatialQuery.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/boost_python/ramachandran_ext.cpp Create symlinks for: 'lib/mmtbx_mosaic_ext.so.0.0.1' 'lib/mmtbx_mosaic_ext.so.0'->'lib/mmtbx_mosaic_ext.so.0.0.1' 'lib/mmtbx_mosaic_ext.so'->'lib/mmtbx_mosaic_ext.so.0.0.1' -g++ -o mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/boost_python/ramachandran_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_bulk_solvent_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_bulk_solvent_ext.so.0 mmtbx/bulk_solvent/bulk_solvent_ext.o mmtbx/bulk_solvent/bulk_solvent.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o mmtbx/reduce/boost_python/reduce_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/boost_python/reduce_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_cartesian_restraints_ext.so.0 mmtbx/ncs/cartesian_restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/mmtbx_bulk_solvent_ext.so.0.0.1' - 'lib/mmtbx_bulk_solvent_ext.so.0'->'lib/mmtbx_bulk_solvent_ext.so.0.0.1' - 'lib/mmtbx_bulk_solvent_ext.so'->'lib/mmtbx_bulk_solvent_ext.so.0.0.1' g++ -o mmtbx/reduce/PositionReturn.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/PositionReturn.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' - 'lib/mmtbx_ncs_cartesian_restraints_ext.so.0'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' - 'lib/mmtbx_ncs_cartesian_restraints_ext.so'->'lib/mmtbx_ncs_cartesian_restraints_ext.so.0.0.1' +g++ -o lib/mmtbx_geometry_indexing_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_indexing_ext.so.0 mmtbx/geometry/boost_python/indexing_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/mmtbx_bulk_solvent_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_bulk_solvent_ext.so.0 mmtbx/bulk_solvent/bulk_solvent_ext.o mmtbx/bulk_solvent/bulk_solvent.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_geometry_indexing_ext.so.0.0.1' + 'lib/mmtbx_geometry_indexing_ext.so.0'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' + 'lib/mmtbx_geometry_indexing_ext.so'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' g++ -o mmtbx/reduce/InteractionGraph.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/InteractionGraph.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o mmtbx/reduce/Optimizers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/Optimizers.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_max_lik_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_max_lik_ext.so.0 mmtbx/max_lik/max_lik_ext.o mmtbx/max_lik/max_lik.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_bulk_solvent_ext.so.0.0.1' + 'lib/mmtbx_bulk_solvent_ext.so.0'->'lib/mmtbx_bulk_solvent_ext.so.0.0.1' + 'lib/mmtbx_bulk_solvent_ext.so'->'lib/mmtbx_bulk_solvent_ext.so.0.0.1' In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/restraints.h:6, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral.h:6, @@ -17648,10 +17685,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i'lib/mmtbx_max_lik_ext.so.0.0.1' - 'lib/mmtbx_max_lik_ext.so'->'lib/mmtbx_max_lik_ext.so.0.0.1' -g++ -o mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp +g++ -o mmtbx/reduce/Optimizers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/Optimizers.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/ramachandran.h: In instantiation of ‘scitbx::af::tiny mmtbx::geometry_restraints::target_phi_psi(const scitbx::af::const_ref, scitbx::af::trivial_accessor>&, const scitbx::af::const_ref, scitbx::af::trivial_accessor>&, const phi_psi_proxy&) [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/ramachandran.h:314:35: required from here @@ -17684,17 +17718,23 @@ 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o lib/mmtbx_ncs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_ext.so.0 mmtbx/ncs/tncs_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/mmtbx_geometry_clash_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_clash_ext.so.0 mmtbx/geometry/boost_python/clash_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/mmtbx_ncs_ext.so.0.0.1' 'lib/mmtbx_ncs_ext.so.0'->'lib/mmtbx_ncs_ext.so.0.0.1' 'lib/mmtbx_ncs_ext.so'->'lib/mmtbx_ncs_ext.so.0.0.1' +g++ -o mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/rotamer/fit_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/rotamer/fit_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_geometry_clash_ext.so.0.0.1' - 'lib/mmtbx_geometry_clash_ext.so.0'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' - 'lib/mmtbx_geometry_clash_ext.so'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' +g++ -o lib/mmtbx_pair_interaction_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_pair_interaction_ext.so.0 mmtbx/pair_interaction/interaction_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_pair_interaction_ext.so.0.0.1' + 'lib/mmtbx_pair_interaction_ext.so.0'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' + 'lib/mmtbx_pair_interaction_ext.so'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' g++ -o mmtbx/rsr/rsr_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/rsr/rsr_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_max_lik_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_max_lik_ext.so.0 mmtbx/max_lik/max_lik_ext.o mmtbx/max_lik/max_lik.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_max_lik_ext.so.0.0.1' + 'lib/mmtbx_max_lik_ext.so.0'->'lib/mmtbx_max_lik_ext.so.0.0.1' + 'lib/mmtbx_max_lik_ext.so'->'lib/mmtbx_max_lik_ext.so.0.0.1' g++ -o mmtbx/scaling/scaling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/scaling/scaling_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/wyckoff.h:4, @@ -17708,16 +17748,14 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = mmtbx::geometry_restraints::reference_coordinate_proxy]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:80:41: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/proxy_select.h:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 187 | if (match_ctr != i_seqs.size()) { | ~~~~~~~~~~^~~~~~~~~~~~~~~~ -Create symlinks for: 'lib/mmtbx_pair_interaction_ext.so.0.0.1' - 'lib/mmtbx_pair_interaction_ext.so.0'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' - 'lib/mmtbx_pair_interaction_ext.so'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -17729,8 +17767,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -g++ -o mmtbx/scaling/twinning_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/scaling/twinning_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_array.hpp:23, from /usr/include/boost/shared_array.hpp:17, @@ -17755,22 +17791,22 @@ 'lib/mmtbx_probe_ext.so'->'lib/mmtbx_probe_ext.so.0.0.1' g++ -o mmtbx/secondary_structure/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/secondary_structure/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_geometry_asa_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_asa_ext.so.0 mmtbx/geometry/boost_python/asa_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/mmtbx_ramachandran_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ramachandran_restraints_ext.so.0 mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/mmtbx_geometry_asa_ext.so.0.0.1' - 'lib/mmtbx_geometry_asa_ext.so.0'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' - 'lib/mmtbx_geometry_asa_ext.so'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' +g++ -o lib/mmtbx_rsr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rsr_ext.so.0 mmtbx/rsr/rsr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_rsr_ext.so.0.0.1' + 'lib/mmtbx_rsr_ext.so.0'->'lib/mmtbx_rsr_ext.so.0.0.1' + 'lib/mmtbx_rsr_ext.so'->'lib/mmtbx_rsr_ext.so.0.0.1' g++ -o mmtbx/tls/decompose_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/decompose_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_ramachandran_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ramachandran_restraints_ext.so.0 mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/mmtbx_secondary_structure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_secondary_structure_ext.so.0 mmtbx/secondary_structure/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' 'lib/mmtbx_ramachandran_restraints_ext.so.0'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' 'lib/mmtbx_ramachandran_restraints_ext.so'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' +Create symlinks for: 'lib/mmtbx_secondary_structure_ext.so.0.0.1' + 'lib/mmtbx_secondary_structure_ext.so.0'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' + 'lib/mmtbx_secondary_structure_ext.so'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' g++ -o mmtbx/tls/tls_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/tls_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_rsr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rsr_ext.so.0 mmtbx/rsr/rsr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/mmtbx_rsr_ext.so.0.0.1' - 'lib/mmtbx_rsr_ext.so.0'->'lib/mmtbx_rsr_ext.so.0.0.1' - 'lib/mmtbx_rsr_ext.so'->'lib/mmtbx_rsr_ext.so.0.0.1' g++ -o mmtbx/tls/optimise_amplitudes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/optimise_amplitudes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_reference_coordinate_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_reference_coordinate_ext.so.0 mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm @@ -17779,89 +17815,47 @@ 'lib/mmtbx_reference_coordinate_ext.so'->'lib/mmtbx_reference_coordinate_ext.so.0.0.1' g++ -o mmtbx/tls/optimise_amplitudes_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/optimise_amplitudes_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_secondary_structure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_secondary_structure_ext.so.0 mmtbx/secondary_structure/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/mmtbx_secondary_structure_ext.so.0.0.1' - 'lib/mmtbx_secondary_structure_ext.so.0'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' - 'lib/mmtbx_secondary_structure_ext.so'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' -g++ -o mmtbx/tls/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/utils.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_rotamer_fit_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rotamer_fit_ext.so.0 mmtbx/rotamer/fit_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/mmtbx_rotamer_fit_ext.so.0.0.1' 'lib/mmtbx_rotamer_fit_ext.so.0'->'lib/mmtbx_rotamer_fit_ext.so.0.0.1' 'lib/mmtbx_rotamer_fit_ext.so'->'lib/mmtbx_rotamer_fit_ext.so.0.0.1' +g++ -o mmtbx/tls/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/utils.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/tls/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_geometry_asa_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_asa_ext.so.0 mmtbx/geometry/boost_python/asa_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_geometry_asa_ext.so.0.0.1' + 'lib/mmtbx_geometry_asa_ext.so.0'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' + 'lib/mmtbx_geometry_asa_ext.so'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' g++ -o mmtbx/utils/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/utils/utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/validation/ramachandran/rama_eval_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/validation/ramachandran/rama_eval_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -ar rc reduce/lib/libreduce2lib.a mmtbx/reduce/PositionReturn.o mmtbx/reduce/InteractionGraph.o mmtbx/reduce/Optimizers.o -ranlib reduce/lib/libreduce2lib.a g++ -o omptbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/omptbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +ar rc reduce/lib/libreduce2lib.a mmtbx/reduce/PositionReturn.o mmtbx/reduce/InteractionGraph.o mmtbx/reduce/Optimizers.o +ranlib reduce/lib/libreduce2lib.a g++ -o rstbx/array_family/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/array_family/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o rstbx/array_family/flex_rstbx_arrays.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/array_family/flex_rstbx_arrays.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_tls_decompose_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_decompose_ext.so.0 mmtbx/tls/decompose_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/mmtbx_tls_decompose_ext.so.0.0.1' 'lib/mmtbx_tls_decompose_ext.so.0'->'lib/mmtbx_tls_decompose_ext.so.0.0.1' 'lib/mmtbx_tls_decompose_ext.so'->'lib/mmtbx_tls_decompose_ext.so.0.0.1' -g++ -o rstbx/bandpass/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bandpass/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/src -Irstbx/bandpass/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp +g++ -o rstbx/array_family/flex_rstbx_arrays.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/array_family/flex_rstbx_arrays.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_optimise_amplitudes_ext.so.0 mmtbx/tls/optimise_amplitudes.o mmtbx/tls/optimise_amplitudes_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' - 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' - 'lib/mmtbx_tls_optimise_amplitudes_ext.so'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' -g++ -o rstbx/bpcx/detector_model/detector_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/detector_model_ext.cpp +g++ -o rstbx/bandpass/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bandpass/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/src -Irstbx/bandpass/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/omptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=omptbx_ext.so.0 omptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lomptbx -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/omptbx_ext.so.0.0.1' 'lib/omptbx_ext.so.0'->'lib/omptbx_ext.so.0.0.1' 'lib/omptbx_ext.so'->'lib/omptbx_ext.so.0.0.1' -g++ -o rstbx/bpcx/detector_model/sensor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec2.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.h:3, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.cpp:2: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o rstbx/diffraction/fastbragg/fastbragg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_validation_ramachandran_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_validation_ramachandran_ext.so.0 mmtbx/validation/ramachandran/rama_eval_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o rstbx/diffraction/fastbragg/fastbragg.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp +g++ -o rstbx/bpcx/detector_model/detector_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/detector_model_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' - 'lib/mmtbx_validation_ramachandran_ext.so.0'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' - 'lib/mmtbx_validation_ramachandran_ext.so'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' -g++ -o rstbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/ext.cpp +g++ -o lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_optimise_amplitudes_ext.so.0 mmtbx/tls/optimise_amplitudes.o mmtbx/tls/optimise_amplitudes_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' + 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' + 'lib/mmtbx_tls_optimise_amplitudes_ext.so'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' +g++ -o rstbx/bpcx/detector_model/sensor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:10: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/parameters.h: In constructor ‘rstbx::bandpass::active_area_filter::active_area_filter(scitbx::af::shared)’: @@ -17964,7 +17958,49 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp: In instantiation of ‘void rstbx::bandpass::use_case_bp3::enclosed_pixels_and_margin_pixels_detail() [with pixel_accept_policy = unlimited_pixel_accept_policy]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:620:78: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:631:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] -g++ -o lib/mmtbx_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_utils_ext.so.0 mmtbx/utils/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec2.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.h:3, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.cpp:2: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o rstbx/diffraction/fastbragg/fastbragg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_validation_ramachandran_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_validation_ramachandran_ext.so.0 mmtbx/validation/ramachandran/rama_eval_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' + 'lib/mmtbx_validation_ramachandran_ext.so.0'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' + 'lib/mmtbx_validation_ramachandran_ext.so'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' +g++ -o rstbx/diffraction/fastbragg/fastbragg.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o rstbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o rstbx/indexing_api/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/indexing_api/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/src -Irstbx/indexing_api/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/ext.cpp In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -17997,6 +18033,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -18049,9 +18086,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -Create symlinks for: 'lib/mmtbx_utils_ext.so.0.0.1' - 'lib/mmtbx_utils_ext.so.0'->'lib/mmtbx_utils_ext.so.0.0.1' - 'lib/mmtbx_utils_ext.so'->'lib/mmtbx_utils_ext.so.0.0.1' /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -18094,26 +18128,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:133:5: note: in expansion of macro ‘SCITBX_ASSERT’ 133 | SCITBX_ASSERT(result.size()==dispsteps); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘std::map, double> rstbx::diffraction::fastbragg::crystal::get_amplitude_mapping() const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:176:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 176 | for (int i = 0; i < miller.size(); ++i){ - | ~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘void rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector(const bool&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ - | ~~~~~~~~~^~~~~~~~~~~~~~~~ -g++ -o rstbx/indexing_api/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/indexing_api/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/src -Irstbx/indexing_api/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_scaling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_scaling_ext.so.0 mmtbx/scaling/scaling_ext.o mmtbx/scaling/twinning_bpl.o mmtbx/scaling/relative_scaling_bpl.o mmtbx/scaling/outlier_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o rstbx/apps/integration_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/apps/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/src -Irstbx/apps/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/integration_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_scaling_ext.so.0.0.1' - 'lib/mmtbx_scaling_ext.so.0'->'lib/mmtbx_scaling_ext.so.0.0.1' - 'lib/mmtbx_scaling_ext.so'->'lib/mmtbx_scaling_ext.so.0.0.1' -g++ -o rstbx/simage/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/simage/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/src -Irstbx/simage/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o rstbx/simulation/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/simulation/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/src -Irstbx/simulation/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:10: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::versa > rstbx::diffraction::fastbragg::detector::intdata()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:89:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -18139,6 +18153,14 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:176:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 176 | for (int i = 0; i < miller.size(); ++i){ | ~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘std::map, double> rstbx::diffraction::fastbragg::crystal::get_amplitude_mapping() const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:176:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 176 | for (int i = 0; i < miller.size(); ++i){ + | ~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘void rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector(const bool&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ + | ~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘void rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector(const bool&)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ @@ -18151,11 +18173,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In instantiation of ‘scitbx::af::shared rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector_get_indices(const bool&) [with IndexType = cctbx::miller::index<>; MillerConversionPolicy = rstbx::diffraction::fastbragg::integer_miller_index_policy]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:138:11: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:456:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] -g++ -o lib/rstbx_bpcx_detector_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bpcx_detector_model_ext.so.0 rstbx/bpcx/detector_model/detector_model_ext.o rstbx/bpcx/detector_model/sensor.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' - 'lib/rstbx_bpcx_detector_model_ext.so.0'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' - 'lib/rstbx_bpcx_detector_model_ext.so'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' -g++ -o rstbx/symmetry/constraints/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/symmetry/constraints/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/symmetry/constraints/src -Irstbx/symmetry/constraints/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/symmetry/constraints/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/symmetry/constraints/ext.cpp +g++ -o rstbx/apps/integration_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/apps/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/src -Irstbx/apps/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/integration_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] @@ -18178,6 +18196,24 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ +g++ -o lib/rstbx_bpcx_detector_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bpcx_detector_model_ext.so.0 rstbx/bpcx/detector_model/detector_model_ext.o rstbx/bpcx/detector_model/sensor.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' + 'lib/rstbx_bpcx_detector_model_ext.so.0'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' + 'lib/rstbx_bpcx_detector_model_ext.so'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' +g++ -o rstbx/simage/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/simage/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/src -Irstbx/simage/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_utils_ext.so.0 mmtbx/utils/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_utils_ext.so.0.0.1' + 'lib/mmtbx_utils_ext.so.0'->'lib/mmtbx_utils_ext.so.0.0.1' + 'lib/mmtbx_utils_ext.so'->'lib/mmtbx_utils_ext.so.0.0.1' +g++ -o rstbx/simulation/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/simulation/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/src -Irstbx/simulation/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_scaling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_scaling_ext.so.0 mmtbx/scaling/scaling_ext.o mmtbx/scaling/twinning_bpl.o mmtbx/scaling/relative_scaling_bpl.o mmtbx/scaling/outlier_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/mmtbx_scaling_ext.so.0.0.1' + 'lib/mmtbx_scaling_ext.so.0'->'lib/mmtbx_scaling_ext.so.0.0.1' + 'lib/mmtbx_scaling_ext.so'->'lib/mmtbx_scaling_ext.so.0.0.1' +g++ -o rstbx/symmetry/constraints/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/symmetry/constraints/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/symmetry/constraints/src -Irstbx/symmetry/constraints/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/symmetry/constraints/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/symmetry/constraints/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/real_to_complex.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/directional_fft.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/dps_core.h:11, @@ -18252,12 +18288,28 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 178 | for (int mcount=0; mcount >&, const scitbx::af::const_ref&, const scitbx::mat3&, double, double, int, double, scitbx::vec2, scitbx::vec2, unsigned int, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:144:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] + 144 | for(int i=0;i<=point_spread;i++) { + | ~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:148:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] + 148 | for(int j=0;j<=point_spread;j++) { + | ~^~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h:230:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 230 | for (int isel = 0; isel < selected.size(); ++isel){ | ~~~~~^~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h:231:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 231 | for (int imos = 0; imos < mosaic_perturbations.size(); ++imos){ | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:10: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp: In function ‘std::string rstbx::simage::ext::combine_rgb_images(const boost::python::list&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp:58:42: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 58 | TBXX_ASSERT(bp::len(rgb_images[j]) == img_size); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/tbxx/error_utils.hpp:59:9: note: in definition of macro ‘TBXX_ASSERT’ + 59 | if (!(condition)) { \ + | ^~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/libdistl.h:81, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/distl.h:14, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:9, @@ -18310,23 +18362,16 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:638:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 638 | for (int k=0; k >&, const scitbx::af::const_ref&, const scitbx::mat3&, double, double, int, double, scitbx::vec2, scitbx::vec2, unsigned int, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:144:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] - 144 | for(int i=0;i<=point_spread;i++) { - | ~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:148:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] - 148 | for(int j=0;j<=point_spread;j++) { - | ~^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:10: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp: In function ‘std::string rstbx::simage::ext::combine_rgb_images(const boost::python::list&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp:58:42: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 58 | TBXX_ASSERT(bp::len(rgb_images[j]) == img_size); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/tbxx/error_utils.hpp:59:9: note: in definition of macro ‘TBXX_ASSERT’ - 59 | if (!(condition)) { \ - | ^~~~~~~~~ +g++ -o lib/rstbx_bandpass_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bandpass_ext.so.0 rstbx/bandpass/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lann_adaptor -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/mmtbx_reduce_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_reduce_ext.so.0 mmtbx/reduce/boost_python/reduce_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Lreduce/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/reduce/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/probe/lib -lreduce2lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/rstbx_bandpass_ext.so.0.0.1' + 'lib/rstbx_bandpass_ext.so.0'->'lib/rstbx_bandpass_ext.so.0.0.1' + 'lib/rstbx_bandpass_ext.so'->'lib/rstbx_bandpass_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/mmtbx_reduce_ext.so.0.0.1' + 'lib/mmtbx_reduce_ext.so.0'->'lib/mmtbx_reduce_ext.so.0.0.1' + 'lib/mmtbx_reduce_ext.so'->'lib/mmtbx_reduce_ext.so.0.0.1' In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, @@ -18342,6 +18387,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ +g++ -o scitbx/array_family/boost_python/flex_grid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_grid.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = cctbx::crystal_orientation]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 175 | resize(new_size, ElementType()); @@ -18352,24 +18399,36 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ -Create symlinks for: 'lib/mmtbx_reduce_ext.so.0.0.1' - 'lib/mmtbx_reduce_ext.so.0'->'lib/mmtbx_reduce_ext.so.0.0.1' - 'lib/mmtbx_reduce_ext.so'->'lib/mmtbx_reduce_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp +g++ -o lib/rstbx_diffraction_fastbragg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_diffraction_fastbragg_ext.so.0 rstbx/diffraction/fastbragg/fastbragg_ext.o rstbx/diffraction/fastbragg/fastbragg.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' + 'lib/rstbx_diffraction_fastbragg_ext.so.0'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' + 'lib/rstbx_diffraction_fastbragg_ext.so'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_bool.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/rstbx_simulation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simulation_ext.so.0 rstbx/simulation/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/mmtbx_tls_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_ext.so.0 mmtbx/tls/tls_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/rstbx_simulation_ext.so.0.0.1' - 'lib/rstbx_simulation_ext.so.0'->'lib/rstbx_simulation_ext.so.0.0.1' - 'lib/rstbx_simulation_ext.so'->'lib/rstbx_simulation_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_grid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_grid.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/rstbx_symmetry_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_symmetry_constraints_ext.so.0 rstbx/symmetry/constraints/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o lib/rstbx_simage_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simage_ext.so.0 rstbx/simage/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/rstbx_symmetry_constraints_ext.so.0.0.1' + 'lib/rstbx_symmetry_constraints_ext.so.0'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' + 'lib/rstbx_symmetry_constraints_ext.so'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' Create symlinks for: 'lib/mmtbx_tls_ext.so.0.0.1' 'lib/mmtbx_tls_ext.so.0'->'lib/mmtbx_tls_ext.so.0.0.1' 'lib/mmtbx_tls_ext.so'->'lib/mmtbx_tls_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_bool.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp +g++ -o scitbx/array_family/boost_python/flex_size_t.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/flex_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/rstbx_simage_ext.so.0.0.1' + 'lib/rstbx_simage_ext.so.0'->'lib/rstbx_simage_ext.so.0.0.1' + 'lib/rstbx_simage_ext.so'->'lib/rstbx_simage_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_float.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/rstbx_simulation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simulation_ext.so.0 rstbx/simulation/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/rstbx_simulation_ext.so.0.0.1' + 'lib/rstbx_simulation_ext.so.0'->'lib/rstbx_simulation_ext.so.0.0.1' + 'lib/rstbx_simulation_ext.so'->'lib/rstbx_simulation_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/rstbx_symmetry_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_symmetry_constraints_ext.so.0 rstbx/symmetry/constraints/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp: In member function ‘const char* scitbx::af::boost_python::cost_of_m_handle_in_af_shared::operator()(unsigned int, unsigned int)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:367:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 367 | for(int n=0; n < n_repeats; ++n) { @@ -18380,7 +18439,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:383:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 383 | for(int n=0; n < n_repeats; ++n) { | ~~^~~~~~~~~~~ -g++ -o lib/rstbx_bandpass_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bandpass_ext.so.0 rstbx/bandpass/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lann_adaptor -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, @@ -18399,22 +18457,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/selections.h:156:7: note: in expansion of macro ‘SCITBX_ASSERT’ 156 | SCITBX_ASSERT(iselection[i] < selectee_size); | ^~~~~~~~~~~~~ -g++ -o lib/rstbx_diffraction_fastbragg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_diffraction_fastbragg_ext.so.0 rstbx/diffraction/fastbragg/fastbragg_ext.o rstbx/diffraction/fastbragg/fastbragg.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/rstbx_symmetry_constraints_ext.so.0.0.1' - 'lib/rstbx_symmetry_constraints_ext.so.0'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' - 'lib/rstbx_symmetry_constraints_ext.so'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_size_t.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' - 'lib/rstbx_diffraction_fastbragg_ext.so.0'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' - 'lib/rstbx_diffraction_fastbragg_ext.so'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/rstbx_bandpass_ext.so.0.0.1' - 'lib/rstbx_bandpass_ext.so.0'->'lib/rstbx_bandpass_ext.so.0.0.1' - 'lib/rstbx_bandpass_ext.so'->'lib/rstbx_bandpass_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_float.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, from /usr/include/boost/shared_ptr.hpp:17, @@ -18817,13 +18859,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 8>]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:159:59: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -g++ -o lib/rstbx_simage_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simage_ext.so.0 rstbx/simage/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/rstbx_indexing_api_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_indexing_api_ext.so.0 rstbx/indexing_api/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/rstbx_simage_ext.so.0.0.1' - 'lib/rstbx_simage_ext.so.0'->'lib/rstbx_simage_ext.so.0.0.1' - 'lib/rstbx_simage_ext.so'->'lib/rstbx_simage_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/rstbx_indexing_api_ext.so.0.0.1' 'lib/rstbx_indexing_api_ext.so.0'->'lib/rstbx_indexing_api_ext.so.0.0.1' 'lib/rstbx_indexing_api_ext.so'->'lib/rstbx_indexing_api_ext.so.0.0.1' @@ -18844,105 +18880,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = bool]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:429:8: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = bool]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/bits/stl_function.h:1438, - from /usr/include/c++/13/functional:49, - from /usr/include/boost/config/no_tr1/functional.hpp:21, - from /usr/include/boost/function/detail/prologue.hpp:15, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = bool]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:430:8: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = bool]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -In file included from /usr/include/c++/13/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = bool]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = bool]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = bool]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = bool]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -Create symlinks for: 'lib/rstbx_integration_ext.so.0.0.1' - 'lib/rstbx_integration_ext.so.0'->'lib/rstbx_integration_ext.so.0.0.1' - 'lib/rstbx_integration_ext.so'->'lib/rstbx_integration_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_complex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, @@ -18958,11 +18895,9 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = bool]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:429:8: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = bool]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_function.h:1438, @@ -18982,11 +18917,9 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = bool]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:430:8: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = bool]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/backward/binders.h:172:5: note: declared here @@ -19032,6 +18965,21 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -19043,24 +18991,33 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19095,6 +19052,23 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = bool]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = bool]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned char]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19115,21 +19089,6 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19150,18 +19109,6 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19182,28 +19129,180 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = bool]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = bool]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ +g++ -o lib/rstbx_integration_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_integration_ext.so.0 rstbx/apps/integration_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lann_adaptor -lspotfinder -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘scitbx::af::flex::type* scitbx::af::{anonymous}::from_list_or_tuple_of_lists_or_tuples(PyObject*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:138:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 138 | if (PyList_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:154:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 154 | if (PyTuple_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:190:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 190 | if (PyList_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:206:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 206 | if (PyTuple_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘std::string scitbx::af::{anonymous}::mathematica_form(const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:452:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 452 | for (int i=1; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 454 | if (i != indices.size() - 1) o << ","; + | ~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = signed char]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref&) [with FloatType = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:365:26: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 25 | for (int i=0; i scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/bits/stl_function.h:1438, + from /usr/include/c++/13/functional:49, + from /usr/include/boost/config/no_tr1/functional.hpp:21, + from /usr/include/boost/function/detail/prologue.hpp:15, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = short int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:536:8: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +g++ -o lib/mmtbx_tls_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_utils_ext.so.0 mmtbx/tls/utils.o mmtbx/tls/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/bits/stl_function.h:1438, + from /usr/include/c++/13/functional:49, + from /usr/include/boost/config/no_tr1/functional.hpp:21, + from /usr/include/boost/function/detail/prologue.hpp:15, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +Create symlinks for: 'lib/rstbx_integration_ext.so.0.0.1' + 'lib/rstbx_integration_ext.so.0'->'lib/rstbx_integration_ext.so.0.0.1' + 'lib/rstbx_integration_ext.so'->'lib/rstbx_integration_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_complex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -19233,38 +19332,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:4: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref >&) [with FloatType = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:119:74: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:16:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 16 | for (int i=0; i scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_inf(const scitbx::af::const_ref >&) [with FloatType = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:177:11: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:32:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 32 | for (int i=0; i >&) [with FloatType = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:178:11: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:46:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 46 | for (int k=0; k < a_ij.size(); ++k) norm_accu(a_ij[k]); - | ~~^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19281,26 +19348,100 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = signed char]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ +In file included from /usr/include/c++/13/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/bits/stl_function.h:1438, + from /usr/include/c++/13/functional:49, + from /usr/include/boost/config/no_tr1/functional.hpp:21, + from /usr/include/boost/function/detail/prologue.hpp:15, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /usr/include/c++/13/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19317,16 +19458,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = short int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19343,21 +19474,40 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = double]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -19381,6 +19531,28 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned char]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -19447,6 +19619,43 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i'lib/mmtbx_tls_utils_ext.so.0.0.1' + 'lib/mmtbx_tls_utils_ext.so'->'lib/mmtbx_tls_utils_ext.so.0.0.1' +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = signed char]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = signed char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = signed char]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = signed char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ @@ -19458,6 +19667,26 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned char]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned char]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ @@ -19468,42 +19697,21 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/bits/stl_function.h:1438, - from /usr/include/c++/13/functional:49, - from /usr/include/boost/config/no_tr1/functional.hpp:21, - from /usr/include/boost/function/detail/prologue.hpp:15, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ @@ -19514,26 +19722,17 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘scitbx::af::flex::type* scitbx::af::{anonymous}::from_list_or_tuple_of_lists_or_tuples(PyObject*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:138:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 138 | if (PyList_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:154:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 154 | if (PyTuple_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:190:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 190 | if (PyList_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:206:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 206 | if (PyTuple_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘std::string scitbx::af::{anonymous}::mathematica_form(const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:452:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 452 | for (int i=1; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 454 | if (i != indices.size() - 1) o << ","; - | ~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ @@ -19544,172 +19743,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = long int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = signed char]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = signed char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = signed char]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = signed char]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref&) [with FloatType = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:365:26: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 25 | for (int i=0; i scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:536:8: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/bits/stl_function.h:1438, - from /usr/include/c++/13/functional:49, - from /usr/include/boost/config/no_tr1/functional.hpp:21, - from /usr/include/boost/function/detail/prologue.hpp:15, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -Create symlinks for: 'lib/mmtbx_tls_utils_ext.so.0.0.1' - 'lib/mmtbx_tls_utils_ext.so.0'->'lib/mmtbx_tls_utils_ext.so.0.0.1' - 'lib/mmtbx_tls_utils_ext.so'->'lib/mmtbx_tls_utils_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_std_string.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /usr/include/c++/13/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -19741,29 +19774,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19782,17 +19792,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = double]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19802,25 +19801,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /usr/include/c++/13/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19830,31 +19810,15 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = std::complex]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = std::complex]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&) [with FloatType = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:119:74: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:16:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 16 | for (int i=0; i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -19873,15 +19837,19 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = std::complex]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = std::complex]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_inf(const scitbx::af::const_ref >&) [with FloatType = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:177:11: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:32:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 32 | for (int i=0; i >&) [with FloatType = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:178:11: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:46:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 46 | for (int k=0; k < a_ij.size(); ++k) norm_accu(a_ij[k]); + | ~~^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -20013,9 +19981,21 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:321:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -g++ -o scitbx/array_family/boost_python/flex_random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_random.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/rstbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_ext.so.0 rstbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ @@ -20027,10 +20007,60 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -Create symlinks for: 'lib/rstbx_ext.so.0.0.1' - 'lib/rstbx_ext.so.0'->'lib/rstbx_ext.so.0.0.1' - 'lib/rstbx_ext.so'->'lib/rstbx_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_sort.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sort.cpp +In file included from /usr/include/c++/13/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = std::complex]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = std::complex]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = std::complex]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = std::complex]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +g++ -o scitbx/array_family/boost_python/flex_random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_random.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:3: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: @@ -20049,6 +20079,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | if (j < size) { | ~~^~~~~~ +g++ -o lib/rstbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_ext.so.0 rstbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >; e_t = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:885:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -20109,6 +20140,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +Create symlinks for: 'lib/rstbx_ext.so.0.0.1' + 'lib/rstbx_ext.so.0'->'lib/rstbx_ext.so.0.0.1' + 'lib/rstbx_ext.so'->'lib/rstbx_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_sort.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sort.cpp In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -20128,6 +20163,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ @@ -20151,10 +20187,6 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_linear_interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_linear_interpolation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/boost_python/flex_vec3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/boost_python/flex_vec2_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:2: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/basic_statistics.h: In instantiation of ‘scitbx::math::median_statistics scitbx::math::median_functor::dispersion(const scitbx::af::ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:31:26: required from ‘static scitbx::math::median_statistics scitbx::af::boost_python::median_functor_wrapper::dispersion(wt&, const scitbx::af::const_ref&) [with FloatType = double; wt = scitbx::math::median_functor]’ @@ -20163,8 +20195,20 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/basic_statistics.h:210:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 210 | for (int i=0; i < data.size(); ++i) { | ~~^~~~~~~~~~~~~ +g++ -o scitbx/array_family/boost_python/flex_vec3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/flex_vec2_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_vec3_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/flex_sym_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/flex_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/flex_tiny_size_t_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/loops.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/loops.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, @@ -20180,8 +20224,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ -g++ -o scitbx/array_family/boost_python/flex_sym_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -20205,8 +20247,21 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -g++ -o scitbx/array_family/boost_python/flex_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -20224,8 +20279,54 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, @@ -20241,24 +20342,24 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp: In function ‘scitbx::af::flex >::type* scitbx::af::{anonymous}::array_indices_as_double_from_array_focus_dimensions(const scitbx::vec2&)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:128:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 128 | for(std::size_t i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:129:28: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 129 | for(std::size_t j=0;j::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -g++ -o scitbx/array_family/boost_python/loops.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/loops.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -20305,68 +20404,35 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec2]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::sym_mat3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec2]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec2]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec2]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, @@ -20382,6 +20448,31 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::sym_mat3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec2]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec2]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = tiny]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = tiny]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec2]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec2]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -20448,14 +20530,23 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = tiny]’ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = tiny]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = tiny]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::mat3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -20473,7 +20564,14 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = tiny]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::mat3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::mat3]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ @@ -20482,78 +20580,14 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; +g++ -o scitbx/array_family/boost_python/show_sizes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/show_sizes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/numpy_bridge.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DSCITBX_HAVE_NUMPY_INCLUDE -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/usr/lib/python3/dist-packages/numpy/core/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /usr/include/c++/13/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::sym_mat3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::sym_mat3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -g++ -o scitbx/array_family/boost_python/shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -20570,12 +20604,14 @@ from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::sym_mat3*; _Size = long unsigned int; _Tp = scitbx::sym_mat3]’ declared here 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ +g++ -o scitbx/array_family/boost_python/shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: @@ -20607,6 +20643,13 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 86 | for(unsigned i=0;i::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, @@ -20652,6 +20695,25 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:138:5: note: in expansion of macro ‘SCITBX_ASSERT’ 138 | SCITBX_ASSERT(grid.size_1d() == PyArray_Size(obj_ptr)); | ^~~~~~~~~~~~~ +In file included from /usr/include/c++/13/memory:69, + from /usr/include/boost/function/function_base.hpp:33, + from /usr/include/boost/function/detail/prologue.hpp:18, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = long int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:204:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] @@ -20884,10 +20946,21 @@ | ^~~~~~~~~~~~~ g++ -o scitbx/cubicle_neighbors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicle_neighbors_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::af::tiny; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::af::tiny]’ declared here + 165 | void resize(size_type const& new_size, ElementType const& x) { + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::mat3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -20904,114 +20977,34 @@ from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::mat3*; _Size = long unsigned int; _Tp = scitbx::mat3]’ declared here 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::sym_mat3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::sym_mat3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::af::tiny; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::af::tiny]’ declared here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::sym_mat3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/memory:69, - from /usr/include/boost/function/function_base.hpp:33, - from /usr/include/boost/function/detail/prologue.hpp:18, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::sym_mat3*; _Size = long unsigned int; _Tp = scitbx::sym_mat3]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::mat3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/memory:69, - from /usr/include/boost/function/function_base.hpp:33, - from /usr/include/boost/function/detail/prologue.hpp:18, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::mat3*; _Size = long unsigned int; _Tp = scitbx::mat3]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec2]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/memory:69, - from /usr/include/boost/function/function_base.hpp:33, - from /usr/include/boost/function/detail/prologue.hpp:18, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec2*; _Size = long unsigned int; _Tp = scitbx::vec2]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ -g++ -o scitbx/fftpack/boost_python/fftpack_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -21031,6 +21024,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +g++ -o scitbx/fftpack/boost_python/fftpack_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::vector; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ @@ -21056,55 +21051,74 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:50:40: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::mat3; AccessorType = scitbx::af::flex_grid<>]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::mat3]’ declared here - 165 | void resize(size_type const& new_size, ElementType const& x) { - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:51:40: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec2; AccessorType = scitbx::af::flex_grid<>]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec2]’ declared here - 165 | void resize(size_type const& new_size, ElementType const& x) { - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here - 165 | void resize(size_type const& new_size, ElementType const& x) { - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::sym_mat3; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::mat3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::sym_mat3]’ declared here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::mat3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec2]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/memory:69, + from /usr/include/boost/function/function_base.hpp:33, + from /usr/include/boost/function/detail/prologue.hpp:18, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec2*; _Size = long unsigned int; _Tp = scitbx::vec2]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/memory:69, + from /usr/include/boost/function/function_base.hpp:33, + from /usr/include/boost/function/detail/prologue.hpp:18, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ g++ -o scitbx/glmtbx/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/glmtbx/boost_python/ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicle_neighbors_ext.cpp:3: @@ -21116,15 +21130,6 @@ 63 | if (i_cub[1] < 0 || i_cub[1] >= n_cubicles[1]) continue; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicle_neighbors.hpp:65:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 65 | if (i_cub[2] < 0 || i_cub[2] >= n_cubicles[2]) continue; -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/gridding.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp:4: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 67 | for (i = 0; i < opt_factors.size(); i++) { - | ~~^~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicle_neighbors.hpp:4: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicles.h: In instantiation of ‘scitbx::vec3 scitbx::cubicles::i_cubicle(const SiteType&) const [with SiteType = scitbx::vec3; CubicleContentType = std::vector::cubicle_site, std::allocator::cubicle_site> >; FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicle_neighbors.hpp:43:30: required from ‘scitbx::cubicle_neighbors::cubicle_neighbors(const scitbx::af::const_ref >&, const FloatType&, const FloatType&) [with FloatType = double]’ @@ -21141,20 +21146,46 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicles.h:176:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 176 | else if (j >= ref.accessor()[i]) j = ref.accessor()[i]-1; | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec2; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec2]’ declared here + 165 | void resize(size_type const& new_size, ElementType const& x) { + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/gridding.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp:4: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/factorization.h: In constructor ‘scitbx::fftpack::factorization::factorization(std::size_t, bool)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/factorization.h:64:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 64 | for (i = 0; red_n > 1 && i < opt_factors.size(); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 67 | for (i = 0; i < opt_factors.size(); i++) { + | ~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here + 165 | void resize(size_type const& new_size, ElementType const& x) { + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ^~~~~~~~~~~~~ g++ -o scitbx/graphics_utils/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/graphics_utils/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/iso_surface/iso_surface_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/iso_surface/iso_surface_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_cubicle_neighbors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_cubicle_neighbors_ext.so.0 scitbx/cubicle_neighbors_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' - 'lib/scitbx_cubicle_neighbors_ext.so.0'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' - 'lib/scitbx_cubicle_neighbors_ext.so'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' g++ -o scitbx/lbfgs/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DSCITBX_LBFGS_HAVE_LBFGS_FEM -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgs/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgs/lbfgs_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable scitbx/lbfgs/lbfgs_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/lbfgsb/boost_python/lbfgsb_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_cubicle_neighbors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_cubicle_neighbors_ext.so.0 scitbx/cubicle_neighbors_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/io.hpp:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/close_chain.hpp:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:4, @@ -21167,6 +21198,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 63 | if (i < sz) s[i++] = c; | ~~^~~~ +Create symlinks for: 'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' + 'lib/scitbx_cubicle_neighbors_ext.so.0'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' + 'lib/scitbx_cubicle_neighbors_ext.so'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' +g++ -o scitbx/lbfgsb/boost_python/lbfgsb_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/boost_python/lbfgsb_ext.cpp /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { @@ -21177,6 +21212,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 115 | if (dexp <= ad_hoc_limits::max_digit_count) { | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 653 | if (iw+1 != ed.size()) { @@ -21204,8 +21240,6 @@ | ^~~~~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/linalg/boost_python/linalg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/linalg_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/linalg/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/matrix.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/serialization/base_256.h:2, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/floating_point_epsilon.h:4, @@ -21268,7 +21302,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j::minimizer(const int&, const int&, scitbx::af::shared, scitbx::af::shared, scitbx::af::shared, bool, const FloatType&, const FloatType&, const int&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5, A6, A7, A8) [with A0 = boost::python::objects::reference_to_value; A1 = boost::python::objects::reference_to_value; A2 = boost::python::objects::reference_to_value >; A3 = boost::python::objects::reference_to_value >; A4 = boost::python::objects::reference_to_value >; A5 = bool; A6 = boost::python::objects::reference_to_value; A7 = boost::python::objects::reference_to_value; A8 = boost::python::objects::reference_to_value; Value = scitbx::lbfgsb::minimizer; PyObject = _object]’ @@ -21306,41 +21340,37 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb.h:120:9: note: in expansion of macro ‘SCITBX_ASSERT’ 120 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ -g++ -o scitbx/linalg/boost_python/householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/householder.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_glmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_glmtbx_ext.so.0 scitbx/glmtbx/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/scitbx_iso_surface_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_iso_surface_ext.so.0 scitbx/iso_surface/iso_surface_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/scitbx_glmtbx_ext.so.0.0.1' 'lib/scitbx_glmtbx_ext.so.0'->'lib/scitbx_glmtbx_ext.so.0.0.1' 'lib/scitbx_glmtbx_ext.so'->'lib/scitbx_glmtbx_ext.so.0.0.1' -g++ -o scitbx/linalg/boost_python/svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/svd.cpp +g++ -o scitbx/linalg/boost_python/cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/cholesky.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_iso_surface_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_iso_surface_ext.so.0 scitbx/iso_surface/iso_surface_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/scitbx_iso_surface_ext.so.0.0.1' 'lib/scitbx_iso_surface_ext.so.0'->'lib/scitbx_iso_surface_ext.so.0.0.1' 'lib/scitbx_iso_surface_ext.so'->'lib/scitbx_iso_surface_ext.so.0.0.1' -g++ -o scitbx/linalg/boost_python/eigensystem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/eigensystem.cpp +g++ -o scitbx/linalg/boost_python/householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/householder.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/linalg/boost_python/lapack_fem_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp +g++ -o scitbx/linalg/boost_python/svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/svd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_graphics_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_graphics_utils_ext.so.0 scitbx/graphics_utils/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o scitbx/linalg/boost_python/eigensystem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/eigensystem.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_graphics_utils_ext.so.0.0.1' 'lib/scitbx_graphics_utils_ext.so.0'->'lib/scitbx_graphics_utils_ext.so.0.0.1' 'lib/scitbx_graphics_utils_ext.so'->'lib/scitbx_graphics_utils_ext.so.0.0.1' -g++ -o scitbx/lstbx/boost_python/lstbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lstbx/boost_python/lstbx_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/lstbx/boost_python/normal_equations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lstbx/boost_python/normal_equations.cpp +g++ -o scitbx/linalg/boost_python/lapack_fem_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_fftpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_fftpack_ext.so.0 scitbx/fftpack/boost_python/fftpack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o lib/scitbx_lbfgsb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgsb_ext.so.0 scitbx/lbfgsb/boost_python/lbfgsb_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/scitbx_fftpack_ext.so.0.0.1' - 'lib/scitbx_fftpack_ext.so.0'->'lib/scitbx_fftpack_ext.so.0.0.1' - 'lib/scitbx_fftpack_ext.so'->'lib/scitbx_fftpack_ext.so.0.0.1' +g++ -o scitbx/lstbx/boost_python/lstbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lstbx/boost_python/lstbx_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_lbfgsb_ext.so.0.0.1' 'lib/scitbx_lbfgsb_ext.so.0'->'lib/scitbx_lbfgsb_ext.so.0.0.1' 'lib/scitbx_lbfgsb_ext.so'->'lib/scitbx_lbfgsb_ext.so.0.0.1' -g++ -o scitbx/math/boost_python/math_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/math_ext.cpp -g++ -o scitbx/math/boost_python/basic_statistics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/basic_statistics.cpp +g++ -o scitbx/lstbx/boost_python/normal_equations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lstbx/boost_python/normal_equations.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/math/boost_python/math_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/math_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, @@ -21356,36 +21386,42 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp:246:5: note: in expansion of macro ‘SCITBX_ASSERT’ 246 | SCITBX_ASSERT(w.size() == n); | ^~~~~~~~~~~~~ +g++ -o lib/scitbx_fftpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_fftpack_ext.so.0 scitbx/fftpack/boost_python/fftpack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/scitbx_fftpack_ext.so.0.0.1' + 'lib/scitbx_fftpack_ext.so.0'->'lib/scitbx_fftpack_ext.so.0.0.1' + 'lib/scitbx_fftpack_ext.so'->'lib/scitbx_fftpack_ext.so.0.0.1' +g++ -o scitbx/math/boost_python/basic_statistics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/basic_statistics.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/gaussian.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/gaussian.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/golay.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/golay.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/minimum_covering_sphere.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/minimum_covering_sphere.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/math/boost_python/principal_axes_of_inertia.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/principal_axes_of_inertia.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_lbfgs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgs_ext.so.0 scitbx/lbfgs/ext.o scitbx/lbfgs/lbfgs_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/scitbx_linalg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_linalg_ext.so.0 scitbx/linalg/boost_python/linalg_ext.o scitbx/linalg/boost_python/matrix.o scitbx/linalg/boost_python/cholesky.o scitbx/linalg/boost_python/householder.o scitbx/linalg/boost_python/svd.o scitbx/linalg/boost_python/eigensystem.o scitbx/linalg/boost_python/lapack_fem_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/scitbx_lbfgs_ext.so.0.0.1' 'lib/scitbx_lbfgs_ext.so.0'->'lib/scitbx_lbfgs_ext.so.0.0.1' 'lib/scitbx_lbfgs_ext.so'->'lib/scitbx_lbfgs_ext.so.0.0.1' +g++ -o scitbx/math/boost_python/principal_axes_of_inertia.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/principal_axes_of_inertia.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/row_echelon.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/row_echelon.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/math/boost_python/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/tensor_rank_2.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_linalg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_linalg_ext.so.0 scitbx/linalg/boost_python/linalg_ext.o scitbx/linalg/boost_python/matrix.o scitbx/linalg/boost_python/cholesky.o scitbx/linalg/boost_python/householder.o scitbx/linalg/boost_python/svd.o scitbx/linalg/boost_python/eigensystem.o scitbx/linalg/boost_python/lapack_fem_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/scitbx_linalg_ext.so.0.0.1' 'lib/scitbx_linalg_ext.so.0'->'lib/scitbx_linalg_ext.so.0.0.1' 'lib/scitbx_linalg_ext.so'->'lib/scitbx_linalg_ext.so.0.0.1' -g++ -o scitbx/math/boost_python/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/tensor_rank_2.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/chebyshev.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/chebyshev.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/icosahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/icosahedron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_array_family_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_shared_ext.so.0 scitbx/array_family/boost_python/shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -lboost_numpy312 +g++ -o scitbx/math/boost_python/slatec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/slatec.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_array_family_shared_ext.so.0.0.1' 'lib/scitbx_array_family_shared_ext.so.0'->'lib/scitbx_array_family_shared_ext.so.0.0.1' 'lib/scitbx_array_family_shared_ext.so'->'lib/scitbx_array_family_shared_ext.so.0.0.1' -g++ -o scitbx/math/boost_python/slatec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/slatec.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/line_search.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/line_search.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/r3_rotation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/r3_rotation.cpp @@ -21396,16 +21432,16 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/unimodular_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/unimodular_generator.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_lstbx_normal_equations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lstbx_normal_equations_ext.so.0 scitbx/lstbx/boost_python/lstbx_ext.o scitbx/lstbx/boost_python/normal_equations.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o scitbx/math/boost_python/halton.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/halton.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' + 'lib/scitbx_lstbx_normal_equations_ext.so.0'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' + 'lib/scitbx_lstbx_normal_equations_ext.so'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' g++ -o scitbx/math/boost_python/least_squares_plane.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/least_squares_plane.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/continued_fraction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/continued_fraction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_lstbx_normal_equations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lstbx_normal_equations_ext.so.0 scitbx/lstbx/boost_python/lstbx_ext.o scitbx/lstbx/boost_python/normal_equations.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' - 'lib/scitbx_lstbx_normal_equations_ext.so.0'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' - 'lib/scitbx_lstbx_normal_equations_ext.so'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' g++ -o scitbx/math/boost_python/numeric_limits.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/numeric_limits.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/distributions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/distributions.cpp @@ -21417,11 +21453,11 @@ g++ -o scitbx/math/boost_python/zernike_moments.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/zernike_moments.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/2d_zernike_moments.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/2d_zernike_moments.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/weighted_covariance.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/weighted_covariance.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/rotation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/rotation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/interpolation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/tetrahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/tetrahedron.cpp @@ -21454,7 +21490,6 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/sparse/boost_python/vector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/vector.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_flex_ext.so.0 scitbx/array_family/boost_python/flex_ext.o scitbx/array_family/boost_python/flex_grid.o scitbx/array_family/boost_python/flex_bool.o scitbx/array_family/boost_python/flex_size_t.o scitbx/array_family/boost_python/flex_int.o scitbx/array_family/boost_python/flex_float.o scitbx/array_family/boost_python/flex_double.o scitbx/array_family/boost_python/flex_double_matrix.o scitbx/array_family/boost_python/flex_complex_double.o scitbx/array_family/boost_python/flex_std_string.o scitbx/array_family/boost_python/flex_random.o scitbx/array_family/boost_python/flex_sort.o scitbx/array_family/boost_python/flex_histogram.o scitbx/array_family/boost_python/flex_weighted_histogram.o scitbx/array_family/boost_python/flex_mean_and_variance.o scitbx/array_family/boost_python/flex_median.o scitbx/array_family/boost_python/flex_linear_interpolation.o scitbx/array_family/boost_python/flex_vec3_double.o scitbx/array_family/boost_python/flex_vec2_double.o scitbx/array_family/boost_python/flex_vec3_int.o scitbx/array_family/boost_python/flex_sym_mat3_double.o scitbx/array_family/boost_python/flex_mat3_double.o scitbx/array_family/boost_python/flex_tiny_size_t_2.o scitbx/array_family/boost_python/loops.o scitbx/array_family/boost_python/show_sizes.o scitbx/array_family/boost_python/numpy_bridge.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -lboost_numpy312 In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:6, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, @@ -21485,14 +21520,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o lib/scitbx_minpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_minpack_ext.so.0 scitbx/minpack/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_minpack -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/scitbx_minpack_ext.so.0.0.1' - 'lib/scitbx_minpack_ext.so.0'->'lib/scitbx_minpack_ext.so.0.0.1' - 'lib/scitbx_minpack_ext.so'->'lib/scitbx_minpack_ext.so.0.0.1' -g++ -o scitbx/sparse/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/matrix.cpp -g++ -o scitbx/sparse/boost_python/approx_equal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/approx_equal.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/rigid_body/tardy.h: In instantiation of ‘scitbx::af::shared > > scitbx::rigid_body::tardy::construct_bodies(const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const boost::python::api::object&, const FloatType&) [with FloatType = double]’: @@ -21524,6 +21551,9 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/sparse/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/matrix.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_minpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_minpack_ext.so.0 scitbx/minpack/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_minpack -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 12]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/rigid_body/joint_lib.h:45:16: required from ‘scitbx::af::tiny scitbx::rigid_body::joint_lib::rbda_eq_4_13(const scitbx::af::tiny&) [with FloatType = double]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/rigid_body/joint_lib.h:279:21: required from ‘boost::shared_ptr > scitbx::rigid_body::joint_lib::six_dof::time_step_position(const scitbx::af::const_ref&, const ft&) const [with FloatType = double; ft = double]’ @@ -21551,25 +21581,31 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ +Create symlinks for: 'lib/scitbx_minpack_ext.so.0.0.1' + 'lib/scitbx_minpack_ext.so.0'->'lib/scitbx_minpack_ext.so.0.0.1' + 'lib/scitbx_minpack_ext.so'->'lib/scitbx_minpack_ext.so.0.0.1' +g++ -o scitbx/sparse/boost_python/approx_equal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/approx_equal.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_r3_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_r3_utils_ext.so.0 scitbx/r3_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/scitbx_r3_utils_ext.so.0.0.1' 'lib/scitbx_r3_utils_ext.so.0'->'lib/scitbx_r3_utils_ext.so.0.0.1' 'lib/scitbx_r3_utils_ext.so'->'lib/scitbx_r3_utils_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/random.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_array_family_flex_ext.so.0.0.1' - 'lib/scitbx_array_family_flex_ext.so.0'->'lib/scitbx_array_family_flex_ext.so.0.0.1' - 'lib/scitbx_array_family_flex_ext.so'->'lib/scitbx_array_family_flex_ext.so.0.0.1' +g++ -o lib/scitbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_flex_ext.so.0 scitbx/array_family/boost_python/flex_ext.o scitbx/array_family/boost_python/flex_grid.o scitbx/array_family/boost_python/flex_bool.o scitbx/array_family/boost_python/flex_size_t.o scitbx/array_family/boost_python/flex_int.o scitbx/array_family/boost_python/flex_float.o scitbx/array_family/boost_python/flex_double.o scitbx/array_family/boost_python/flex_double_matrix.o scitbx/array_family/boost_python/flex_complex_double.o scitbx/array_family/boost_python/flex_std_string.o scitbx/array_family/boost_python/flex_random.o scitbx/array_family/boost_python/flex_sort.o scitbx/array_family/boost_python/flex_histogram.o scitbx/array_family/boost_python/flex_weighted_histogram.o scitbx/array_family/boost_python/flex_mean_and_variance.o scitbx/array_family/boost_python/flex_median.o scitbx/array_family/boost_python/flex_linear_interpolation.o scitbx/array_family/boost_python/flex_vec3_double.o scitbx/array_family/boost_python/flex_vec2_double.o scitbx/array_family/boost_python/flex_vec3_int.o scitbx/array_family/boost_python/flex_sym_mat3_double.o scitbx/array_family/boost_python/flex_mat3_double.o scitbx/array_family/boost_python/flex_tiny_size_t_2.o scitbx/array_family/boost_python/loops.o scitbx/array_family/boost_python/show_sizes.o scitbx/array_family/boost_python/numpy_bridge.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -lboost_numpy312 g++ -o scitbx/sparse/boost_python/lu_factorization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/lu_factorization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/sparse/boost_python/sparse_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/sparse_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/map_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/set_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/set_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/vector_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/scitbx_array_family_flex_ext.so.0.0.1' + 'lib/scitbx_array_family_flex_ext.so.0'->'lib/scitbx_array_family_flex_ext.so.0.0.1' + 'lib/scitbx_array_family_flex_ext.so'->'lib/scitbx_array_family_flex_ext.so.0.0.1' g++ -o scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/suffixtree/boost_python/suffixtree_shared_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/set_ext.cpp:1: @@ -21591,6 +21627,30 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_matrix.h:4: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/memory:69, + from /usr/include/boost/config/no_tr1/memory.hpp:21, + from /usr/include/boost/get_pointer.hpp:14, + from /usr/include/boost/python/object/pointer_holder.hpp:11, + from /usr/include/boost/python/to_python_indirect.hpp:10, + from /usr/include/boost/python/converter/arg_to_python.hpp:10, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object.hpp:9, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/array_as_list.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/rigid_body/ext.cpp:3: +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, from /usr/include/boost/shared_ptr.hpp:17, @@ -21603,32 +21663,18 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +g++ -o scitbx/suffixtree/boost_python/suffixtree_single_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/suffixtree/boost_python/suffixtree_single_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::set, std::less >, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::set, std::less >, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::set_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/set_wrapper.h:68:52: required from ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&) [with ElementType = std::__cxx11::basic_string; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/set_ext.cpp:10:35: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -g++ -o scitbx/suffixtree/boost_python/suffixtree_single_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/suffixtree/boost_python/suffixtree_single_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_matrix.h:4: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/memory:69, - from /usr/include/boost/config/no_tr1/memory.hpp:21, - from /usr/include/boost/get_pointer.hpp:14, - from /usr/include/boost/python/object/pointer_holder.hpp:11, - from /usr/include/boost/python/to_python_indirect.hpp:10, - from /usr/include/boost/python/converter/arg_to_python.hpp:10, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object.hpp:9, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/array_as_list.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/rigid_body/ext.cpp:3: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::af::tiny*; _Size = long unsigned int; _Tp = scitbx::af::tiny]’ declared here 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here @@ -21662,22 +21708,9 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = std::set; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp:14:50: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::af::tiny*; _Size = long unsigned int; _Tp = scitbx::af::tiny]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ -g++ -o lib/scitbx_suffixtree_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_shared_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/scitbx_suffixtree_shared_ext.so.0.0.1' - 'lib/scitbx_suffixtree_shared_ext.so.0'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' - 'lib/scitbx_suffixtree_shared_ext.so'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' g++ -o scitbx/suffixtree/boost_python/object_extensions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/suffixtree/boost_python/object_extensions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_random_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_random_ext.so.0 scitbx/random/boost_python/random_ext.o scitbx/random/boost_python/basic_distributions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] @@ -21689,95 +21722,98 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ -g++ -o scitbx/wigner/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/wigner/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_random_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_random_ext.so.0 scitbx/random/boost_python/random_ext.o scitbx/random/boost_python/basic_distributions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o smtbx/ab_initio/ab_initio_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/ab_initio/ab_initio_ext.cpp Create symlinks for: 'lib/scitbx_random_ext.so.0.0.1' 'lib/scitbx_random_ext.so.0'->'lib/scitbx_random_ext.so.0.0.1' 'lib/scitbx_random_ext.so'->'lib/scitbx_random_ext.so.0.0.1' +g++ -o scitbx/wigner/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/wigner/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_suffixtree_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_shared_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/scitbx_suffixtree_shared_ext.so.0.0.1' + 'lib/scitbx_suffixtree_shared_ext.so.0'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' + 'lib/scitbx_suffixtree_shared_ext.so'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' +g++ -o smtbx/ab_initio/ab_initio_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/ab_initio/ab_initio_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/array_family/af_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/array_family/af_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_stl_set_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_set_ext.so.0 scitbx/stl/set_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/scitbx_stl_set_ext.so.0.0.1' - 'lib/scitbx_stl_set_ext.so.0'->'lib/scitbx_stl_set_ext.so.0.0.1' - 'lib/scitbx_stl_set_ext.so'->'lib/scitbx_stl_set_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_math_ext.so.0 scitbx/math/boost_python/math_ext.o scitbx/math/boost_python/basic_statistics.o scitbx/math/boost_python/gaussian.o scitbx/math/boost_python/golay.o scitbx/math/boost_python/minimum_covering_sphere.o scitbx/math/boost_python/principal_axes_of_inertia.o scitbx/math/boost_python/row_echelon.o scitbx/math/boost_python/tensor_rank_2.o scitbx/math/boost_python/chebyshev.o scitbx/math/boost_python/icosahedron.o scitbx/math/boost_python/slatec.o scitbx/math/boost_python/line_search.o scitbx/math/boost_python/r3_rotation.o scitbx/math/boost_python/resample.o scitbx/math/boost_python/quadrature.o scitbx/math/boost_python/unimodular_generator.o scitbx/math/boost_python/halton.o scitbx/math/boost_python/least_squares_plane.o scitbx/math/boost_python/continued_fraction.o scitbx/math/boost_python/numeric_limits.o scitbx/math/boost_python/distributions.o scitbx/math/boost_python/exp_functions.o scitbx/math/boost_python/zernike.o scitbx/math/boost_python/zernike_moments.o scitbx/math/boost_python/2d_zernike_moments.o scitbx/math/boost_python/weighted_covariance.o scitbx/math/boost_python/rotation.o scitbx/math/boost_python/interpolation.o scitbx/math/boost_python/tetrahedron.o scitbx/math/boost_python/angle_derivative.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_slatec -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/smtbx_array_family_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_array_family_ext.so.0 smtbx/array_family/af_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm -Create symlinks for: 'lib/smtbx_array_family_ext.so.0.0.1' - 'lib/smtbx_array_family_ext.so.0'->'lib/smtbx_array_family_ext.so.0.0.1' - 'lib/smtbx_array_family_ext.so'->'lib/smtbx_array_family_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/constraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/constraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/scitbx_math_ext.so.0.0.1' + 'lib/scitbx_math_ext.so.0'->'lib/scitbx_math_ext.so.0.0.1' + 'lib/scitbx_math_ext.so'->'lib/scitbx_math_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_stl_set_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_set_ext.so.0 scitbx/stl/set_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/scitbx_stl_set_ext.so.0.0.1' + 'lib/scitbx_stl_set_ext.so.0'->'lib/scitbx_stl_set_ext.so.0.0.1' + 'lib/scitbx_stl_set_ext.so'->'lib/scitbx_stl_set_ext.so.0.0.1' +g++ -o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/geometrical_hydrogens.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_ab_initio_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_ab_initio_ext.so.0 smtbx/ab_initio/ab_initio_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/smtbx_ab_initio_ext.so.0.0.1' 'lib/smtbx_ab_initio_ext.so.0'->'lib/smtbx_ab_initio_ext.so.0.0.1' 'lib/smtbx_ab_initio_ext.so'->'lib/smtbx_ab_initio_ext.so.0.0.1' -g++ -o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/geometrical_hydrogens.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/independent_scalar_parameters.cpp +g++ -o lib/smtbx_array_family_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_array_family_ext.so.0 smtbx/array_family/af_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_math_ext.so.0.0.1' - 'lib/scitbx_math_ext.so.0'->'lib/scitbx_math_ext.so.0.0.1' - 'lib/scitbx_math_ext.so'->'lib/scitbx_math_ext.so.0.0.1' +Create symlinks for: 'lib/smtbx_array_family_ext.so.0.0.1' + 'lib/smtbx_array_family_ext.so.0'->'lib/smtbx_array_family_ext.so.0.0.1' + 'lib/smtbx_array_family_ext.so'->'lib/smtbx_array_family_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/occupancy.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_wigner_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_wigner_ext.so.0 scitbx/wigner/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_wigner_ext.so.0.0.1' 'lib/scitbx_wigner_ext.so.0'->'lib/scitbx_wigner_ext.so.0.0.1' 'lib/scitbx_wigner_ext.so'->'lib/scitbx_wigner_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/reparametrisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_sparse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_sparse_ext.so.0 scitbx/sparse/boost_python/vector.o scitbx/sparse/boost_python/matrix.o scitbx/sparse/boost_python/approx_equal.o scitbx/sparse/boost_python/random.o scitbx/sparse/boost_python/lu_factorization.o scitbx/sparse/boost_python/sparse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o smtbx/refinement/constraints/boost_python/rigid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/rigid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/scitbx_sparse_ext.so.0.0.1' + 'lib/scitbx_sparse_ext.so.0'->'lib/scitbx_sparse_ext.so.0.0.1' + 'lib/scitbx_sparse_ext.so'->'lib/scitbx_sparse_ext.so.0.0.1' +g++ -o smtbx/refinement/constraints/boost_python/same_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/same_group.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_rigid_body_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_rigid_body_ext.so.0 scitbx/rigid_body/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o lib/scitbx_sparse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_sparse_ext.so.0 scitbx/sparse/boost_python/vector.o scitbx/sparse/boost_python/matrix.o scitbx/sparse/boost_python/approx_equal.o scitbx/sparse/boost_python/random.o scitbx/sparse/boost_python/lu_factorization.o scitbx/sparse/boost_python/sparse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/scitbx_rigid_body_ext.so.0.0.1' 'lib/scitbx_rigid_body_ext.so.0'->'lib/scitbx_rigid_body_ext.so.0.0.1' 'lib/scitbx_rigid_body_ext.so'->'lib/scitbx_rigid_body_ext.so.0.0.1' -g++ -o smtbx/refinement/constraints/boost_python/same_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/same_group.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_sparse_ext.so.0.0.1' - 'lib/scitbx_sparse_ext.so.0'->'lib/scitbx_sparse_ext.so.0.0.1' - 'lib/scitbx_sparse_ext.so'->'lib/scitbx_sparse_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/scaled_adp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/scaled_adp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o smtbx/refinement/constraints/boost_python/scatterer_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/scatterer_parameters.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_stl_vector_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_vector_ext.so.0 scitbx/stl/vector_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/scitbx_stl_vector_ext.so.0.0.1' 'lib/scitbx_stl_vector_ext.so.0'->'lib/scitbx_stl_vector_ext.so.0.0.1' 'lib/scitbx_stl_vector_ext.so'->'lib/scitbx_stl_vector_ext.so.0.0.1' -g++ -o smtbx/refinement/constraints/boost_python/scatterer_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/scatterer_parameters.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/shared.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/shared.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_map_ext.so.0 scitbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/symmetry_equivalent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_stl_map_ext.so.0.0.1' - 'lib/scitbx_stl_map_ext.so.0'->'lib/scitbx_stl_map_ext.so.0.0.1' - 'lib/scitbx_stl_map_ext.so'->'lib/scitbx_stl_map_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_suffixtree_single_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_single_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_single_ext.o scitbx/suffixtree/boost_python/object_extensions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_suffixtree_single_ext.so.0.0.1' 'lib/scitbx_suffixtree_single_ext.so.0'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' 'lib/scitbx_suffixtree_single_ext.so'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' +g++ -o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_map_ext.so.0 scitbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o smtbx/refinement/boost_python/least_squares_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/boost_python/least_squares_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/scitbx_stl_map_ext.so.0.0.1' + 'lib/scitbx_stl_map_ext.so.0'->'lib/scitbx_stl_map_ext.so.0.0.1' + 'lib/scitbx_stl_map_ext.so'->'lib/scitbx_stl_map_ext.so.0.0.1' g++ -o smtbx/refinement/boost_python/weighting_schemes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/boost_python/weighting_schemes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/boost_python/least_squares.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/boost_python/least_squares.cpp -g++ -o smtbx/refinement/restraints/boost_python/origin_fixing.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/restraints/boost_python/origin_fixing.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o smtbx/refinement/restraints/boost_python/origin_fixing.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/restraints/boost_python/origin_fixing.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/restraints/boost_python/restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/restraints/boost_python/restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -21792,8 +21828,8 @@ g++ -o spotfinder/array_family/flex_distl_spot.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/python3.12 -Ispotfinder/array_family/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/array_family/src -Ispotfinder/array_family/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/array_family/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/array_family/flex_distl_spot.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/core_toolbox/boost_python/distltbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/python3.12 -Ispotfinder/core_toolbox/boost_python/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/boost_python/src -Ispotfinder/core_toolbox/boost_python/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/boost_python/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/boost_python/distltbx_ext.cpp -g++ -o spotfinder/diffraction/geometry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/python3.12 -Ispotfinder/core_toolbox/boost_python/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/boost_python/src -Ispotfinder/core_toolbox/boost_python/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/boost_python/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/diffraction/geometry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o spotfinder/diffraction/geometry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/python3.12 -Ispotfinder/core_toolbox/boost_python/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/boost_python/src -Ispotfinder/core_toolbox/boost_python/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/boost_python/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/diffraction/geometry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/dxtbx_toolbox/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/python3.12 -Ispotfinder/dxtbx_toolbox/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/src -Ispotfinder/dxtbx_toolbox/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -21808,11 +21844,11 @@ g++ -o scitbx/array_family/boost_python/regression_test_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.12 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_stl_map_ext.so.0 smtbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o scitbx/array_family/tst_accessors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/smtbx_stl_map_ext.so.0.0.1' 'lib/smtbx_stl_map_ext.so.0'->'lib/smtbx_stl_map_ext.so.0.0.1' 'lib/smtbx_stl_map_ext.so'->'lib/smtbx_stl_map_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_accessors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_af_1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_1.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, @@ -21945,15 +21981,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp:248:11: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp:280:11: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp:326:11: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp:371:11: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include/scitbx/array_family/tiny_plain_apply.h:15, @@ -21965,6 +21992,9 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp:280:11: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ @@ -21984,6 +22014,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp:326:11: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp:371:11: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -22062,39 +22098,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object.hpp:9, - from /usr/include/boost/python/list.hpp:10, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:156:78: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:160:72: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:164:71: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:168:71: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:172:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, from /usr/include/boost/smart_ptr/scoped_array.hpp:13, from /usr/include/boost/scoped_array.hpp:13, @@ -22103,6 +22106,7 @@ /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +g++ -o lib/spotfinder_hough_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_hough_ext.so.0 spotfinder/core_toolbox/boost_python/hough_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_1.cpp: In instantiation of ‘static void {anonymous}::array_exercise::run_2() [with ArrayType = scitbx::af::small_plain]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::small_plain]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_1.cpp:619:52: required from here @@ -22166,16 +22170,47 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o lib/spotfinder_hough_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_hough_ext.so.0 spotfinder/core_toolbox/boost_python/hough_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/spotfinder_hough_ext.so.0.0.1' 'lib/spotfinder_hough_ext.so.0'->'lib/spotfinder_hough_ext.so.0.0.1' 'lib/spotfinder_hough_ext.so'->'lib/spotfinder_hough_ext.so.0.0.1' g++ -o scitbx/array_family/tst_af_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_accessors -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_accessors.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o mmtbx/masks/tst_mask -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread mmtbx/masks/tst_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_masks -liotbx_pdb -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm +In file included from /usr/include/boost/assert.hpp:58, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object.hpp:9, + from /usr/include/boost/python/list.hpp:10, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:156:78: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:160:72: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:164:71: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:168:71: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:172:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] g++ -o scitbx/array_family/tst_af_3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/spotfinder_dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_dxtbx_ext.so.0 spotfinder/dxtbx_toolbox/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -ldxtbxspotfinder -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -22268,6 +22303,25 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘const ElementType& scitbx::af::versa_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/simple_io.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_3.cpp:1: @@ -22284,12 +22338,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 65 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -22303,22 +22351,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘const ElementType& scitbx::af::versa_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -Create symlinks for: 'lib/spotfinder_dxtbx_ext.so.0.0.1' - 'lib/spotfinder_dxtbx_ext.so.0'->'lib/spotfinder_dxtbx_ext.so.0.0.1' - 'lib/spotfinder_dxtbx_ext.so'->'lib/spotfinder_dxtbx_ext.so.0.0.1' /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -22397,11 +22429,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_af_2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o scitbx/array_family/tst_af_4.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_4.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o mmtbx/masks/tst_mask -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread mmtbx/masks/tst_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_masks -liotbx_pdb -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm -g++ -o scitbx/array_family/tst_af_5.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_5.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_accessors -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_accessors.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/simple_io.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_4.cpp:1: @@ -22457,6 +22488,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_af_3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/array_family/tst_af_5.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_5.cpp /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -22483,6 +22516,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -22509,7 +22543,9 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_af_2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/array_family/tst_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_mat3.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/smtbx_refinement_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_constraints_ext.so.0 smtbx/refinement/constraints/boost_python/affine.o smtbx/refinement/constraints/boost_python/constraints_ext.o smtbx/refinement/constraints/boost_python/direction.o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o smtbx/refinement/constraints/boost_python/occupancy.o smtbx/refinement/constraints/boost_python/reparametrisation.o smtbx/refinement/constraints/boost_python/rigid.o smtbx/refinement/constraints/boost_python/same_group.o smtbx/refinement/constraints/boost_python/scaled_adp.o smtbx/refinement/constraints/boost_python/scatterer_parameters.o smtbx/refinement/constraints/boost_python/shared.o smtbx/refinement/constraints/boost_python/special_position.o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/simple_io.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_5.cpp:1: @@ -22565,11 +22601,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_mat3.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/smtbx_refinement_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_constraints_ext.so.0 smtbx/refinement/constraints/boost_python/affine.o smtbx/refinement/constraints/boost_python/constraints_ext.o smtbx/refinement/constraints/boost_python/direction.o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o smtbx/refinement/constraints/boost_python/occupancy.o smtbx/refinement/constraints/boost_python/reparametrisation.o smtbx/refinement/constraints/boost_python/rigid.o smtbx/refinement/constraints/boost_python/same_group.o smtbx/refinement/constraints/boost_python/scaled_adp.o smtbx/refinement/constraints/boost_python/scatterer_parameters.o smtbx/refinement/constraints/boost_python/shared.o smtbx/refinement/constraints/boost_python/special_position.o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm -g++ -o scitbx/array_family/tst_af_1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/array_family/tst_af_3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -22602,23 +22633,36 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o lib/spotfinder_dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_dxtbx_ext.so.0 spotfinder/dxtbx_toolbox/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -ldxtbxspotfinder -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/smtbx_refinement_constraints_ext.so.0.0.1' + 'lib/smtbx_refinement_constraints_ext.so.0'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' + 'lib/smtbx_refinement_constraints_ext.so'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' +g++ -o scitbx/array_family/tst_af_1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +Create symlinks for: 'lib/spotfinder_dxtbx_ext.so.0.0.1' + 'lib/spotfinder_dxtbx_ext.so.0'->'lib/spotfinder_dxtbx_ext.so.0.0.1' + 'lib/spotfinder_dxtbx_ext.so'->'lib/spotfinder_dxtbx_ext.so.0.0.1' g++ -o scitbx/array_family/tst_optional_copy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_optional_copy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/boost_python/regression_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=regression_test_ext.so.0 scitbx/array_family/boost_python/regression_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -lboost_numpy312 g++ -o scitbx/array_family/tst_rectangular_full_packed.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_ref_matrix_facet.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/smtbx_refinement_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_restraints_ext.so.0 smtbx/refinement/restraints/boost_python/origin_fixing.o smtbx/refinement/restraints/boost_python/restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o scitbx/array_family/boost_python/regression_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=regression_test_ext.so.0 scitbx/array_family/boost_python/regression_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm -lboost_numpy312 +Create symlinks for: 'lib/smtbx_refinement_restraints_ext.so.0.0.1' + 'lib/smtbx_refinement_restraints_ext.so.0'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' + 'lib/smtbx_refinement_restraints_ext.so'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' +g++ -o scitbx/array_family/tst_sym_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_sym_mat3.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' 'scitbx/array_family/boost_python/regression_test_ext.so.0'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' 'scitbx/array_family/boost_python/regression_test_ext.so'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_ref_matrix_facet.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp +g++ -o scitbx/array_family/tst_unsigned_float_arithmetic.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_unsigned_float_arithmetic.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_optional_copy.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/rectangular_full_packed.h:3, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -22645,58 +22689,68 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_optional_copy.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘const ElementType& scitbx::af::versa_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_af_5 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_5.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -22723,65 +22777,32 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -Create symlinks for: 'lib/smtbx_refinement_constraints_ext.so.0.0.1' - 'lib/smtbx_refinement_constraints_ext.so.0'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' - 'lib/smtbx_refinement_constraints_ext.so'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_af_5 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_5.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm -g++ -o scitbx/array_family/tst_sym_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_sym_mat3.cpp /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -22834,38 +22855,38 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_unsigned_float_arithmetic.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_unsigned_float_arithmetic.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/rectangular_full_packed.h:3, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘const ElementType& scitbx::af::versa_plain::at(size_type) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] @@ -22880,6 +22901,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 65 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -22887,12 +22914,32 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp: In function ‘int main()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:52:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 52 | for(int i=0; i::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -22945,14 +22992,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp: In function ‘int main()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:52:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 52 | for(int i=0; i'lib/smtbx_refinement_restraints_ext.so.0.0.1' - 'lib/smtbx_refinement_restraints_ext.so'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_vec3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_vec3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_rectangular_full_packed -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_rectangular_full_packed.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/array_family/tst_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm -g++ -o scitbx/array_family/tst_ref_matrix_facet -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_ref_matrix_facet.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/error/tst_error.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/error -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error/tst_error.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/fftpack/timing/fftpack_timer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/timing/fftpack_timer.cpp -g++ -o scitbx/array_family/tst_unsigned_float_arithmetic -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_unsigned_float_arithmetic.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/fftpack/timing/test0.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/timing/test0.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/lbfgs/sdrive_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable scitbx/lbfgs/sdrive_fem.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/array_family/tst_unsigned_float_arithmetic -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_unsigned_float_arithmetic.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -23066,10 +23096,9 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/error/tst_error -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/error/tst_error.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/lbfgs/tst_lbfgs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgs/tst_lbfgs.cpp +g++ -o scitbx/fftpack/timing/test0.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/timing/test0.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/lbfgsb/dev/driver1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver1.cpp +g++ -o scitbx/array_family/tst_sym_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_sym_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -23103,6 +23132,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/lbfgs/sdrive_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable scitbx/lbfgs/sdrive_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] @@ -23137,6 +23167,52 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/error/tst_error -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/error/tst_error.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/lbfgs/tst_lbfgs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgs/tst_lbfgs.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/io.hpp:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/close_chain.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem.hpp:10, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include/scitbx/lbfgs_fem.hpp:1, + from scitbx/lbfgs/sdrive_fem.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 63 | if (i < sz) s[i++] = c; + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:9: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] + 115 | if (dexp <= ad_hoc_limits::max_digit_count) { + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 653 | if (iw+1 != ed.size()) { + | ~~~~~^~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/variant.hpp:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 93 | if (c0e[0] == i0) { + | ~~~~~~~^~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:8: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] + 704 | while (pos < internal_file_len) { + | ~~~~^~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_ref_matrix_facet -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_ref_matrix_facet.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/array_family/tst_vec3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_vec3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm +g++ -o scitbx/lbfgsb/dev/driver1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver1.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/lbfgsb/dev/driver2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver2.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -23171,18 +23247,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/io.hpp:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/close_chain.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem.hpp:10, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include/scitbx/lbfgs_fem.hpp:1, - from scitbx/lbfgs/sdrive_fem.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 63 | if (i < sz) s[i++] = c; - | ~~^~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -23268,34 +23332,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:9: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] - 115 | if (dexp <= ad_hoc_limits::max_digit_count) { - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 653 | if (iw+1 != ed.size()) { - | ~~~~~^~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/variant.hpp:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 93 | if (c0e[0] == i0) { - | ~~~~~~~^~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:8: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] - 704 | while (pos < internal_file_len) { - | ~~~~^~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_sym_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_sym_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm -g++ -o scitbx/lbfgsb/dev/driver2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver2.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:6, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver1.cpp:1: @@ -23443,9 +23479,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -23740,57 +23774,59 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ +g++ -o scitbx/matrix/tests/tst_cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests/tst_cholesky.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/fftpack/timing/fftpack_timer -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/fftpack_timer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lomptbx -lm g++ -o scitbx/matrix/tests/tst_givens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests/tst_givens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/lbfgsb/dev/driver1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o scitbx/math/tests/tst -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/math/tests/tst.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/lbfgsb/dev/driver1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o scitbx/matrix/tests/tst_householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests/tst_householder.cpp +g++ -o scitbx/lbfgsb/dev/driver2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/matrix/tests/tst_svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests/tst_svd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/fftpack/timing/test0 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/test0.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lomptbx -lm -g++ -o scitbx/lbfgsb/dev/driver2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o scitbx/serialization/tst_base_256.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/serialization -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/serialization /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/serialization/tst_base_256.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/fftpack/timing/test0 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/test0.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lomptbx -lm g++ -o scitbx/sparse/tests/tst_sparse.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/sparse/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/tests/tst_sparse.cpp -g++ -o scitbx/matrix/tests/tst_givens -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_givens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/serialization/tst_base_256 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/serialization/tst_base_256.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm +g++ -o scitbx/matrix/tests/tst_givens -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_givens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgsb/dev/driver3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/tests/tst_reparametrisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/serialization/tst_base_256 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/serialization/tst_base_256.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o smtbx/refinement/constraints/tests/tst_special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.12/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/tests/tst_special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/matrix/tests/tst_cholesky -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_cholesky.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/matrix/tests/tst_svd -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_svd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o lib/spotfinder_distltbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_distltbx_ext.so.0 spotfinder/core_toolbox/boost_python/distltbx_ext.o spotfinder/diffraction/geometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm g++ -o scitbx/matrix/tests/tst_householder -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_householder.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o lib/spotfinder_distltbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_distltbx_ext.so.0 spotfinder/core_toolbox/boost_python/distltbx_ext.o spotfinder/diffraction/geometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm +g++ -o scitbx/matrix/tests/tst_svd -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_svd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system Create symlinks for: 'lib/spotfinder_distltbx_ext.so.0.0.1' 'lib/spotfinder_distltbx_ext.so.0'->'lib/spotfinder_distltbx_ext.so.0.0.1' 'lib/spotfinder_distltbx_ext.so'->'lib/spotfinder_distltbx_ext.so.0.0.1' -g++ -o lib/smtbx_refinement_least_squares_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_least_squares_ext.so.0 smtbx/refinement/boost_python/least_squares_ext.o smtbx/refinement/boost_python/weighting_schemes.o smtbx/refinement/boost_python/least_squares.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm g++ -o scitbx/sparse/tests/tst_sparse -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/sparse/tests/tst_sparse.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -Create symlinks for: 'lib/smtbx_refinement_least_squares_ext.so.0.0.1' - 'lib/smtbx_refinement_least_squares_ext.so.0'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' - 'lib/smtbx_refinement_least_squares_ext.so'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' -g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system g++ -o smtbx/refinement/constraints/tests/tst_special_position -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_special_position.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system -g++ -o lib/smtbx_structure_factors_direct_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_structure_factors_direct_ext.so.0 smtbx/structure_factors/direct/boost_python/ext.o smtbx/structure_factors/direct/boost_python/standard_xray.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_reparametrisation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system +g++ -o lib/smtbx_structure_factors_direct_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_structure_factors_direct_ext.so.0 smtbx/structure_factors/direct/boost_python/ext.o smtbx/structure_factors/direct/boost_python/standard_xray.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/smtbx_structure_factors_direct_ext.so.0.0.1' 'lib/smtbx_structure_factors_direct_ext.so.0'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' 'lib/smtbx_structure_factors_direct_ext.so'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' +g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system +g++ -o lib/smtbx_refinement_least_squares_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_least_squares_ext.so.0 smtbx/refinement/boost_python/least_squares_ext.o smtbx/refinement/boost_python/weighting_schemes.o smtbx/refinement/boost_python/least_squares.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_system -lboost_python312 -lm +Create symlinks for: 'lib/smtbx_refinement_least_squares_ext.so.0.0.1' + 'lib/smtbx_refinement_least_squares_ext.so.0'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' + 'lib/smtbx_refinement_least_squares_ext.so'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' g++ -o scitbx/array_family/tst_af_4 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_4.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o lib/spotfinder_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_array_family_flex_ext.so.0 spotfinder/array_family/flex_ext.o spotfinder/array_family/flex_distl_spot.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python312 -lm Create symlinks for: 'lib/spotfinder_array_family_flex_ext.so.0.0.1' 'lib/spotfinder_array_family_flex_ext.so.0'->'lib/spotfinder_array_family_flex_ext.so.0.0.1' 'lib/spotfinder_array_family_flex_ext.so'->'lib/spotfinder_array_family_flex_ext.so.0.0.1' scons: done building targets. -usr+sys time: 29.36 seconds -wall clock time: 11 minutes 38.05 seconds (698.05 seconds total) +usr+sys time: 29.34 seconds +wall clock time: 17 minutes 27.45 seconds (1047.45 seconds total) I: pybuild base:311: cd '/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build'_ && ./bin/libtbx.scons -j 12 scons: Reading SConscript files ... libtbx.scons: using flags from initial environment: @@ -23824,19 +23860,19 @@ g++ -o cctbx/maptbx/dijkstra.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/dijkstra.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/xplor/map_reader.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/xplor/map_reader.cpp -g++ -o iotbx/xplor/map_writer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/xplor/map_writer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/xplor/map_writer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/xplor/map_writer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/cut.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/direct_space_asu/proto/cut.cpp g++ -o cctbx/sgtbx/direct_space_asu/proto/reference_table.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/direct_space_asu/proto/reference_table.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/basic.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/basic.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/it1992.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering/it1992.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/wk1995.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering/wk1995.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/xray_scattering/n_gaussian_raw.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering/n_gaussian_raw.cpp @@ -23849,18 +23885,18 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_01_12.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_01_12.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libiotbx_xplor.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_xplor.so.0 iotbx/xplor/map_reader.o iotbx/xplor/map_writer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm -Create symlinks for: 'lib/libiotbx_xplor.so.0.0.1' - 'lib/libiotbx_xplor.so.0'->'lib/libiotbx_xplor.so.0.0.1' - 'lib/libiotbx_xplor.so'->'lib/libiotbx_xplor.so.0.0.1' g++ -o cctbx/eltbx/henke_tables_13_24.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_13_24.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_25_36.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libiotbx_xplor.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_xplor.so.0 iotbx/xplor/map_reader.o iotbx/xplor/map_writer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o cctbx/eltbx/henke_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_37_48.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_49_60.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_49_60.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/libiotbx_xplor.so.0.0.1' + 'lib/libiotbx_xplor.so.0'->'lib/libiotbx_xplor.so.0.0.1' + 'lib/libiotbx_xplor.so'->'lib/libiotbx_xplor.so.0.0.1' g++ -o cctbx/eltbx/henke_tables_61_72.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_61_72.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/henke_tables_73_84.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/henke_tables_73_84.cpp @@ -23880,8 +23916,8 @@ g++ -o cctbx/eltbx/sasaki_tables_13_24.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_13_24.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_25_36.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_25_36.cpp -g++ -o cctbx/eltbx/sasaki_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_37_48.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/eltbx/sasaki_tables_37_48.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_37_48.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/sasaki_tables_49_60.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include cctbx/eltbx/sasaki_tables_49_60.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -23894,11 +23930,11 @@ g++ -o cctbx/eltbx/wavelengths.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/wavelengths.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/electron_scattering/peng1996.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/electron_scattering/peng1996.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/eltbx/attenuation_coefficient.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/attenuation_coefficient.cpp -g++ -o cctbx/miller/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/miller/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/asu.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/bins.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/bins.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/index_generator.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/index_generator.cpp @@ -23916,8 +23952,8 @@ g++ -o cctbx/sgtbx/bricks.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/bricks.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/change_of_basis_op.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.cpp -g++ -o cctbx/sgtbx/find_affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/find_affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/find_affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/find_affine.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/group_codes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/group_codes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -23926,14 +23962,14 @@ g++ -o cctbx/sgtbx/lattice_tr.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/lattice_tr.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/lattice_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/lattice_symmetry.cpp -g++ -o cctbx/sgtbx/miller.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/miller.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/miller.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/miller.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reciprocal_space_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/reciprocal_space_asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/reciprocal_space_ref_asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/reciprocal_space_ref_asu.cpp -g++ -o cctbx/sgtbx/rot_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/rot_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/rot_mx_info.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx_info.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -23942,21 +23978,21 @@ g++ -o cctbx/sgtbx/rt_mx.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/select_generators.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/select_generators.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/seminvariant.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/seminvariant.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/site_symmetry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/space_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/space_group_type.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group_type.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/symbols.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/symbols.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensor_rank_2.cpp -g++ -o cctbx/sgtbx/tr_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/sgtbx/tr_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/tr_vec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_vec.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/sgtbx/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/utils.cpp @@ -23979,16 +24015,16 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o omptbx/stubs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/omptbx/stubs.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libomptbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libomptbx.so.0 omptbx/stubs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +Create symlinks for: 'lib/libomptbx.so.0.0.1' + 'lib/libomptbx.so.0'->'lib/libomptbx.so.0.0.1' + 'lib/libomptbx.so'->'lib/libomptbx.so.0.0.1' g++ -o boost_adaptbx/graph/breadth_first_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libomptbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libomptbx.so.0 omptbx/stubs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o boost_adaptbx/graph/clustering_algorithm_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/connected_component_algorithm_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/libomptbx.so.0.0.1' - 'lib/libomptbx.so.0'->'lib/libomptbx.so.0.0.1' - 'lib/libomptbx.so'->'lib/libomptbx.so.0.0.1' g++ -o boost_adaptbx/graph/graph_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/graph_structure_comparison_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp @@ -23998,8 +24034,8 @@ g++ -o boost_adaptbx/graph/metric_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/metric_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/graph/min_cut_max_flow_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp -g++ -o boost_adaptbx/graph/utility_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/utility_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o boost_adaptbx/graph/utility_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/utility_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/hybrid_times_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/hybrid_times_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -24024,7 +24060,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -24041,7 +24077,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -24058,7 +24094,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/clustering_algorithm_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -24075,7 +24111,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/breadth_first_search_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -24092,7 +24128,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_structure_comparison_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -24109,7 +24145,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/connected_component_algorithm_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -24126,7 +24162,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/maximum_clique_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/metric_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -24143,7 +24179,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/utility_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/min_cut_max_flow_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -24160,7 +24196,7 @@ from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/object.hpp:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/graph_type.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/metric_ext.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/graph/utility_ext.cpp:1: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -24176,6 +24212,9 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o boost_adaptbx/tuple_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/boost_adaptbx/tuple_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o boost_adaptbx/tests/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread boost_adaptbx/tests/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DSWIG_PYTHON_STRICT_BYTE_CHAR -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/boost_python/cbflib_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, from /usr/include/boost/function/detail/prologue.hpp:12, from /usr/include/boost/function/function_template.hpp:13, @@ -24191,15 +24230,12 @@ /usr/include/boost/timer.hpp:25:1: note: ‘#pragma message: This header is deprecated. Use the facilities in instead.’ 25 | BOOST_HEADER_DEPRECATED( "the facilities in " ) | ^~~~~~~~~~~~~~~~~~~~~~~ -g++ -o cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DSWIG_PYTHON_STRICT_BYTE_CHAR -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/boost_python/cbflib_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o boost_adaptbx/tests/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread boost_adaptbx/tests/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o cbflib_adaptbx/detectors/buffer_based_service.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/buffer_based_service.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/cbf_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/cbf_adaptor.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/cbf_byte_offset_optimized.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/mar_adaptor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include/hdf5/serial -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/mar_adaptor.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cbflib_adaptbx/detectors/tst_memory.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DCBF_NO_REGEX -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx/detectors/tst_memory.cpp @@ -24209,9 +24245,9 @@ gcc -o ccp4io_adaptbx/fortran_call_stubs.o -c -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ccp4io -I. -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ccp4io_adaptbx/fortran_call_stubs.c gcc -o ccp4io_adaptbx/printf_wrappers.o -c -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ccp4io -I. -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ccp4io_adaptbx/printf_wrappers.c g++ -o cctbx/adp_restraints/adp_restraints_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/adp_restraints/adp_restraints_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/adp_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/adp_restraints/adp_restraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/adp_similarity_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/adp_restraints/adp_similarity_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/adp_restraints/aniso_restraints_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/adp_restraints/aniso_restraints_bpl.cpp @@ -24234,6 +24270,14 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/array_family/boost_python/flex_hendrickson_lattman.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/array_family/boost_python/flex_hendrickson_lattman.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/array_family/boost_python/flex_miller_index.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/array_family/boost_python/flex_miller_index.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/array_family/boost_python/flex_xray_scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/array_family/boost_python/flex_xray_scatterer.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/boost_python/emma_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/boost_python/emma_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/boost_python/french_wilson_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/boost_python/french_wilson_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libcctbx_sgtbx_asu.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libcctbx_sgtbx_asu.so.0 cctbx/sgtbx/direct_space_asu/proto/cut.o cctbx/sgtbx/direct_space_asu/proto/reference_table.o cctbx/sgtbx/direct_space_asu/proto/direct_space_asu.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lm Create symlinks for: 'lib/libcctbx_sgtbx_asu.so.0.0.1' 'lib/libcctbx_sgtbx_asu.so.0'->'lib/libcctbx_sgtbx_asu.so.0.0.1' @@ -24243,14 +24287,6 @@ 'lib/libasymmetric_map.so.0'->'lib/libasymmetric_map.so.0.0.1' 'lib/libasymmetric_map.so'->'lib/libasymmetric_map.so.0.0.1' g++ -o bin/cctbx_blobs -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/maptbx/blobs_cmd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lm -g++ -o cctbx/array_family/boost_python/flex_miller_index.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/array_family/boost_python/flex_miller_index.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/array_family/boost_python/flex_xray_scatterer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/array_family/boost_python/flex_xray_scatterer.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/boost_python/emma_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/boost_python/emma_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/boost_python/french_wilson_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/boost_python/french_wilson_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/orientation_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/boost_python/orientation_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/boost_python/statistics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/boost_python/statistics_ext.cpp @@ -24262,8 +24298,8 @@ g++ -o cctbx/crystal/close_packing_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/close_packing_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/coordination_sequences_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/coordination_sequences_bpl.cpp -g++ -o cctbx/crystal/crystal_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/crystal_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/crystal/crystal_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/crystal_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/crystal/direct_space_asu_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -24377,17 +24413,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i, scitbx::af::trivial_accessor>&, const cctbx::geometry_restraints::bond_similarity_proxy&)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity.h:84:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 84 | for(int i=0;i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 108 | for(int i=0;i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -24415,6 +24432,38 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/restraints.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/chirality.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/chirality_bpl.cpp:13: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_similarity_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:55:44: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny, 2>; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:79:54: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -24445,6 +24494,21 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +g++ -o cctbx/geometry_restraints/geometry_restraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/geometry_restraints_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/wyckoff.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_misc.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:14: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_similarity_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:55:44: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared, 2> >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny, 2>; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_similarity_bpl.cpp:79:54: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/restraints.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:12: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = dihedral_proxy]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:110:17: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/proxy_select.h:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 187 | if (match_ctr != i_seqs.size()) { + | ~~~~~~~~~~^~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -24512,16 +24577,25 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:869:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, std::allocator > >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 869 | for(int i_sym=0; i_sym::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::dihedral_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:84:65: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -24551,44 +24625,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::bond_asu_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/bond_bpl.cpp:340:25: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -g++ -o cctbx/geometry_restraints/motif_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/motif_bpl.cpp -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:13: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/proxy_select.h: In instantiation of ‘scitbx::af::shared cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = dihedral_proxy]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:110:17: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/proxy_select.h:187:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 187 | if (match_ctr != i_seqs.size()) { - | ~~~~~~~~~~^~~~~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -In file included from /usr/include/c++/13/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:11: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::dihedral_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral_bpl.cpp:84:65: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ g++ -o cctbx/geometry_restraints/nonbonded_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/geometry_restraints/nonbonded_sorted_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp @@ -24640,6 +24676,17 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/wyckoff.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_sorted.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp:8: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::nonbonded_asu_proxy; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_bpl.cpp:125:25: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/wyckoff.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/sym_equiv_sites.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/crystal/direct_space_asu.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/asu_cache.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_sorted.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/nonbonded_sorted_bpl.cpp:8: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::parallelity_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:82:60: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -24714,25 +24769,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -In file included from /usr/include/c++/13/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:11: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = cctbx::geometry_restraints::parallelity_proxy; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/parallelity_bpl.cpp:82:60: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ g++ -o cctbx/maptbx/asymmetric_map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/asymmetric_map_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/bcr/bcr_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/bcr/bcr_ext.cpp @@ -24754,8 +24790,8 @@ g++ -o cctbx/maptbx/boost_python/pymol_interface.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/boost_python/pymol_interface.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/maptbx/boost_python/statistics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/boost_python/statistics.cpp -g++ -o cctbx/maptbx/boost_python/structure_factors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/boost_python/structure_factors.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/maptbx/boost_python/structure_factors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/maptbx/boost_python/structure_factors.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/masks/boost_python/masks_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/masks/boost_python/masks_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -24763,8 +24799,6 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/math/time_trigonometry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/math/time_trigonometry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/merging/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/merging/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, from /usr/include/boost/smart_ptr/shared_array.hpp:17, from /usr/include/boost/shared_array.hpp:17, @@ -24773,9 +24807,11 @@ /usr/include/boost/timer.hpp:25:1: note: ‘#pragma message: This header is deprecated. Use the facilities in instead.’ 25 | BOOST_HEADER_DEPRECATED( "the facilities in " ) | ^~~~~~~~~~~~~~~~~~~~~~~ +g++ -o cctbx/math/time_trigonometry -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/math/time_trigonometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lm +g++ -o cctbx/merging/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/merging/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/amplitude_normalisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/amplitude_normalisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/math/time_trigonometry -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/math/time_trigonometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lm g++ -o cctbx/miller/boost_python/asu.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/asu.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/bins.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/bins.cpp @@ -24791,8 +24827,8 @@ g++ -o cctbx/miller/boost_python/index_span.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/index_span.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/lookup_utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/lookup_utils.cpp -g++ -o cctbx/miller/boost_python/match_bijvoet_mates.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/match_bijvoet_mates.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/miller/boost_python/match_bijvoet_mates.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/match_bijvoet_mates.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/miller/boost_python/match_indices.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/boost_python/match_indices.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -24872,8 +24908,8 @@ g++ -o cctbx/translation_search/boost_python/translation_search_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/translation_search/boost_python/translation_search_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/boost_python/fast_minimum_reduction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx/boost_python/fast_minimum_reduction.cpp -g++ -o cctbx/uctbx/boost_python/uctbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx/boost_python/uctbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/uctbx/boost_python/uctbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx/boost_python/uctbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/uctbx/determine_unit_cell/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DHAVE_SINGLEFILE_NCDIST -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx/determine_unit_cell/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -24887,6 +24923,8 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/f_model_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/f_model_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/fast_gradients.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/fast_gradients.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/curvatures_simple.h:4, @@ -24895,8 +24933,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -24922,10 +24958,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/gradient_flags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/gradient_flags.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/boost_python/gradients_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/gradients_direct.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/gradients_direct.h:4, @@ -24935,8 +24967,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -24962,6 +24992,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/gradient_flags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/gradient_flags.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/gradients_direct.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/gradients_direct.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sampling_base.h:4, @@ -24971,6 +25005,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -24996,8 +25032,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/minimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/minimization.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/f_model.h:11, @@ -25040,6 +25074,8 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ +g++ -o cctbx/xray/boost_python/minimization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/minimization.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/f_model.h: In instantiation of ‘cctbx::xray::f_model_core_data::f_model_core_data cctbx::xray::f_model_core_data::f_model_core_data::select(const scitbx::af::const_ref&) const [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/f_model_bpl.cpp:174:32: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/f_model.h:732:38: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -25050,6 +25086,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/f_model.h:732:10: note: in expansion of macro ‘CCTBX_ASSERT’ 732 | CCTBX_ASSERT( iselection[ii]::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -25069,6 +25109,20 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx.h:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_constraints.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:4: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] + 69 | if (N < last - first) throw_range_error(); + | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/grouped_data.h:14, @@ -25111,24 +25165,6 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx.h:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_constraints.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:4: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] - 69 | if (N < last - first) throw_range_error(); - | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/parameter_map.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/parameter_map.cpp -g++ -o cctbx/xray/boost_python/sampled_model_density.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sampled_model_density.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/sampling_base.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sampling_base.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/grouped_data.h: In instantiation of ‘FloatType cctbx::xray::grouped_data::merger::bic() [with FloatType = double]’: @@ -25150,6 +25186,15 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/grouped_data.h:231:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 231 | for (int ii=1;ii::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::unmerged_data(scitbx::af::const_ref >, scitbx::af::const_ref >, const cctbx::sgtbx::space_group&, const bool&) [with FloatType = double]’: /usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; Value = cctbx::xray::grouped_data::unmerged_data; PyObject = _object]’ /usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<4>::apply::execute(PyObject*, t0, t1, t2, t3) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector4 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref >&; t2 = const cctbx::sgtbx::space_group&; t3 = const bool&]’ @@ -25192,17 +25237,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/grouped_data.h:167:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 167 | for (int ii=0; ii::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -25214,45 +25248,23 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +g++ -o cctbx/xray/boost_python/scatterer_flags.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer_flags.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o cctbx/xray/boost_python/scattering_type_registry.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sampling_base.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sampled_model_density.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sampled_model_density.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sampling_base.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sampling_base.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx.h:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_constraints.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:4: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] - 69 | if (N < last - first) throw_range_error(); - | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/parameter_map.cpp:9: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/parameter_map.h: In instantiation of ‘void cctbx::xray::parameter_map::init_scatterer_part(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/parameter_map.h:54:7: required from ‘cctbx::xray::parameter_map::parameter_map(const scitbx::af::const_ref&) [with XRayScattererType = cctbx::xray::scatterer<>]’ @@ -25298,14 +25296,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/parameter_map.h:61:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 61 | for(int i_sc=0; i_sc < scatterers.size(); ++i_sc) { | ~~~~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h: In instantiation of ‘static void cctbx::xray::inelastic_form_factors::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::henke::table]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:349:54: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 426 | for (int i=0; i < scatterers.size(); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h: In instantiation of ‘static void cctbx::xray::inelastic_form_factors::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::sasaki::table]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:353:55: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -25317,6 +25307,28 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx.h:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_constraints.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:4: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In instantiation of ‘scitbx::af::small_plain::small_plain(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:50:33: required from ‘scitbx::af::small::small(const OtherElementType*, const OtherElementType*) [with OtherElementType = float; ElementType = double; long unsigned int N = 10]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/eltbx/xray_scattering.h:155:11: required from ‘cctbx::eltbx::xray_scattering::gaussian cctbx::eltbx::xray_scattering::base::fetch() const [with long unsigned int N = 4]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:192:40: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] + 69 | if (N < last - first) throw_range_error(); + | ~~^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/sampling_base.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/sampling_base.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -25328,6 +25340,13 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::henke::table]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:349:54: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 426 | for (int i=0; i < scatterers.size(); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h: In instantiation of ‘static void cctbx::xray::inelastic_form_factors::set(const scitbx::af::ref&, float, bool) [with ScattererType = cctbx::xray::scatterer<>; TableType = cctbx::eltbx::sasaki::table]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scatterer.cpp:353:55: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_utils.h:426:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -25359,6 +25397,13 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/scattering_type_registry.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 49 | std::auto_ptr @@ -25409,10 +25439,6 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -g++ -o cctbx/xray/boost_python/twin_components.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_components.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/boost_python/twin_targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_targets.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -25438,19 +25464,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/boost_python/xray_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/xray_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o cctbx/xray/observations/boost_python/observations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/observations/boost_python/observations.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/structure_factors_direct.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -25478,6 +25484,32 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +g++ -o cctbx/xray/boost_python/structure_factors_simple.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/targets.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/twin_components.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_components.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/twin_targets.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_targets.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/boost_python/xray_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/xray_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/observations/boost_python/observations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/observations/boost_python/observations.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/observations/boost_python/observations_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/observations/boost_python/observations_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o cctbx/xray/targets/shelxl_wght_ls_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/targets/shelxl_wght_ls_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/structure_factors_direct.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/structure_factors_direct.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -25489,6 +25521,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +g++ -o chiltbx/handle_test -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread chiltbx/handle_test.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/uctbx.h:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:6, @@ -25503,8 +25536,16 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:69:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 69 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o cctbx/xray/targets/shelxl_wght_ls_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/targets/shelxl_wght_ls_bpl.cpp +g++ -o cma_es/cma/cmaes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cma_es/cma/cmaes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scattering_type_registry.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/structure_factors_simple.h:12, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/structure_factors_simple.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h: In member function ‘bool cctbx::sgtbx::site_symmetry_ops::contains(const cctbx::sgtbx::rt_mx&) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 100 | for (int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -25555,8 +25596,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:300:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_variable_capacity::tuple_mapping_variable_capacity() [with ContainerType = scitbx::af::shared*>]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_components.cpp:92:78: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -g++ -o chiltbx/handle_test.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/chiltbx/handle_test.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/match_indices.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/lookup_utils.h:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:14, @@ -25599,8 +25638,7 @@ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ -g++ -o chiltbx/handle_test -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread chiltbx/handle_test.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o cma_es/cma/cmaes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cma_es/cma/cmaes.cpp +g++ -o cma_es/cma_es_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cma_es/cma_es_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘scitbx::af::shared cctbx::xray::twin_targets::twin_completion::get_free_model_selection(scitbx::af::const_ref >, const scitbx::af::const_ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:42:50: required from here @@ -25788,36 +25826,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:948:17: note: in expansion of macro ‘CCTBX_ASSERT’ 948 | CCTBX_ASSERT(f_model.size() > loc_twin_calc); // XXX trap for long standing seg. fault bug | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h: In instantiation of ‘cctbx::xray::twin_targets::hemihedral_r_values::hemihedral_r_values(const scitbx::af::const_ref >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&) [with FloatType = double]’: -/usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value&>; Value = cctbx::xray::twin_targets::hemihedral_r_values; PyObject = _object]’ -/usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<5>::apply::execute(PyObject*, t0, t1, t2, t3, t4) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref >&; t2 = const cctbx::sgtbx::space_group&; t3 = const bool&; t4 = const scitbx::mat3&]’ -/usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; Arity = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ -/usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; keyword_range = std::pair]’ -/usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; boost::python::detail::keyword_range = std::pair]’ -/usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>]’ -/usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; classT = boost::python::class_ >]’ -/usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>]’ -/usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; W = cctbx::xray::twin_targets::hemihedral_r_values; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:169:13: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:544:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 544 | for (long ii=0;ii::refine(const FloatType&) [with FloatType = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/quadrature.h:523:14: required from ‘scitbx::math::quadrature::gauss_legendre_engine::gauss_legendre_engine(const int&) [with FloatType = double]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:1070:68: required from ‘cctbx::xray::twin_targets::single_twin_likelihood::single_twin_likelihood(const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const bool&, const bool&, const FloatType&, const FloatType&, const FloatType&, const int&) [with FloatType = double]’ -/usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5, A6, A7, A8, A9, A10, A11, A12, A13) [with A0 = boost::python::objects::reference_to_value; A1 = boost::python::objects::reference_to_value; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value; A5 = boost::python::objects::reference_to_value; A6 = boost::python::objects::reference_to_value; A7 = boost::python::objects::reference_to_value; A8 = boost::python::objects::reference_to_value; A9 = boost::python::objects::reference_to_value; A10 = boost::python::objects::reference_to_value; A11 = boost::python::objects::reference_to_value; A12 = boost::python::objects::reference_to_value; A13 = boost::python::objects::reference_to_value; Value = cctbx::xray::twin_targets::single_twin_likelihood; PyObject = _object]’ -/usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<14>::apply::execute(PyObject*, t0, t1, t2, t3, t4, t5, t6, t7, t8, t9, t10, t11, t12, t13) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector14; PyObject = _object; t0 = const double&; t1 = const double&; t2 = const double&; t3 = const double&; t4 = const double&; t5 = const double&; t6 = const double&; t7 = const double&; t8 = const bool&; t9 = const bool&; t10 = const double&; t11 = const double&; t12 = const double&; t13 = const int&]’ -/usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] -/usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector14; NArgs = boost::mpl::size >; boost::python::detail::keyword_range = std::pair]’ -/usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init]’ -/usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >; classT = boost::python::class_ >]’ -/usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init]’ -/usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init; W = cctbx::xray::twin_targets::single_twin_likelihood; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:343:14: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/quadrature.h:546:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 546 | for (int ii=0;ii::hemihedral_r_values(const scitbx::af::const_ref >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&) [with FloatType = double]’: +/usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4) [with A0 = boost::python::objects::reference_to_value >&>; A1 = boost::python::objects::reference_to_value >&>; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value&>; Value = cctbx::xray::twin_targets::hemihedral_r_values; PyObject = _object]’ +/usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<5>::apply::execute(PyObject*, t0, t1, t2, t3, t4) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; PyObject = _object; t0 = const scitbx::af::const_ref >&; t1 = const scitbx::af::const_ref >&; t2 = const cctbx::sgtbx::space_group&; t3 = const bool&; t4 = const scitbx::mat3&]’ +/usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: required from ‘boost::python::api::object boost::python::detail::make_keyword_range_constructor(const CallPolicies&, const keyword_range&, Holder*, ArgList*, Arity*) [with ArgList = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; Arity = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; Holder = boost::python::objects::value_holder >; CallPolicies = boost::python::default_call_policies; keyword_range = std::pair]’ +/usr/include/boost/python/init.hpp:310:66: required from ‘void boost::python::detail::def_init_aux(ClassT&, const Signature&, NArgs, const CallPoliciesT&, const char*, const keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; keyword_range = std::pair]’ +/usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector5 >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; NArgs = boost::mpl::size >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; boost::python::detail::keyword_range = std::pair]’ +/usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>]’ +/usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&> >; classT = boost::python::class_ >]’ +/usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>]’ +/usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init >&, const scitbx::af::const_ref >&, const cctbx::sgtbx::space_group&, const bool&, const scitbx::mat3&>; W = cctbx::xray::twin_targets::hemihedral_r_values; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:169:13: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:544:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 544 | for (long ii=0;ii::refine(const FloatType&) [with FloatType = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/quadrature.h:523:14: required from ‘scitbx::math::quadrature::gauss_legendre_engine::gauss_legendre_engine(const int&) [with FloatType = double]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/twin_targets.h:1070:68: required from ‘cctbx::xray::twin_targets::single_twin_likelihood::single_twin_likelihood(const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const FloatType&, const bool&, const bool&, const FloatType&, const FloatType&, const FloatType&, const int&) [with FloatType = double]’ +/usr/include/boost/python/object/value_holder.hpp:131:11: required from ‘boost::python::objects::value_holder::value_holder(PyObject*, A0, A1, A2, A3, A4, A5, A6, A7, A8, A9, A10, A11, A12, A13) [with A0 = boost::python::objects::reference_to_value; A1 = boost::python::objects::reference_to_value; A2 = boost::python::objects::reference_to_value; A3 = boost::python::objects::reference_to_value; A4 = boost::python::objects::reference_to_value; A5 = boost::python::objects::reference_to_value; A6 = boost::python::objects::reference_to_value; A7 = boost::python::objects::reference_to_value; A8 = boost::python::objects::reference_to_value; A9 = boost::python::objects::reference_to_value; A10 = boost::python::objects::reference_to_value; A11 = boost::python::objects::reference_to_value; A12 = boost::python::objects::reference_to_value; A13 = boost::python::objects::reference_to_value; Value = cctbx::xray::twin_targets::single_twin_likelihood; PyObject = _object]’ +/usr/include/boost/python/object/make_holder.hpp:95:18: required from ‘static void boost::python::objects::make_holder<14>::apply::execute(PyObject*, t0, t1, t2, t3, t4, t5, t6, t7, t8, t9, t10, t11, t12, t13) [with Holder = boost::python::objects::value_holder >; ArgList = boost::mpl::vector14; PyObject = _object; t0 = const double&; t1 = const double&; t2 = const double&; t3 = const double&; t4 = const double&; t5 = const double&; t6 = const double&; t7 = const double&; t8 = const bool&; t9 = const bool&; t10 = const double&; t11 = const double&; t12 = const double&; t13 = const int&]’ +/usr/include/boost/python/detail/make_keyword_range_fn.hpp:63:47: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] +/usr/include/boost/python/init.hpp:377:31: required from ‘static void boost::python::detail::define_class_init_helper<0>::apply(ClassT&, const CallPoliciesT&, const Signature&, NArgs, const char*, const boost::python::detail::keyword_range&) [with ClassT = boost::python::class_ >; CallPoliciesT = boost::python::default_call_policies; Signature = boost::mpl::vector14; NArgs = boost::mpl::size >; boost::python::detail::keyword_range = std::pair]’ +/usr/include/boost/python/init.hpp:149:67: required from ‘void boost::python::init_base::visit(classT&) const [with classT = boost::python::class_ >; DerivedT = boost::python::init]’ +/usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >; classT = boost::python::class_ >]’ +/usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_ >; DerivedVisitor = boost::python::init]’ +/usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::init; W = cctbx::xray::twin_targets::single_twin_likelihood; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_ >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/boost_python/twin_targets.cpp:343:14: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/quadrature.h:546:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 546 | for (int ii=0;ii) [with T = bool; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:247:31: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -25926,6 +25964,27 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = bool]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 51 | for (std::size_t i = 0; i < boost::python::len(data); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = bool]’: +/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = long unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:247:31: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -25936,8 +25995,16 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = int]’: +/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = double]’: +/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = unsigned char; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -25948,6 +26015,65 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:24, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:9: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 560 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:549:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] + 549 | vec3 direction_; + | ^~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:91:5: warning: when initialized here [-Wreorder] + 91 | Beam() + | ^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 560 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 550 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:124:5: warning: when initialized here [-Wreorder] + 124 | Beam(vec3 direction, double wavelength) + | ^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 560 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 550 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:163:5: warning: when initialized here [-Wreorder] + 163 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 560 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 550 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:191:5: warning: when initialized here [-Wreorder] + 191 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] + 560 | double wavelength_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] + 550 | double divergence_; + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:225:5: warning: when initialized here [-Wreorder] + 225 | Beam(vec3 direction, + | ^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:52: warning: left operand of comma operator has no effect [-Wunused-value] + 740 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] + 740 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = short unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -25958,6 +26084,36 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:25: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 367 | for (std::size_t y = y0; y < y1; ++y) { + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 368 | for (std::size_t x = x0; x < x1; ++x) { + | ~~^~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = unsigned int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -25978,6 +26134,42 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:27: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 85 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:504:32: warning: ‘dxtbx::model::Scan::epochs_’ will be initialized after [-Wreorder] + 504 | scitbx::af::shared epochs_; + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:502:9: warning: ‘int dxtbx::model::Scan::batch_offset_’ [-Wreorder] + 502 | int batch_offset_; + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:39:5: warning: when initialized here [-Wreorder] + 39 | Scan() + | ^~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, scitbx::vec2, const scitbx::af::shared&, const scitbx::af::shared&, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:43: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:35: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 100 | DXTBX_ASSERT(epochs_.size() == num_images_); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 100 | DXTBX_ASSERT(epochs_.size() == num_images_); + | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = long int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -25988,7 +26180,20 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/detector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 237 | DXTBX_ASSERT(epochs.size() == num_images_); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 237 | DXTBX_ASSERT(epochs.size() == num_images_); + | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = signed char; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -25999,21 +26204,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:66:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 66 | for (int j = i + 1; j < flex.accessor().nd(); ++j) { | ~~^~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = bool]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 51 | for (std::size_t i = 0; i < boost::python::len(data); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘std::shared_ptr > dxtbx::format::boost_python::make_image_from_tuple(boost::python::tuple) [with T = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:125:40: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:51:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc: In instantiation of ‘pybind11::buffer_info get_buffer_specific(grid) [with T = short int; grid = scitbx::af::versa >]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: recursively required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:249:32: required from ‘pybind11::buffer_info get_buffer(PyObject*) [with T = scitbx::af::versa >; Q = scitbx::af::versa >; Args = {scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >, scitbx::af::versa, scitbx::af::flex_grid > >}; PyObject = _object]’ @@ -26114,25 +26304,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/flumpy.cc:115:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 115 | for (int j = i + 1; j < dim_sizes.size(); ++j) { | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = bool]’: -/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = bool]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:141:24: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 98 | for (std::size_t i = 0; i < boost::python::len(tile_list); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = int]’: -/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:142:23: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc: In instantiation of ‘static void dxtbx::format::boost_python::ImagePickleSuite::setstate(dxtbx::format::Image&, boost::python::tuple) [with T = double]’: -/usr/include/boost/python/class.hpp:345:9: required from ‘boost::python::class_::self& boost::python::class_::def_pickle(const PickleSuiteType&) [with PickleSuiteType = dxtbx::format::boost_python::ImagePickleSuite; W = dxtbx::format::Image; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_, boost::python::detail::not_specified, boost::python::detail::not_specified, boost::python::detail::not_specified>]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:134:18: required from ‘void dxtbx::format::boost_python::image_wrapper(const char*) [with T = double]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:143:26: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/format/boost_python/image_ext.cc:98:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc:3: +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:17: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 560 | double wavelength_; @@ -26190,55 +26362,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] 740 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:17: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 367 | for (std::size_t y = y0; y < y1; ++y) { - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 368 | for (std::size_t x = x0; x < x1; ++x) { - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 79 | for (std::size_t j = y0; j < y1; ++j) { - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 80 | for (std::size_t i = x0; i < x1; ++i) { - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 143 | for (std::size_t j = y0; j < y1; ++j) { - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 144 | for (std::size_t i = x0; i < x1; ++i) { - | ~~^~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/experiment.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o dxtbx/src/dxtbx/model/boost_python/experiment_list.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:24, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:9: +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/boost_python/ext.cc:3: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 560 | double wavelength_; @@ -26298,7 +26423,8 @@ | ^~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:25: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:18: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; @@ -26312,144 +26438,23 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:408:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 408 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:17: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:409:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 409 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:449:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 367 | for (std::size_t y = y0; y < y1; ++y) { - | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 368 | for (std::size_t x = x0; x < x1; ++x) { - | ~~^~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:27: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 85 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:504:32: warning: ‘dxtbx::model::Scan::epochs_’ will be initialized after [-Wreorder] - 504 | scitbx::af::shared epochs_; - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:502:9: warning: ‘int dxtbx::model::Scan::batch_offset_’ [-Wreorder] - 502 | int batch_offset_; - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:39:5: warning: when initialized here [-Wreorder] - 39 | Scan() - | ^~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:6: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, scitbx::vec2, const scitbx::af::shared&, const scitbx::af::shared&, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:43: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:35: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 100 | DXTBX_ASSERT(epochs_.size() == num_images_); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 100 | DXTBX_ASSERT(epochs_.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 237 | DXTBX_ASSERT(epochs.size() == num_images_); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 237 | DXTBX_ASSERT(epochs.size() == num_images_); - | ^~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:17: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 560 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:549:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] - 549 | vec3 direction_; - | ^~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:91:5: warning: when initialized here [-Wreorder] - 91 | Beam() - | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 560 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 550 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:124:5: warning: when initialized here [-Wreorder] - 124 | Beam(vec3 direction, double wavelength) - | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 560 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 550 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:163:5: warning: when initialized here [-Wreorder] - 163 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 560 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 550 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:191:5: warning: when initialized here [-Wreorder] - 191 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam(scitbx::vec3, double, double, double, scitbx::vec3, double, double, double, dxtbx::model::Probe, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] - 560 | double wavelength_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:550:12: warning: ‘double dxtbx::model::Beam::divergence_’ [-Wreorder] - 550 | double divergence_; - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:225:5: warning: when initialized here [-Wreorder] - 225 | Beam(vec3 direction, - | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:52: warning: left operand of comma operator has no effect [-Wunused-value] - 740 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] - 740 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:288:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] - 288 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:289:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 289 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_pixel(const dxtbx::model::PanelData&, scitbx::vec2) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:328:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 328 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] + 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:329:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 329 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetParallaxCorrectedPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: @@ -26469,6 +26474,27 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 367 | for (std::size_t y = y0; y < y1; ++y) { + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 368 | for (std::size_t x = x0; x < x1; ++x) { + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:79:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 79 | for (std::size_t j = y0; j < y1; ++j) { + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:80:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 80 | for (std::size_t i = x0; i < x1; ++i) { + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_polygon(scitbx::af::ref >, const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:143:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 143 | for (std::size_t j = y0; j < y1; ++j) { + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 144 | for (std::size_t i = x0; i < x1; ++i) { + | ~~^~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: @@ -26518,6 +26544,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ 237 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/detector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o dxtbx/src/dxtbx/model/boost_python/experiment.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc: In function ‘void dxtbx::model::boost_python::beam_detail::Beam_set_s0_at_scan_points_from_tuple(dxtbx::model::Beam&, boost::python::tuple)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:209:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 209 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { @@ -26526,18 +26556,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/beam.cc:219:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] 219 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_tuple(dxtbx::model::CrystalBase&, boost::python::tuple)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:119:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 119 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_list(dxtbx::model::CrystalBase&, boost::python::list)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:129:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 129 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_B_covariance_from_tuple(dxtbx::model::CrystalBase&, boost::python::api::object)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:141:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 141 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o dxtbx/src/dxtbx/model/boost_python/experiment_list.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o dxtbx/src/dxtbx/model/boost_python/goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/goniometer_shadow_masking.h:12, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:30: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h: In function ‘void dxtbx::masking::mask_untrusted_circle(scitbx::af::ref >, double, double, double)’: @@ -26554,6 +26578,113 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/masking/masking.h:144:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 144 | for (std::size_t i = x0; i < x1; ++i) { | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_tuple(dxtbx::model::CrystalBase&, boost::python::tuple)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:119:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 119 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_A_at_scan_points_from_list(dxtbx::model::CrystalBase&, boost::python::list)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:129:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 129 | for (std::size_t i = 0; i < boost::python::len(l); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc: In function ‘void dxtbx::model::boost_python::Crystal_set_B_covariance_from_tuple(dxtbx::model::CrystalBase&, boost::python::api::object)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/crystal.cc:141:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 141 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::ImageBuffer dxtbx::ImageSet::get_raw_data(std::size_t)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:647:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 647 | if (data_cache_.index == index) { + | ~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::Image dxtbx::ImageSet::get_raw_data_as_double(std::size_t)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1115:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 1115 | if (double_raw_data_cache_.index == index) { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1062:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] + 1062 | virtual ImageSet partial_set(boost::python::object reader, + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1202:12: note: by ‘dxtbx::ImageSet dxtbx::ImageGrid::partial_set(std::size_t, std::size_t) const’ + 1202 | ImageSet partial_set(std::size_t first, std::size_t last) const { + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, scitbx::af::int2)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1138:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 1138 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1138:5: note: in expansion of macro ‘DXTBX_ASSERT’ + 1138 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, scitbx::af::int2)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1152:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 1152 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1152:5: note: in expansion of macro ‘DXTBX_ASSERT’ + 1152 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1062:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] + 1062 | virtual ImageSet partial_set(boost::python::object reader, + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1473:12: note: by ‘dxtbx::ImageSet dxtbx::ImageSequence::partial_set(std::size_t, std::size_t) const’ + 1473 | ImageSet partial_set(std::size_t first, std::size_t last) const { + | ^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1237:23: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 1237 | if (data.size() != scan->get_num_images()) { + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1276:26: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 1276 | if (indices.size() != scan->get_num_images()) { + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘void dxtbx::ImageSequence::set_scan(const dxtbx::ImageSet::scan_ptr&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1398:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 1398 | if (scan->get_num_images() != size()) { + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1414:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 1414 | DXTBX_ASSERT(scan->get_num_images() == size()); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1414:5: note: in expansion of macro ‘DXTBX_ASSERT’ + 1414 | DXTBX_ASSERT(scan->get_num_images() == size()); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:468:56: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 501 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:470:55: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:472:53: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::BeamBase; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:249:56: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Detector; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:253:56: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Goniometer; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:257:58: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Scan; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:261:52: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:22: @@ -26643,6 +26774,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] 740 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ +g++ -o dxtbx/src/dxtbx/model/boost_python/model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/model_ext.cc +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: @@ -26691,10 +26824,43 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ 237 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ -g++ -o dxtbx/src/dxtbx/model/boost_python/model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/model_ext.cc -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘void dxtbx::model::boost_python::detector_detail::node_from_dict(boost::python::dict, dxtbx::model::Detector::Node*, boost::python::list, scitbx::af::ref)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:9: note: in expansion of macro ‘DXTBX_ASSERT’ + 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:9: note: in expansion of macro ‘DXTBX_ASSERT’ + 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:100:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 100 | for (std::size_t i = 0; i < boost::python::len(obj["children"]); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:124:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 124 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:134:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 134 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict, const dxtbx::format::Image&, const dxtbx::format::Image&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:158:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 158 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:168:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 168 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In static member function ‘static void dxtbx::model::boost_python::detector_detail::DetectorPickleSuite::copy_node(dxtbx::model::Detector::Node::pointer, boost::python::dict, boost::python::list)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:228:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 228 | for (std::size_t i = 0; i < boost::python::len(node["children"]); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc:17: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment_list.h:23, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 560 | double wavelength_; @@ -26783,12 +26949,17 @@ 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment_list.h:23, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:20: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment.cc:17: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 560 | double wavelength_; | ^~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:25: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 85 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:549:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 549 | vec3 direction_; | ^~~~~~~~~~ @@ -26835,53 +27006,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:225:5: warning: when initialized here [-Wreorder] 225 | Beam(vec3 direction, | ^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘void dxtbx::model::boost_python::detector_detail::node_from_dict(boost::python::dict, dxtbx::model::Detector::Node*, boost::python::list, scitbx::af::ref)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:88:9: note: in expansion of macro ‘DXTBX_ASSERT’ - 88 | DXTBX_ASSERT(used.size() == boost::python::len(panels)); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:89:9: note: in expansion of macro ‘DXTBX_ASSERT’ - 89 | DXTBX_ASSERT(idx < boost::python::len(panels)); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:100:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 100 | for (std::size_t i = 0; i < boost::python::len(obj["children"]); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:124:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 124 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:134:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 134 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In function ‘dxtbx::model::Detector* dxtbx::model::boost_python::detector_detail::detector_from_dict(dxtbx::model::Detector*, boost::python::dict, const dxtbx::format::Image&, const dxtbx::format::Image&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:158:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 158 | for (std::size_t i = 0; i < boost::python::len(hierarchy["children"]); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:168:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 168 | for (std::size_t i = 0; i < boost::python::len(panels); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc: In static member function ‘static void dxtbx::model::boost_python::detector_detail::DetectorPickleSuite::copy_node(dxtbx::model::Detector::Node::pointer, boost::python::dict, boost::python::list)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/detector.cc:228:35: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 228 | for (std::size_t i = 0; i < boost::python::len(node["children"]); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:52: warning: left operand of comma operator has no effect [-Wunused-value] - 740 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] - 740 | return scitbx::af::shared >(1, (0., 0., 0.)); - | ^~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:25: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 85 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:504:32: warning: ‘dxtbx::model::Scan::epochs_’ will be initialized after [-Wreorder] 504 | scitbx::af::shared epochs_; @@ -26897,7 +27021,7 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:19: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment_list.h:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, scitbx::vec2, const scitbx::af::shared&, const scitbx::af::shared&, int)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:43: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); @@ -26911,6 +27035,13 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:7: note: in expansion of macro ‘DXTBX_ASSERT’ 100 | DXTBX_ASSERT(epochs_.size() == num_images_); | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In member function ‘virtual scitbx::af::shared > dxtbx::model::PolychromaticBeam::get_s0_at_scan_points() const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:52: warning: left operand of comma operator has no effect [-Wunused-value] + 740 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] + 740 | return scitbx::af::shared >(1, (0., 0., 0.)); + | ^~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); @@ -26955,170 +27086,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::ImageBuffer dxtbx::ImageSet::get_raw_data(std::size_t)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:647:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 647 | if (data_cache_.index == index) { - | ~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘dxtbx::format::Image dxtbx::ImageSet::get_raw_data_as_double(std::size_t)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1115:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 1115 | if (double_raw_data_cache_.index == index) { - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1062:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] - 1062 | virtual ImageSet partial_set(boost::python::object reader, - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1202:12: note: by ‘dxtbx::ImageSet dxtbx::ImageGrid::partial_set(std::size_t, std::size_t) const’ - 1202 | ImageSet partial_set(std::size_t first, std::size_t last) const { - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, scitbx::af::int2)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1138:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 1138 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1138:5: note: in expansion of macro ‘DXTBX_ASSERT’ - 1138 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageGrid::ImageGrid(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, scitbx::af::int2)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1152:46: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 1152 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1152:5: note: in expansion of macro ‘DXTBX_ASSERT’ - 1152 | DXTBX_ASSERT(grid_size[0] * grid_size[1] == size()); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: At global scope: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1062:20: warning: ‘virtual dxtbx::ImageSet dxtbx::ImageSet::partial_set(boost::python::api::object, std::size_t, std::size_t) const’ was hidden [-Woverloaded-virtual=] - 1062 | virtual ImageSet partial_set(boost::python::object reader, - | ^~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:25: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 85 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1473:12: note: by ‘dxtbx::ImageSet dxtbx::ImageSequence::partial_set(std::size_t, std::size_t) const’ - 1473 | ImageSet partial_set(std::size_t first, std::size_t last) const { - | ^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1237:23: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 1237 | if (data.size() != scan->get_num_images()) { - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In constructor ‘dxtbx::ImageSequence::ImageSequence(const dxtbx::ImageSetData&, const scitbx::af::const_ref&, const dxtbx::ImageSet::beam_ptr&, const dxtbx::ImageSet::detector_ptr&, const dxtbx::ImageSet::goniometer_ptr&, const dxtbx::ImageSet::scan_ptr&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1276:26: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 1276 | if (indices.size() != scan->get_num_images()) { - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In member function ‘void dxtbx::ImageSequence::set_scan(const dxtbx::ImageSet::scan_ptr&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1398:32: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 1398 | if (scan->get_num_images() != size()) { - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1414:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 1414 | DXTBX_ASSERT(scan->get_num_images() == size()); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:1414:5: note: in expansion of macro ‘DXTBX_ASSERT’ - 1414 | DXTBX_ASSERT(scan->get_num_images() == size()); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:504:32: warning: ‘dxtbx::model::Scan::epochs_’ will be initialized after [-Wreorder] - 504 | scitbx::af::shared epochs_; - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:502:9: warning: ‘int dxtbx::model::Scan::batch_offset_’ [-Wreorder] - 502 | int batch_offset_; - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:39:5: warning: when initialized here [-Wreorder] - 39 | Scan() - | ^~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment_list.h:20: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, scitbx::vec2, const scitbx::af::shared&, const scitbx::af::shared&, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:43: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:35: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 100 | DXTBX_ASSERT(epochs_.size() == num_images_); - | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 100 | DXTBX_ASSERT(epochs_.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 237 | DXTBX_ASSERT(epochs.size() == num_images_); - | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ - 237 | DXTBX_ASSERT(epochs.size() == num_images_); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:468:56: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 501 | for (std::size_t i = 0; i < boost::python::len(obj); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:470:55: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h: In instantiation of ‘dxtbx::format::Image dxtbx::ImageSetData::get_image_from_tuple(boost::python::tuple) [with T = int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:472:53: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/imageset.h:501:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::BeamBase; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:249:56: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Detector; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:253:56: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Goniometer; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:257:58: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc: In instantiation of ‘static void dxtbx::boost_python::ImageSetDataPickleSuite::set_model_list(dxtbx::ImageSetData&, boost::python::tuple, Func) [with Model = dxtbx::model::Scan; Func = void (dxtbx::ImageSetData::*)(const std::shared_ptr&, long unsigned int)]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:261:52: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:231:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 231 | for (std::size_t i = 0; i < boost::python::len(models); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/boost_python/imageset_ext.cc:235:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 235 | for (std::size_t i = 0; i < boost::python::len(indices); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList* dxtbx::model::boost_python::make_experiment_list(boost::python::api::object)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:30:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 30 | for (std::size_t i = 0; i < boost::python::len(items); ++i) { - | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_setitem(dxtbx::model::ExperimentList&, int, dxtbx::model::Experiment)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:174:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 174 | if (n >= self.size() || n < 0) { - | ~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::Experiment& dxtbx::model::boost_python::experiment_list_getitem(dxtbx::model::ExperimentList&, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:184:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 184 | if (n >= self.size() || n < 0) { - | ~~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList dxtbx::model::boost_python::experiment_list_getitem_slice(const dxtbx::model::ExperimentList&, boost::python::slice)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:193:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] - 193 | for (std::size_t i = as.start; i < as.stop && i < self.size(); i += as.step) { - | ~~^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_delitem(dxtbx::model::ExperimentList&, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:203:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 203 | if (n >= self.size() || n < 0) { - | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/goniometer.cc:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: @@ -27178,6 +27145,55 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] 740 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:25: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 85 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:504:32: warning: ‘dxtbx::model::Scan::epochs_’ will be initialized after [-Wreorder] + 504 | scitbx::af::shared epochs_; + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:502:9: warning: ‘int dxtbx::model::Scan::batch_offset_’ [-Wreorder] + 502 | int batch_offset_; + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:39:5: warning: when initialized here [-Wreorder] + 39 | Scan() + | ^~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/experiment.h:19: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In constructor ‘dxtbx::model::Scan::Scan(scitbx::vec2, scitbx::vec2, const scitbx::af::shared&, const scitbx::af::shared&, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:43: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:99:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 99 | DXTBX_ASSERT(exposure_times_.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:35: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 100 | DXTBX_ASSERT(epochs_.size() == num_images_); + | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:100:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 100 | DXTBX_ASSERT(epochs_.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_exposure_times(scitbx::af::shared)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:42: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:231:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 231 | DXTBX_ASSERT(exposure_times.size() == num_images_); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h: In member function ‘void dxtbx::model::Scan::set_epochs(const scitbx::af::shared&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:34: warning: comparison of integer expressions of different signedness: ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 237 | DXTBX_ASSERT(epochs.size() == num_images_); + | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ + 237 | DXTBX_ASSERT(epochs.size() == num_images_); + | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: @@ -27208,6 +27224,26 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList* dxtbx::model::boost_python::make_experiment_list(boost::python::api::object)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:30:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 30 | for (std::size_t i = 0; i < boost::python::len(items); ++i) { + | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_setitem(dxtbx::model::ExperimentList&, int, dxtbx::model::Experiment)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:174:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 174 | if (n >= self.size() || n < 0) { + | ~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::Experiment& dxtbx::model::boost_python::experiment_list_getitem(dxtbx::model::ExperimentList&, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:184:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 184 | if (n >= self.size() || n < 0) { + | ~~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘dxtbx::model::ExperimentList dxtbx::model::boost_python::experiment_list_getitem_slice(const dxtbx::model::ExperimentList&, boost::python::slice)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:193:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] + 193 | for (std::size_t i = as.start; i < as.stop && i < self.size(); i += as.step) { + | ~~^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc: In function ‘void dxtbx::model::boost_python::experiment_list_delitem(dxtbx::model::ExperimentList&, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/experiment_list.cc:203:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 203 | if (n >= self.size() || n < 0) { + | ~~^~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: @@ -27559,16 +27595,6 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o dxtbx/src/dxtbx/model/boost_python/spectrum.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -isystem/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DBUILD_CBF -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/cbflib -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cbflib_adaptbx -I/usr/include/python3.11 -I/usr/include/hdf5/serial /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/spectrum.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libcbf-private.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcbf-private.so.0 cbflib_adaptbx/detectors/mar_adaptor.o cbflib_adaptbx/detectors/cbf_adaptor.o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o cbflib_adaptbx/detectors/buffer_based_service.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lboost_thread -lboost_system -lhdf5 -lcbf -g++ -o exe_dev/cctbx.convert_ccp4_symop_lib -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/convert_ccp4_symop_lib.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm -Create symlinks for: 'lib/libcbf-private.so.0.0.1' - 'lib/libcbf-private.so.0'->'lib/libcbf-private.so.0.0.1' - 'lib/libcbf-private.so'->'lib/libcbf-private.so.0.0.1' -g++ -o exe_dev/cbflib.tst_memory -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cbflib_adaptbx/detectors/tst_memory.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lcbf -lcbf-private -lm -lhdf5 -g++ -o exe_dev/cctbx.find_distances -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/find_distances.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm -g++ -o exe_dev/cctbx.getting_started -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/getting_started.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm -g++ -o exe_dev/cctbx.lattice_symmetry -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/lattice_symmetry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm -g++ -o exe_dev/cctbx.sym_equiv_sites -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sym_equiv_sites.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.cc:14: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h: In member function ‘virtual scitbx::vec2 dxtbx::model::OffsetPxMmStrategy::to_millimeter(const dxtbx::model::PanelData&, scitbx::vec2) const’: @@ -27591,7 +27617,6 @@ 449 | if (i >= dx_.accessor()[1]) i = dx_.accessor()[1] - 1; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/pixel_to_millimeter.h:450:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const long unsigned int’ [-Wsign-compare] 450 | if (j >= dx_.accessor()[0]) j = dx_.accessor()[0] - 1; -g++ -o exe_dev/cctbx.sys_abs_equiv_space_groups -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sys_abs_equiv_space_groups.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h: In member function ‘void dxtbx::model::Panel::apply_untrusted_rectangle_mask(scitbx::af::ref >) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:367:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 367 | for (std::size_t y = y0; y < y1; ++y) { @@ -27599,20 +27624,29 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ +g++ -o lib/libcbf-private.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libcbf-private.so.0 cbflib_adaptbx/detectors/mar_adaptor.o cbflib_adaptbx/detectors/cbf_adaptor.o cbflib_adaptbx/detectors/cbf_byte_offset_optimized.o cbflib_adaptbx/detectors/buffer_based_service.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lboost_thread -lboost_system -lhdf5 -lcbf +Create symlinks for: 'lib/libcbf-private.so.0.0.1' + 'lib/libcbf-private.so.0'->'lib/libcbf-private.so.0.0.1' + 'lib/libcbf-private.so'->'lib/libcbf-private.so.0.0.1' +g++ -o exe_dev/cbflib.tst_memory -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cbflib_adaptbx/detectors/tst_memory.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lcbf -lcbf-private -lm -lhdf5 +g++ -o exe_dev/cctbx.convert_ccp4_symop_lib -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/convert_ccp4_symop_lib.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm +g++ -o exe_dev/cctbx.find_distances -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/find_distances.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm +g++ -o exe_dev/cctbx.getting_started -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/getting_started.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm +g++ -o exe_dev/cctbx.lattice_symmetry -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/lattice_symmetry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm +g++ -o exe_dev/cctbx.sym_equiv_sites -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sym_equiv_sites.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm +g++ -o exe_dev/cctbx.sys_abs_equiv_space_groups -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread cctbx/examples/sys_abs_equiv_space_groups.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lboost_thread -lboost_system -lm g++ -o fable/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/font_ucs_10x20.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/font_ucs_10x20.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/font_ucs_8x13.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/font_ucs_8x13.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/font_ucs_9x15.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/font_ucs_9x15.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/fonts_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/gltbx/fonts_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_00_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/gl_defines_00_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o gltbx/gl_defines_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/gl_defines_01_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:19: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: @@ -27662,12 +27696,14 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ 237 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ +g++ -o gltbx/gl_defines_01_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/gl_defines_01_bpl.cpp In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h: In constructor ‘dxtbx::model::Beam::Beam()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:560:12: warning: ‘dxtbx::model::Beam::wavelength_’ will be initialized after [-Wreorder] 560 | double wavelength_; | ^~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:549:18: warning: ‘scitbx::vec3 dxtbx::model::Beam::direction_’ [-Wreorder] 549 | vec3 direction_; | ^~~~~~~~~~ @@ -27721,11 +27757,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/beam.h:740:60: warning: right operand of comma operator has no effect [-Wunused-value] 740 | return scitbx::af::shared >(1, (0., 0., 0.)); | ^~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc:16: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 85 | for (std::size_t i = 0; i < n_angles; ++i) { - | ~~^~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/detector.h:25, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:18: @@ -27845,14 +27876,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/panel.h:368:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 368 | for (std::size_t x = x0; x < x1; ++x) { | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In function ‘boost::python::dict dxtbx::model::boost_python::MaptoPythonDict(dxtbx::model::ExpImgRangeMap)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:62:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 62 | for (int k = 0; k < val.size(); ++k) { - | ~~^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In function ‘boost::python::list dxtbx::model::boost_python::get_valid_image_ranges(dxtbx::model::Scan&, std::string)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:191:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 191 | for (int k = 0; k < ranges.size(); ++k) { - | ~~^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:22, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/to_from_dict.h:20: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: @@ -27904,6 +27927,19 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan.h:237:7: note: in expansion of macro ‘DXTBX_ASSERT’ 237 | DXTBX_ASSERT(epochs.size() == num_images_); | ^~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan_helpers.cc:16: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h: In function ‘scitbx::af::shared dxtbx::model::get_mod2pi_angles_in_range(scitbx::vec2, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/scan_helpers.h:85:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 85 | for (std::size_t i = 0; i < n_angles; ++i) { + | ~~^~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In function ‘boost::python::dict dxtbx::model::boost_python::MaptoPythonDict(dxtbx::model::ExpImgRangeMap)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:62:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 62 | for (int k = 0; k < val.size(); ++k) { + | ~~^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc: In function ‘boost::python::list dxtbx::model::boost_python::get_valid_image_ranges(dxtbx::model::Scan&, std::string)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src/dxtbx/model/boost_python/scan.cc:191:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 191 | for (int k = 0; k < ranges.size(); ++k) { + | ~~^~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/ext.cpp:5: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -27938,8 +27974,8 @@ g++ -o gltbx/gl_defines_02_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/gl_defines_02_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/gl_defines_03_bpl.cpp -g++ -o gltbx/gl_defines_04_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/gl_defines_04_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o gltbx/gl_defines_04_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/gl_defines_04_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/gl_defines_05_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/gl_defines_05_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -27996,11 +28032,11 @@ g++ -o gltbx/glu_functions_03_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 gltbx/glu_functions_03_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/quadrics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/gltbx/quadrics_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/util_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/gltbx/util_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o gltbx/viewer_utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/gltbx/viewer_utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/ccp4_map/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/ccp4_map/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/cif/boost_python/cif_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/cif/boost_python/cif_ext.cpp @@ -28011,6 +28047,8 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/detectors/detectors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/detectors/detectors_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/detectors/image_divider.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/detectors/image_divider.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/ccp4_map/ext.cpp: In function ‘void iotbx::ccp4_map::write_ccp4_map_set_grid(const std::string&, const cctbx::uctbx::unit_cell&, const cctbx::sgtbx::space_group&, const scitbx::af::int3&, const scitbx::af::const_ref >&, const scitbx::af::const_ref >&)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/ccp4_map/ext.cpp:178:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 178 | for (int i = 0; i < labels.size(); i++) { @@ -28035,8 +28073,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/ccp4_map/ext.cpp:311:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 311 | for (int i = 0; i < labels.size(); i++) { | ~~^~~~~~~~~~~~~~~ -g++ -o iotbx/detectors/image_divider.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/detectors/image_divider.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/dsn6/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/dsn6/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/misc/boost_python/dtrek_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/misc/boost_python/dtrek_ext.cpp @@ -28049,6 +28085,10 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/column_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/mtz/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/mtz/crystal_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -28091,6 +28131,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/mtz/dataset.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28143,43 +28185,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/mtz/crystal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/mtz/crystal_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/mtz/dataset.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/mtz/dataset_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 591 | IOTBX_ASSERT(iref[0] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ - 591 | IOTBX_ASSERT(iref[0] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 594 | IOTBX_ASSERT(iref[i] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ - 594 | IOTBX_ASSERT(iref[i] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp: In member function ‘void iotbx::mtz::column::set_reals(const scitbx::af::const_ref&, const scitbx::af::const_ref&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp:253:48: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp:253:5: note: in expansion of macro ‘IOTBX_ASSERT’ - 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); - | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -28221,6 +28228,48 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28273,48 +28322,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28367,21 +28374,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/mtz/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch_bpl.cpp:6: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); @@ -28399,43 +28393,16 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ -g++ -o iotbx/mtz/object.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 591 | IOTBX_ASSERT(iref[0] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ - 591 | IOTBX_ASSERT(iref[0] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 594 | IOTBX_ASSERT(iref[i] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp: In member function ‘void iotbx::mtz::column::set_reals(const scitbx::af::const_ref&, const scitbx::af::const_ref&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp:253:48: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ - 594 | IOTBX_ASSERT(iref[i] < oldsize); - | ^~~~~~~~~~~~ -g++ -o iotbx/mtz/object_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/pdb/atom_selection.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/atom_selection.cpp -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/smart_ptr/shared_array.hpp:23, - from /usr/include/boost/shared_array.hpp:17, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:9, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:13: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::batch; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch_bpl.cpp:78:60: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.cpp:253:5: note: in expansion of macro ‘IOTBX_ASSERT’ + 253 | IOTBX_ASSERT(mtz_reflection_indices.size() <= nref_at_entry); + | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, @@ -28447,8 +28414,8 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column_bpl.cpp:6: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch_bpl.cpp:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] 591 | IOTBX_ASSERT(iref[0] < oldsize); @@ -28466,18 +28433,24 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ +g++ -o iotbx/mtz/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/mtz/object.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_array.hpp:23, from /usr/include/boost/shared_array.hpp:17, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:9, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:13: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::column; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column_bpl.cpp:76:60: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::batch; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/batch_bpl.cpp:78:60: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +g++ -o iotbx/mtz/object_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DMSETS=32 -DMXTALS=32 -DMCOLUMNS=128 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: @@ -28497,15 +28470,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ 594 | IOTBX_ASSERT(iref[i] < oldsize); | ^~~~~~~~~~~~ -g++ -o iotbx/pdb/common_residue_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/common_residue_names_bpl.cpp In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/namespace.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/atom_selection.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/sym_equiv.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/asu.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:5: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28532,7 +28502,25 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 591 | IOTBX_ASSERT(iref[0] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ + 591 | IOTBX_ASSERT(iref[0] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 594 | IOTBX_ASSERT(iref[i] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ + 594 | IOTBX_ASSERT(iref[i] < oldsize); + | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28559,14 +28547,171 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column_bpl.cpp:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 591 | IOTBX_ASSERT(iref[0] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ + 591 | IOTBX_ASSERT(iref[0] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 594 | IOTBX_ASSERT(iref[i] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ + 594 | IOTBX_ASSERT(iref[i] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 591 | IOTBX_ASSERT(iref[0] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ + 591 | IOTBX_ASSERT(iref[0] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 594 | IOTBX_ASSERT(iref[i] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ + 594 | IOTBX_ASSERT(iref[i] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp: In member function ‘void iotbx::mtz::object::replace_miller_indices(const scitbx::af::const_ref >&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:433:40: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); + | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:433:5: note: in expansion of macro ‘IOTBX_ASSERT’ + 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:435:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 435 | for(int i_refl=0;i_refl iotbx::mtz::object::extract_integers(const scitbx::af::const_ref&, const char*) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:624:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 624 | for(int i=0;i iotbx::mtz::object::extract_reals(const scitbx::af::const_ref&, const char*) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:684:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 684 | for(int i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::column; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/column_bpl.cpp:76:60: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal_bpl.cpp:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 591 | IOTBX_ASSERT(iref[0] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ + 591 | IOTBX_ASSERT(iref[0] < oldsize); + | ^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] + 594 | IOTBX_ASSERT(iref[i] < oldsize); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ + 594 | IOTBX_ASSERT(iref[i] < oldsize); + | ^~~~~~~~~~~~ +g++ -o iotbx/pdb/common_residue_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/common_residue_names_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/construct_hierarchy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/construct_hierarchy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /usr/include/boost/assert.hpp:58, + from /usr/include/boost/smart_ptr/shared_array.hpp:23, + from /usr/include/boost/shared_array.hpp:17, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:9, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:13: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::crystal; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal_bpl.cpp:42:60: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +g++ -o iotbx/pdb/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/sym_equiv.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/miller/asu.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:5: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/namespace.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/atom_selection.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28654,35 +28799,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rot_mx.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/rt_mx.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/change_of_basis_op.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tr_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/space_group.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/dataset.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal_bpl.cpp:6: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 591 | IOTBX_ASSERT(iref[0] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ - 591 | IOTBX_ASSERT(iref[0] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 594 | IOTBX_ASSERT(iref[i] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ - 594 | IOTBX_ASSERT(iref[i] < oldsize); - | ^~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28709,65 +28825,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/pdb/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/smart_ptr/shared_array.hpp:23, - from /usr/include/boost/shared_array.hpp:17, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/hendrickson_lattman.h:9, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:13: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::mtz::crystal; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/crystal_bpl.cpp:42:60: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘const ElementType& scitbx::af::small_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h: In member function ‘void iotbx::mtz::object::delete_reflections(const scitbx::af::const_ref&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:30: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 591 | IOTBX_ASSERT(iref[0] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ - 591 | IOTBX_ASSERT(iref[0] < oldsize); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:32: warning: comparison of integer expressions of different signedness: ‘const long unsigned int’ and ‘int’ [-Wsign-compare] - 594 | IOTBX_ASSERT(iref[i] < oldsize); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:594:11: note: in expansion of macro ‘IOTBX_ASSERT’ - 594 | IOTBX_ASSERT(iref[i] < oldsize); - | ^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, @@ -28790,19 +28847,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.h:591:9: note: in expansion of macro ‘IOTBX_ASSERT’ 591 | IOTBX_ASSERT(iref[0] < oldsize); | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp: In member function ‘void iotbx::mtz::object::replace_miller_indices(const scitbx::af::const_ref >&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:433:40: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); - | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:433:5: note: in expansion of macro ‘IOTBX_ASSERT’ - 433 | IOTBX_ASSERT(miller_indices.size() == n_reflections()); - | ^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:435:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 435 | for(int i_refl=0;i_refl iotbx::mtz::object::extract_integers(const scitbx::af::const_ref&, const char*) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:624:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 624 | for(int i=0;i iotbx::mtz::object::extract_reals(const scitbx::af::const_ref&, const char*) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/mtz/object.cpp:684:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 684 | for(int i=0;i::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28935,7 +28970,8 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/namespace.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -28988,6 +29024,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/hierarchy_atoms_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h: At global scope: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 157 | std::auto_ptr @@ -29031,12 +29069,12 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -g++ -o iotbx/pdb/hierarchy_atoms_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/pdb/hierarchy_select.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_select.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/hierarchy_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_write.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -29044,7 +29082,8 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/namespace.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_select.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_write.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -29097,11 +29136,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/pdb/hierarchy_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_write.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/pdb/hybrid_36_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hybrid_36_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -gcc -o iotbx/pdb/hybrid_36_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hybrid_36_c.c In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -29109,8 +29143,7 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/namespace.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_write.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_select.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -29163,8 +29196,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/pdb/hybrid_36_cpp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hybrid_36_cpp.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h: At global scope: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 157 | std::auto_ptr @@ -29181,7 +29212,10 @@ /usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here 65 | template class auto_ptr; | ^~~~~~~~ -g++ -o iotbx/pdb/hybrid_36_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable iotbx/pdb/hybrid_36_fem.cpp +g++ -o iotbx/pdb/hybrid_36_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hybrid_36_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +gcc -o iotbx/pdb/hybrid_36_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hybrid_36_c.c +g++ -o iotbx/pdb/hybrid_36_cpp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hybrid_36_cpp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:2: @@ -29189,104 +29223,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_ext.cpp:11: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | std::auto_ptr - | ^~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:9: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] - 115 | if (dexp <= ad_hoc_limits::max_digit_count) { - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/memory:78, - from /usr/include/boost/config/no_tr1/memory.hpp:21, - from /usr/include/boost/get_pointer.hpp:14, - from /usr/include/boost/python/object/pointer_holder.hpp:11, - from /usr/include/boost/python/to_python_indirect.hpp:10, - from /usr/include/boost/python/converter/arg_to_python.hpp:10, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object/class.hpp:9, - from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_ext.cpp:4: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:163:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 163 | std::auto_ptr - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 653 | if (iw+1 != ed.size()) { - | ~~~~~^~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/variant.hpp:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 93 | if (c0e[0] == i0) { - | ~~~~~~~^~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:8: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] - 704 | while (pos < internal_file_len) { - | ~~~~^~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/pdb/input_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input_write.cpp -g++ -o iotbx/pdb/overall_counts.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/overall_counts.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/input_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:13: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h: At global scope: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 157 | std::auto_ptr - | ^~~~~~~~ -In file included from /usr/include/c++/13/memory:78, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/misc.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_flags.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:4: -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:163:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 163 | std::auto_ptr - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp: In function ‘void iotbx::pdb::hierarchy::atoms::bpl_wrap()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:84:17: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] - 84 | std::auto_ptr, - | ^~~~~~~~ -/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here - 65 | template class auto_ptr; - | ^~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -29322,17 +29264,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 185 | for (int j = 0; j < tensor_t::size(); j++) { - | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -29359,6 +29290,103 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/file_utils.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 24 | while (i < size) { + | ~~^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 25 | while (i < size && data[i] != '\n' && data[i] != '\r') i++; + | ~~^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:27:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 27 | if (i < size) { + | ~~^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:28:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 28 | if (data[i] == '\r' && i+1 < size && data[i+1] == '\n') { + | ~~~~^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 46 | if (j < size) { + | ~~^~~~~~ +g++ -o iotbx/pdb/input_write.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input_write.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:13: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h: At global scope: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | std::auto_ptr + | ^~~~~~~~ +In file included from /usr/include/c++/13/memory:78, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/misc.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer_flags.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:4: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:163:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 163 | std::auto_ptr + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/io.hpp:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/close_chain.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem.hpp:10, + from iotbx/pdb/hybrid_36_fem.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp: In member function ‘virtual void fem::utils::simple_ostream_to_char_ptr_and_size::put(char)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 63 | if (i < sz) s[i++] = c; + | ~~^~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp: In function ‘void iotbx::pdb::hierarchy::atoms::bpl_wrap()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:84:17: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 84 | std::auto_ptr, + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:9: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] + 115 | if (dexp <= ad_hoc_limits::max_digit_count) { + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 653 | if (iw+1 != ed.size()) { + | ~~~~~^~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/variant.hpp:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 93 | if (c0e[0] == i0) { + | ~~~~~~~^~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:8: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] + 704 | while (pos < internal_file_len) { + | ~~~~^~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:203:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 185 | for (int j = 0; j < tensor_t::size(); j++) { + | ~~^~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/function/function_base.hpp:28, from /usr/include/boost/function/detail/prologue.hpp:18, @@ -29381,29 +29409,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::pdb::hierarchy::atom_with_labels; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:91:44: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/file_utils.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 24 | while (i < size) { - | ~~^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 25 | while (i < size && data[i] != '\n' && data[i] != '\r') i++; - | ~~^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:27:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 27 | if (i < size) { - | ~~^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:28:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 28 | if (data[i] == '\r' && i+1 < size && data[i+1] == '\n') { - | ~~~~^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 46 | if (j < size) { - | ~~^~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -29411,7 +29416,8 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/namespace.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/overall_counts.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input_write.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -29438,6 +29444,69 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_ext.cpp:11: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:157:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 157 | std::auto_ptr + | ^~~~~~~~ +In file included from /usr/include/c++/13/memory:78, + from /usr/include/boost/config/no_tr1/memory.hpp:21, + from /usr/include/boost/get_pointer.hpp:14, + from /usr/include/boost/python/object/pointer_holder.hpp:11, + from /usr/include/boost/python/to_python_indirect.hpp:10, + from /usr/include/boost/python/converter/arg_to_python.hpp:10, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object/class.hpp:9, + from /usr/include/boost/python/class.hpp:13, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_ext.cpp:4: +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms.h:163:8: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] + 163 | std::auto_ptr + | ^~~~~~~~ +/usr/include/c++/13/bits/unique_ptr.h:65:28: note: declared here + 65 | template class auto_ptr; + | ^~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = iotbx::pdb::hierarchy::atom_with_labels; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy_atoms_bpl.cpp:91:44: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o iotbx/pdb/overall_counts.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/overall_counts.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/rna_dna_atom_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/rna_dna_atom_names_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/utils.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/write_utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/write_utils.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -29445,8 +29514,7 @@ from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/namespace.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/hierarchy.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/input_write.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/overall_counts.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -29499,38 +29567,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o iotbx/pdb/rna_dna_atom_names_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/rna_dna_atom_names_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/pdb/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/utils.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o iotbx/pdb/write_utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/write_utils.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -29598,11 +29634,11 @@ 43 | "Failure writing to file: \"" + file_name + "\""); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/write_utils.cpp:42:7: note: in C++11 destructors default to ‘noexcept’ -g++ -o iotbx/pdb/hybrid_36_fem -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread iotbx/pdb/hybrid_36_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o iotbx/pdb/xray_structure_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/xray_structure_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/shelx/shelx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/shelx/shelx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o iotbx/pdb/hybrid_36_fem -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread iotbx/pdb/hybrid_36_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o iotbx/wildcard_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/wildcard_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o iotbx/xplor/boost_python/xplor_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/xplor/boost_python/xplor_ext.cpp @@ -29624,10 +29660,10 @@ 'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0'->'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1' 'lib/boost_adaptbx_graph_breadth_first_search_ext.so'->'lib/boost_adaptbx_graph_breadth_first_search_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_clustering_algorithm_ext.so.0 boost_adaptbx/graph/clustering_algorithm_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_connected_component_algorithm_ext.so.0 boost_adaptbx/graph/connected_component_algorithm_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0'->'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_clustering_algorithm_ext.so'->'lib/boost_adaptbx_graph_clustering_algorithm_ext.so.0.0.1' +g++ -o lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_connected_component_algorithm_ext.so.0 boost_adaptbx/graph/connected_component_algorithm_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm g++ -o lib/boost_adaptbx_graph_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_ext.so.0 boost_adaptbx/graph/graph_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/pdb/xray_structure.h:6, @@ -29640,6 +29676,10 @@ 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' 'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so'->'lib/boost_adaptbx_graph_connected_component_algorithm_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_graph_structure_comparison_ext.so.0 boost_adaptbx/graph/graph_structure_comparison_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' + 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' +g++ -o lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_maximum_clique_ext.so.0 boost_adaptbx/graph/maximum_clique_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:6: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h: In instantiation of ‘void cctbx::sgtbx::tensors::constraints::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -29651,10 +29691,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -Create symlinks for: 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' - 'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so'->'lib/boost_adaptbx_graph_graph_structure_comparison_ext.so.0.0.1' -g++ -o lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_maximum_clique_ext.so.0 boost_adaptbx/graph/maximum_clique_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/boost_adaptbx_graph_ext.so.0.0.1' 'lib/boost_adaptbx_graph_ext.so.0'->'lib/boost_adaptbx_graph_ext.so.0.0.1' 'lib/boost_adaptbx_graph_ext.so'->'lib/boost_adaptbx_graph_ext.so.0.0.1' @@ -29663,38 +29699,38 @@ 'lib/boost_adaptbx_graph_maximum_clique_ext.so.0'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' 'lib/boost_adaptbx_graph_maximum_clique_ext.so'->'lib/boost_adaptbx_graph_maximum_clique_ext.so.0.0.1' g++ -o lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_min_cut_max_flow_ext.so.0 boost_adaptbx/graph/min_cut_max_flow_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/boost_adaptbx_graph_utility_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_utility_ext.so.0 boost_adaptbx/graph/utility_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' 'lib/boost_adaptbx_graph_metric_ext.so.0'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' 'lib/boost_adaptbx_graph_metric_ext.so'->'lib/boost_adaptbx_graph_metric_ext.so.0.0.1' -g++ -o lib/boost_adaptbx_graph_utility_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_graph_utility_ext.so.0 boost_adaptbx/graph/utility_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_python_streambuf_test_ext.so.0 boost_adaptbx/tests/python_streambuf_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' 'lib/boost_adaptbx_graph_utility_ext.so.0'->'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' 'lib/boost_adaptbx_graph_utility_ext.so'->'lib/boost_adaptbx_graph_utility_ext.so.0.0.1' +g++ -o lib/boost_optional_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_optional_ext.so.0 boost_adaptbx/optional_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' 'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so'->'lib/boost_adaptbx_graph_min_cut_max_flow_ext.so.0.0.1' -g++ -o lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_adaptbx_python_streambuf_test_ext.so.0 boost_adaptbx/tests/python_streambuf_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/boost_optional_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_optional_ext.so.0 boost_adaptbx/optional_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm g++ -o lib/boost_python_hybrid_times_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_hybrid_times_ext.so.0 boost_adaptbx/hybrid_times_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' 'lib/boost_adaptbx_python_streambuf_test_ext.so.0'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' 'lib/boost_adaptbx_python_streambuf_test_ext.so'->'lib/boost_adaptbx_python_streambuf_test_ext.so.0.0.1' +g++ -o lib/boost_python_meta_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_meta_ext.so.0 boost_adaptbx/meta_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/boost_python_hybrid_times_ext.so.0.0.1' 'lib/boost_python_hybrid_times_ext.so.0'->'lib/boost_python_hybrid_times_ext.so.0.0.1' 'lib/boost_python_hybrid_times_ext.so'->'lib/boost_python_hybrid_times_ext.so.0.0.1' -g++ -o lib/boost_python_meta_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_python_meta_ext.so.0 boost_adaptbx/meta_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm g++ -o lib/boost_rational_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_rational_ext.so.0 boost_adaptbx/rational_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/boost_optional_ext.so.0.0.1' 'lib/boost_optional_ext.so.0'->'lib/boost_optional_ext.so.0.0.1' 'lib/boost_optional_ext.so'->'lib/boost_optional_ext.so.0.0.1' g++ -o lib/boost_tuple_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=boost_tuple_ext.so.0 boost_adaptbx/tuple_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/boost_tuple_ext.so.0.0.1' - 'lib/boost_tuple_ext.so.0'->'lib/boost_tuple_ext.so.0.0.1' - 'lib/boost_tuple_ext.so'->'lib/boost_tuple_ext.so.0.0.1' -g++ -o lib/cbflib_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cbflib_ext.so.0 cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lcbf-private -lcbf -lboost_thread -lboost_system -lboost_python311 -lm -lhdf5 Create symlinks for: 'lib/boost_rational_ext.so.0.0.1' 'lib/boost_rational_ext.so.0'->'lib/boost_rational_ext.so.0.0.1' 'lib/boost_rational_ext.so'->'lib/boost_rational_ext.so.0.0.1' +g++ -o lib/cbflib_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cbflib_ext.so.0 cbflib_adaptbx/detectors/boost_python/cbflib_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lcbf-private -lcbf -lboost_thread -lboost_system -lboost_python311 -lm -lhdf5 +Create symlinks for: 'lib/boost_tuple_ext.so.0.0.1' + 'lib/boost_tuple_ext.so.0'->'lib/boost_tuple_ext.so.0.0.1' + 'lib/boost_tuple_ext.so'->'lib/boost_tuple_ext.so.0.0.1' g++ -o lib/libccp4io.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libccp4io.so.0 ccp4io_adaptbx/fortran_call_stubs.o ccp4io_adaptbx/printf_wrappers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lm -lccp4c Create symlinks for: 'lib/boost_python_meta_ext.so.0.0.1' 'lib/boost_python_meta_ext.so.0'->'lib/boost_python_meta_ext.so.0.0.1' @@ -29703,8 +29739,8 @@ Create symlinks for: 'lib/libccp4io.so.0.0.1' 'lib/libccp4io.so.0'->'lib/libccp4io.so.0.0.1' 'lib/libccp4io.so'->'lib/libccp4io.so.0.0.1' -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/ccp4io_adaptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=ccp4io_adaptbx_ext.so.0 ccp4io_adaptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lccp4io -lccp4c -lssm -lmmdb2 -lboost_thread -lboost_system -lboost_python311 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/cbflib_ext.so.0.0.1' 'lib/cbflib_ext.so.0'->'lib/cbflib_ext.so.0.0.1' 'lib/cbflib_ext.so'->'lib/cbflib_ext.so.0.0.1' @@ -29715,15 +29751,6 @@ 'lib/ccp4io_adaptbx_ext.so'->'lib/ccp4io_adaptbx_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/utils.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/cma_es_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cma_es_ext.so.0 cma_es/cma_es_ext.o cma_es/cma/cmaes.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cma_es_ext.so.0.0.1' - 'lib/cma_es_ext.so.0'->'lib/cma_es_ext.so.0.0.1' - 'lib/cma_es_ext.so'->'lib/cma_es_ext.so.0.0.1' -g++ -o lib/dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_ext.so.0 dxtbx/src/dxtbx/boost_python/ext.o dxtbx/src/dxtbx/boost_python/compression.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python311 -lcbf -Create symlinks for: 'lib/dxtbx_ext.so.0.0.1' - 'lib/dxtbx_ext.so.0'->'lib/dxtbx_ext.so.0.0.1' - 'lib/dxtbx_ext.so'->'lib/dxtbx_ext.so.0.0.1' -g++ -o lib/dxtbx_format_image_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_image_ext.so.0 dxtbx/src/dxtbx/format/boost_python/image_ext.o dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python311 -lcbf -lhdf5 In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -29836,305 +29863,314 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o lib/cma_es_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cma_es_ext.so.0 cma_es/cma_es_ext.o cma_es/cma/cmaes.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_ext.so.0 dxtbx/src/dxtbx/boost_python/ext.o dxtbx/src/dxtbx/boost_python/compression.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python311 -lcbf +g++ -o lib/dxtbx_format_image_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_image_ext.so.0 dxtbx/src/dxtbx/format/boost_python/image_ext.o dxtbx/src/dxtbx/format/boost_python/cbf_read_buffer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python311 -lcbf -lhdf5 g++ -o lib/dxtbx_format_nexus_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_format_nexus_ext.so.0 dxtbx/src/dxtbx/format/boost_python/nexus_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python311 -lcbf -lhdf5 +Create symlinks for: 'lib/cma_es_ext.so.0.0.1' + 'lib/cma_es_ext.so.0'->'lib/cma_es_ext.so.0.0.1' + 'lib/cma_es_ext.so'->'lib/cma_es_ext.so.0.0.1' g++ -o lib/dxtbx_imageset_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_imageset_ext.so.0 dxtbx/src/dxtbx/boost_python/imageset_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python311 -lcbf -lhdf5 -Create symlinks for: 'lib/dxtbx_format_image_ext.so.0.0.1' - 'lib/dxtbx_format_image_ext.so.0'->'lib/dxtbx_format_image_ext.so.0.0.1' - 'lib/dxtbx_format_image_ext.so'->'lib/dxtbx_format_image_ext.so.0.0.1' +Create symlinks for: 'lib/dxtbx_ext.so.0.0.1' + 'lib/dxtbx_ext.so.0'->'lib/dxtbx_ext.so.0.0.1' + 'lib/dxtbx_ext.so'->'lib/dxtbx_ext.so.0.0.1' g++ -o lib/fable_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=fable_ext.so.0 fable/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/iotbx_ccp4_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_ccp4_map_ext.so.0 iotbx/ccp4_map/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lccp4c -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/dxtbx_format_nexus_ext.so.0.0.1' 'lib/dxtbx_format_nexus_ext.so.0'->'lib/dxtbx_format_nexus_ext.so.0.0.1' 'lib/dxtbx_format_nexus_ext.so'->'lib/dxtbx_format_nexus_ext.so.0.0.1' +g++ -o lib/iotbx_ccp4_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_ccp4_map_ext.so.0 iotbx/ccp4_map/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lccp4c -lboost_thread -lboost_system -lboost_python311 -lm g++ -o ucif/cifParser.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ucif/cifParser.cpp +Create symlinks for: 'lib/dxtbx_format_image_ext.so.0.0.1' + 'lib/dxtbx_format_image_ext.so.0'->'lib/dxtbx_format_image_ext.so.0.0.1' + 'lib/dxtbx_format_image_ext.so'->'lib/dxtbx_format_image_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/fable_ext.so.0.0.1' 'lib/fable_ext.so.0'->'lib/fable_ext.so.0.0.1' 'lib/fable_ext.so'->'lib/fable_ext.so.0.0.1' +g++ -o ucif/cifLexer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ucif/cifLexer.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/iotbx_detectors_bruker_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_bruker_ext.so.0 iotbx/detectors/bruker_ext.o iotbx/detectors/bruker.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/iotbx_ccp4_map_ext.so.0.0.1' 'lib/iotbx_ccp4_map_ext.so.0'->'lib/iotbx_ccp4_map_ext.so.0.0.1' 'lib/iotbx_ccp4_map_ext.so'->'lib/iotbx_ccp4_map_ext.so.0.0.1' -g++ -o ucif/cifLexer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/ucif/cifLexer.cpp -g++ -o lib/iotbx_detectors_bruker_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_bruker_ext.so.0 iotbx/detectors/bruker_ext.o iotbx/detectors/bruker.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/iotbx_detectors_bruker_ext.so.0.0.1' 'lib/iotbx_detectors_bruker_ext.so.0'->'lib/iotbx_detectors_bruker_ext.so.0.0.1' 'lib/iotbx_detectors_bruker_ext.so'->'lib/iotbx_detectors_bruker_ext.so.0.0.1' g++ -o lib/iotbx_detectors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_detectors_ext.so.0 iotbx/detectors/detectors_ext.o iotbx/detectors/image_divider.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/dxtbx_imageset_ext.so.0.0.1' - 'lib/dxtbx_imageset_ext.so.0'->'lib/dxtbx_imageset_ext.so.0.0.1' - 'lib/dxtbx_imageset_ext.so'->'lib/dxtbx_imageset_ext.so.0.0.1' -Create symlinks for: 'lib/iotbx_detectors_ext.so.0.0.1' - 'lib/iotbx_detectors_ext.so.0'->'lib/iotbx_detectors_ext.so.0.0.1' - 'lib/iotbx_detectors_ext.so'->'lib/iotbx_detectors_ext.so.0.0.1' g++ -o lib/iotbx_dsn6_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dsn6_map_ext.so.0 iotbx/dsn6/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/iotbx_dtrek_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dtrek_ext.so.0 iotbx/misc/boost_python/dtrek_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/libiotbx_mtz.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_mtz.so.0 iotbx/mtz/object.o iotbx/mtz/crystal.o iotbx/mtz/dataset.o iotbx/mtz/column.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lccp4io -lccp4c -lm -lboost_thread -lboost_system +g++ -o lib/libscitbx_boost_python.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -shared -rdynamic -std=c++14 -Wl,-soname=libscitbx_boost_python.so.0 scitbx/boost_python/utils.o scitbx/boost_python/slice.o scitbx/array_family/boost_python/utils.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 Create symlinks for: 'lib/iotbx_dsn6_map_ext.so.0.0.1' 'lib/iotbx_dsn6_map_ext.so.0'->'lib/iotbx_dsn6_map_ext.so.0.0.1' 'lib/iotbx_dsn6_map_ext.so'->'lib/iotbx_dsn6_map_ext.so.0.0.1' -g++ -o lib/iotbx_scalepack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_scalepack_ext.so.0 iotbx/misc/boost_python/scalepack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/iotbx_shelx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_shelx_ext.so.0 iotbx/shelx/shelx_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/iotbx_dtrek_ext.so.0.0.1' - 'lib/iotbx_dtrek_ext.so.0'->'lib/iotbx_dtrek_ext.so.0.0.1' - 'lib/iotbx_dtrek_ext.so'->'lib/iotbx_dtrek_ext.so.0.0.1' -g++ -o lib/iotbx_wildcard_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_wildcard_ext.so.0 iotbx/wildcard_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/libiotbx_mtz.so.0.0.1' - 'lib/libiotbx_mtz.so.0'->'lib/libiotbx_mtz.so.0.0.1' - 'lib/libiotbx_mtz.so'->'lib/libiotbx_mtz.so.0.0.1' -Create symlinks for: 'lib/iotbx_scalepack_ext.so.0.0.1' - 'lib/iotbx_scalepack_ext.so.0'->'lib/iotbx_scalepack_ext.so.0.0.1' - 'lib/iotbx_scalepack_ext.so'->'lib/iotbx_scalepack_ext.so.0.0.1' -Create symlinks for: 'lib/iotbx_wildcard_ext.so.0.0.1' - 'lib/iotbx_wildcard_ext.so.0'->'lib/iotbx_wildcard_ext.so.0.0.1' - 'lib/iotbx_wildcard_ext.so'->'lib/iotbx_wildcard_ext.so.0.0.1' -g++ -o spotfinder/dxtbx_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/libdistl.cpp -g++ -o lib/libscitbx_boost_python.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -shared -rdynamic -std=c++14 -Wl,-soname=libscitbx_boost_python.so.0 scitbx/boost_python/utils.o scitbx/boost_python/slice.o scitbx/array_family/boost_python/utils.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/iotbx_shelx_ext.so.0.0.1' - 'lib/iotbx_shelx_ext.so.0'->'lib/iotbx_shelx_ext.so.0.0.1' - 'lib/iotbx_shelx_ext.so'->'lib/iotbx_shelx_ext.so.0.0.1' -g++ -o spotfinder/dxtbx_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/distl.cpp -g++ -o spotfinder/core_toolbox/spot.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/spot.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o spotfinder/core_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/libdistl.cpp -g++ -o lib/iotbx_cif_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_cif_ext.so.0 iotbx/cif/boost_python/cif_ext.o ucif/cifParser.o ucif/cifLexer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -lantlr3c -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o spotfinder/core_toolbox/hough.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/hough.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/iotbx_dtrek_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_dtrek_ext.so.0 iotbx/misc/boost_python/dtrek_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/libscitbx_boost_python.so.0.0.1' 'lib/libscitbx_boost_python.so.0'->'lib/libscitbx_boost_python.so.0.0.1' 'lib/libscitbx_boost_python.so'->'lib/libscitbx_boost_python.so.0.0.1' -g++ -o lib/gltbx_quadrics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_quadrics_ext.so.0 gltbx/quadrics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm -Create symlinks for: 'lib/iotbx_cif_ext.so.0.0.1' - 'lib/iotbx_cif_ext.so.0'->'lib/iotbx_cif_ext.so.0.0.1' - 'lib/iotbx_cif_ext.so'->'lib/iotbx_cif_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_covalent_radii_ext.so.0 cctbx/eltbx/boost_python/covalent_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/cctbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_math_ext.so.0 cctbx/math/boost_python/math_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/gltbx_quadrics_ext.so.0.0.1' - 'lib/gltbx_quadrics_ext.so.0'->'lib/gltbx_quadrics_ext.so.0.0.1' - 'lib/gltbx_quadrics_ext.so'->'lib/gltbx_quadrics_ext.so.0.0.1' -g++ -o lib/cctbx_merging_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_merging_ext.so.0 cctbx/merging/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' - 'lib/cctbx_eltbx_covalent_radii_ext.so.0'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' - 'lib/cctbx_eltbx_covalent_radii_ext.so'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' -g++ -o lib/cctbx_miller_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_miller_ext.so.0 cctbx/miller/boost_python/miller_ext.o cctbx/miller/boost_python/asu.o cctbx/miller/boost_python/bins.o cctbx/miller/boost_python/change_basis.o cctbx/miller/boost_python/expand_to_p1.o cctbx/miller/boost_python/index_generator.o cctbx/miller/boost_python/index_span.o cctbx/miller/boost_python/match_bijvoet_mates.o cctbx/miller/boost_python/match_indices.o cctbx/miller/boost_python/match_multi_indices.o cctbx/miller/boost_python/merge_equivalents.o cctbx/miller/boost_python/phase_integrator.o cctbx/miller/boost_python/phase_transfer.o cctbx/miller/boost_python/sym_equiv.o cctbx/miller/boost_python/f_calc_map.o cctbx/miller/boost_python/lookup_utils.o cctbx/miller/boost_python/amplitude_normalisation.o cctbx/miller/boost_python/randomize_amplitude_and_phase.o cctbx/miller/boost_python/slices.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_math_ext.so.0.0.1' - 'lib/cctbx_math_ext.so.0'->'lib/cctbx_math_ext.so.0.0.1' - 'lib/cctbx_math_ext.so'->'lib/cctbx_math_ext.so.0.0.1' -g++ -o lib/cctbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_masks_ext.so.0 cctbx/masks/boost_python/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_merging_ext.so.0.0.1' - 'lib/cctbx_merging_ext.so.0'->'lib/cctbx_merging_ext.so.0.0.1' - 'lib/cctbx_merging_ext.so'->'lib/cctbx_merging_ext.so.0.0.1' -g++ -o lib/cctbx_asymmetric_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_asymmetric_map_ext.so.0 cctbx/maptbx/asymmetric_map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_masks_ext.so.0.0.1' - 'lib/cctbx_masks_ext.so.0'->'lib/cctbx_masks_ext.so.0.0.1' - 'lib/cctbx_masks_ext.so'->'lib/cctbx_masks_ext.so.0.0.1' -g++ -o lib/cctbx_emma_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_emma_ext.so.0 cctbx/boost_python/emma_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_asymmetric_map_ext.so.0.0.1' - 'lib/cctbx_asymmetric_map_ext.so.0'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' - 'lib/cctbx_asymmetric_map_ext.so'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_chemical_elements_ext.so.0 cctbx/eltbx/boost_python/chemical_elements_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_emma_ext.so.0.0.1' - 'lib/cctbx_emma_ext.so.0'->'lib/cctbx_emma_ext.so.0.0.1' - 'lib/cctbx_emma_ext.so'->'lib/cctbx_emma_ext.so.0.0.1' -g++ -o lib/cctbx_xray_observations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_observations_ext.so.0 cctbx/xray/observations/boost_python/observations.o cctbx/xray/observations/boost_python/observations_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' - 'lib/cctbx_eltbx_chemical_elements_ext.so.0'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' - 'lib/cctbx_eltbx_chemical_elements_ext.so'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' -g++ -o lib/cctbx_french_wilson_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_french_wilson_ext.so.0 cctbx/boost_python/french_wilson_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_french_wilson_ext.so.0.0.1' - 'lib/cctbx_french_wilson_ext.so.0'->'lib/cctbx_french_wilson_ext.so.0.0.1' - 'lib/cctbx_french_wilson_ext.so'->'lib/cctbx_french_wilson_ext.so.0.0.1' -g++ -o lib/cctbx_maptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_ext.so.0 cctbx/maptbx/boost_python/maptbx_ext.o cctbx/maptbx/boost_python/grid_indices_around_sites.o cctbx/maptbx/boost_python/grid_tags.o cctbx/maptbx/boost_python/gridding.o cctbx/maptbx/boost_python/misc.o cctbx/maptbx/boost_python/peak_search.o cctbx/maptbx/boost_python/pymol_interface.o cctbx/maptbx/boost_python/statistics.o cctbx/maptbx/boost_python/structure_factors.o cctbx/maptbx/boost_python/coordinate_transformers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/cctbx_geometry_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_restraints_ext.so.0 cctbx/geometry_restraints/geometry_restraints_ext.o cctbx/geometry_restraints/bond_bpl.o cctbx/geometry_restraints/bond_similarity_bpl.o cctbx/geometry_restraints/bond_sorted_bpl.o cctbx/geometry_restraints/nonbonded_bpl.o cctbx/geometry_restraints/nonbonded_sorted_bpl.o cctbx/geometry_restraints/angle_bpl.o cctbx/geometry_restraints/dihedral_bpl.o cctbx/geometry_restraints/chirality_bpl.o cctbx/geometry_restraints/planarity_bpl.o cctbx/geometry_restraints/parallelity_bpl.o cctbx/geometry_restraints/motif_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_xray_observations_ext.so.0.0.1' - 'lib/cctbx_xray_observations_ext.so.0'->'lib/cctbx_xray_observations_ext.so.0.0.1' - 'lib/cctbx_xray_observations_ext.so'->'lib/cctbx_xray_observations_ext.so.0.0.1' -g++ -o lib/cctbx_anharmonic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_anharmonic_ext.so.0 cctbx/adptbx/boost_python/anharmonic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_anharmonic_ext.so.0.0.1' - 'lib/cctbx_anharmonic_ext.so.0'->'lib/cctbx_anharmonic_ext.so.0.0.1' - 'lib/cctbx_anharmonic_ext.so'->'lib/cctbx_anharmonic_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_icsd_radii_ext.so.0 cctbx/eltbx/boost_python/icsd_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_miller_ext.so.0.0.1' - 'lib/cctbx_miller_ext.so.0'->'lib/cctbx_miller_ext.so.0.0.1' - 'lib/cctbx_miller_ext.so'->'lib/cctbx_miller_ext.so.0.0.1' -g++ -o lib/iotbx_xplor_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_xplor_ext.so.0 iotbx/xplor/boost_python/xplor_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_xplor -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/cctbx_xray_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_ext.so.0 cctbx/xray/boost_python/xray_ext.o cctbx/xray/boost_python/conversions.o cctbx/xray/boost_python/gradient_flags.o cctbx/xray/boost_python/gradients_direct.o cctbx/xray/boost_python/each_hkl_gradients_direct.o cctbx/xray/boost_python/fast_gradients.o cctbx/xray/boost_python/minimization.o cctbx/xray/boost_python/scatterer_flags.o cctbx/xray/boost_python/scatterer.o cctbx/xray/boost_python/scattering_type_registry.o cctbx/xray/boost_python/sampling_base.o cctbx/xray/boost_python/sampled_model_density.o cctbx/xray/boost_python/structure_factors_direct.o cctbx/xray/boost_python/structure_factors_simple.o cctbx/xray/boost_python/curvatures_simple.o cctbx/xray/boost_python/targets.o cctbx/xray/boost_python/f_model_bpl.o cctbx/xray/boost_python/twin_targets.o cctbx/xray/boost_python/grouped_data.o cctbx/xray/boost_python/parameter_map.o cctbx/xray/boost_python/twin_components.o cctbx/xray/boost_python/extinction.o cctbx/xray/boost_python/sigmaa.o cctbx/xray/targets/shelxl_wght_ls_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' - 'lib/cctbx_eltbx_icsd_radii_ext.so.0'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' - 'lib/cctbx_eltbx_icsd_radii_ext.so'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' -g++ -o lib/cctbx_adptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adptbx_ext.so.0 cctbx/adptbx/boost_python/adptbx_ext.o cctbx/adptbx/boost_python/hirshfeld.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/iotbx_xplor_ext.so.0.0.1' - 'lib/iotbx_xplor_ext.so.0'->'lib/iotbx_xplor_ext.so.0.0.1' - 'lib/iotbx_xplor_ext.so'->'lib/iotbx_xplor_ext.so.0.0.1' -g++ -o lib/libiotbx_pdb.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_pdb.so.0 iotbx/pdb/hybrid_36_c.o iotbx/pdb/hybrid_36_cpp.o iotbx/pdb/utils.o iotbx/pdb/write_utils.o iotbx/pdb/hierarchy.o iotbx/pdb/hierarchy_select.o iotbx/pdb/hierarchy_atoms.o iotbx/pdb/construct_hierarchy.o iotbx/pdb/overall_counts.o iotbx/pdb/hierarchy_write.o iotbx/pdb/atom_selection.o iotbx/pdb/input.o iotbx/pdb/input_write.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o lib/cctbx_sgtbx_asu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_asu_ext.so.0 cctbx/sgtbx/direct_space_asu/proto/asu_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/iotbx_detectors_ext.so.0.0.1' + 'lib/iotbx_detectors_ext.so.0'->'lib/iotbx_detectors_ext.so.0.0.1' + 'lib/iotbx_detectors_ext.so'->'lib/iotbx_detectors_ext.so.0.0.1' g++ -o lib/cctbx_adp_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adp_restraints_ext.so.0 cctbx/adp_restraints/adp_restraints_bpl.o cctbx/adp_restraints/adp_restraints_ext.o cctbx/adp_restraints/rigid_bond_bpl.o cctbx/adp_restraints/rigu_bpl.o cctbx/adp_restraints/adp_similarity_bpl.o cctbx/adp_restraints/isotropic_adp_bpl.o cctbx/adp_restraints/aniso_restraints_bpl.o cctbx/adp_restraints/fixed_u_eq_adp_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_adptbx_ext.so.0.0.1' - 'lib/cctbx_adptbx_ext.so.0'->'lib/cctbx_adptbx_ext.so.0.0.1' - 'lib/cctbx_adptbx_ext.so'->'lib/cctbx_adptbx_ext.so.0.0.1' -g++ -o lib/dxtbx_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_model_ext.so.0 dxtbx/src/dxtbx/model/boost_python/beam.o dxtbx/src/dxtbx/model/boost_python/spectrum.o dxtbx/src/dxtbx/model/boost_python/goniometer.o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o dxtbx/src/dxtbx/model/boost_python/panel.o dxtbx/src/dxtbx/model/boost_python/detector.o dxtbx/src/dxtbx/model/boost_python/scan.o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o dxtbx/src/dxtbx/model/boost_python/crystal.o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o dxtbx/src/dxtbx/model/boost_python/experiment.o dxtbx/src/dxtbx/model/boost_python/experiment_list.o dxtbx/src/dxtbx/model/boost_python/model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python311 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python311 -lcbf -lhdf5 -Create symlinks for: 'lib/cctbx_maptbx_ext.so.0.0.1' - 'lib/cctbx_maptbx_ext.so.0'->'lib/cctbx_maptbx_ext.so.0.0.1' - 'lib/cctbx_maptbx_ext.so'->'lib/cctbx_maptbx_ext.so.0.0.1' -Create symlinks for: 'lib/libiotbx_pdb.so.0.0.1' - 'lib/libiotbx_pdb.so.0'->'lib/libiotbx_pdb.so.0.0.1' - 'lib/libiotbx_pdb.so'->'lib/libiotbx_pdb.so.0.0.1' -g++ -o lib/iotbx_pdb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_ext.so.0 iotbx/pdb/ext.o iotbx/pdb/hybrid_36_bpl.o iotbx/pdb/common_residue_names_bpl.o iotbx/pdb/rna_dna_atom_names_bpl.o iotbx/pdb/input_bpl.o iotbx/pdb/xray_structure_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/dxtbx_imageset_ext.so.0.0.1' + 'lib/dxtbx_imageset_ext.so.0'->'lib/dxtbx_imageset_ext.so.0.0.1' + 'lib/dxtbx_imageset_ext.so'->'lib/dxtbx_imageset_ext.so.0.0.1' +g++ -o lib/dxtbx_masking_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_masking_ext.so.0 dxtbx/src/dxtbx/masking/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python311 -lcbf -lhdf5 +Create symlinks for: 'lib/iotbx_dtrek_ext.so.0.0.1' + 'lib/iotbx_dtrek_ext.so.0'->'lib/iotbx_dtrek_ext.so.0.0.1' + 'lib/iotbx_dtrek_ext.so'->'lib/iotbx_dtrek_ext.so.0.0.1' g++ -o lib/cctbx_sgtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_ext.so.0 cctbx/sgtbx/boost_python/sgtbx_ext.o cctbx/sgtbx/boost_python/brick.o cctbx/sgtbx/boost_python/change_of_basis.o cctbx/sgtbx/boost_python/find_affine.o cctbx/sgtbx/boost_python/lattice_symmetry.o cctbx/sgtbx/boost_python/phase_info.o cctbx/sgtbx/boost_python/reciprocal_space_asu.o cctbx/sgtbx/boost_python/rot_mx.o cctbx/sgtbx/boost_python/rt_mx.o cctbx/sgtbx/boost_python/search_symmetry.o cctbx/sgtbx/boost_python/seminvariant.o cctbx/sgtbx/boost_python/site_symmetry.o cctbx/sgtbx/boost_python/space_group.o cctbx/sgtbx/boost_python/space_group_type.o cctbx/sgtbx/boost_python/sym_equiv_sites.o cctbx/sgtbx/boost_python/symbols.o cctbx/sgtbx/boost_python/tensor_rank_2.o cctbx/sgtbx/boost_python/tensors.o cctbx/sgtbx/boost_python/tr_vec.o cctbx/sgtbx/boost_python/wyckoff.o cctbx/sgtbx/boost_python/select_generators.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/gltbx_glu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_glu_ext.so.0 gltbx/glu_ext.o gltbx/glu_defines_00_bpl.o gltbx/glu_defines_01_bpl.o gltbx/glu_functions_00_bpl.o gltbx/glu_functions_01_bpl.o gltbx/glu_functions_02_bpl.o gltbx/glu_functions_03_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm -Create symlinks for: 'lib/cctbx_adp_restraints_ext.so.0.0.1' - 'lib/cctbx_adp_restraints_ext.so.0'->'lib/cctbx_adp_restraints_ext.so.0.0.1' - 'lib/cctbx_adp_restraints_ext.so'->'lib/cctbx_adp_restraints_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_sgtbx_asu_ext.so.0.0.1' + 'lib/cctbx_sgtbx_asu_ext.so.0'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' + 'lib/cctbx_sgtbx_asu_ext.so'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' g++ -o lib/cctbx_uctbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_uctbx_ext.so.0 cctbx/uctbx/boost_python/uctbx_ext.o cctbx/uctbx/boost_python/fast_minimum_reduction.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/iotbx_pdb_ext.so.0.0.1' - 'lib/iotbx_pdb_ext.so.0'->'lib/iotbx_pdb_ext.so.0.0.1' - 'lib/iotbx_pdb_ext.so'->'lib/iotbx_pdb_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_tiny_pse_ext.so.0 cctbx/eltbx/boost_python/tiny_pse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/gltbx_glu_ext.so.0.0.1' - 'lib/gltbx_glu_ext.so.0'->'lib/gltbx_glu_ext.so.0.0.1' - 'lib/gltbx_glu_ext.so'->'lib/gltbx_glu_ext.so.0.0.1' -g++ -o lib/gltbx_viewer_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_viewer_utils_ext.so.0 gltbx/viewer_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm +g++ -o lib/cctbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_math_ext.so.0 cctbx/math/boost_python/math_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' 'lib/cctbx_eltbx_tiny_pse_ext.so.0'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' 'lib/cctbx_eltbx_tiny_pse_ext.so'->'lib/cctbx_eltbx_tiny_pse_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_xray_scattering_ext.so.0 cctbx/eltbx/boost_python/xray_scattering_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/gltbx_gl_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_gl_ext.so.0 gltbx/gl_ext.o gltbx/gl_defines_00_bpl.o gltbx/gl_defines_01_bpl.o gltbx/gl_defines_02_bpl.o gltbx/gl_defines_03_bpl.o gltbx/gl_defines_04_bpl.o gltbx/gl_defines_05_bpl.o gltbx/gl_defines_06_bpl.o gltbx/gl_defines_07_bpl.o gltbx/gl_functions_00_bpl.o gltbx/gl_functions_01_bpl.o gltbx/gl_functions_02_bpl.o gltbx/gl_functions_03_bpl.o gltbx/gl_functions_04_bpl.o gltbx/gl_functions_05_bpl.o gltbx/gl_functions_06_bpl.o gltbx/gl_functions_07_bpl.o gltbx/gl_functions_08_bpl.o gltbx/gl_functions_09_bpl.o gltbx/gl_functions_10_bpl.o gltbx/gl_functions_11_bpl.o gltbx/gl_functions_12_bpl.o gltbx/gl_functions_13_bpl.o gltbx/gl_functions_14_bpl.o gltbx/gl_functions_15_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm -Create symlinks for: 'lib/gltbx_viewer_utils_ext.so.0.0.1' - 'lib/gltbx_viewer_utils_ext.so.0'->'lib/gltbx_viewer_utils_ext.so.0.0.1' - 'lib/gltbx_viewer_utils_ext.so'->'lib/gltbx_viewer_utils_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_attenuation_coefficient_ext.so.0 cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/cctbx_uctbx_ext.so.0.0.1' 'lib/cctbx_uctbx_ext.so.0'->'lib/cctbx_uctbx_ext.so.0.0.1' 'lib/cctbx_uctbx_ext.so'->'lib/cctbx_uctbx_ext.so.0.0.1' -g++ -o lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_bcr_bcr_ext.so.0 cctbx/maptbx/bcr/bcr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_attenuation_coefficient_ext.so.0 cctbx/eltbx/boost_python/attenuation_coefficient_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/dxtbx_masking_ext.so.0.0.1' + 'lib/dxtbx_masking_ext.so.0'->'lib/dxtbx_masking_ext.so.0.0.1' + 'lib/dxtbx_masking_ext.so'->'lib/dxtbx_masking_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_math_ext.so.0.0.1' + 'lib/cctbx_math_ext.so.0'->'lib/cctbx_math_ext.so.0.0.1' + 'lib/cctbx_math_ext.so'->'lib/cctbx_math_ext.so.0.0.1' +g++ -o lib/iotbx_cif_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_cif_ext.so.0 iotbx/cif/boost_python/cif_ext.o ucif/cifParser.o ucif/cifLexer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm -lantlr3c +g++ -o lib/gltbx_glu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_glu_ext.so.0 gltbx/glu_ext.o gltbx/glu_defines_00_bpl.o gltbx/glu_defines_01_bpl.o gltbx/glu_functions_00_bpl.o gltbx/glu_functions_01_bpl.o gltbx/glu_functions_02_bpl.o gltbx/glu_functions_03_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm +g++ -o lib/gltbx_viewer_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_viewer_utils_ext.so.0 gltbx/viewer_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm Create symlinks for: 'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' 'lib/cctbx_eltbx_xray_scattering_ext.so.0'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' 'lib/cctbx_eltbx_xray_scattering_ext.so'->'lib/cctbx_eltbx_xray_scattering_ext.so.0.0.1' +Create symlinks for: 'lib/iotbx_cif_ext.so.0.0.1' + 'lib/iotbx_cif_ext.so.0'->'lib/iotbx_cif_ext.so.0.0.1' + 'lib/iotbx_cif_ext.so'->'lib/iotbx_cif_ext.so.0.0.1' +Create symlinks for: 'lib/gltbx_viewer_utils_ext.so.0.0.1' + 'lib/gltbx_viewer_utils_ext.so.0'->'lib/gltbx_viewer_utils_ext.so.0.0.1' + 'lib/gltbx_viewer_utils_ext.so'->'lib/gltbx_viewer_utils_ext.so.0.0.1' +g++ -o lib/dxtbx_flumpy.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_flumpy.so.0 dxtbx/src/dxtbx/boost_python/flumpy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python311 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python311 -lcbf -lhdf5 g++ -o lib/cctbx_symmetry_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_symmetry_search_ext.so.0 cctbx/symmetry_search/boost_python/symmetry_search_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_xray_ext.so.0.0.1' - 'lib/cctbx_xray_ext.so.0'->'lib/cctbx_xray_ext.so.0.0.1' - 'lib/cctbx_xray_ext.so'->'lib/cctbx_xray_ext.so.0.0.1' +g++ -o lib/gltbx_gl_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_gl_ext.so.0 gltbx/gl_ext.o gltbx/gl_defines_00_bpl.o gltbx/gl_defines_01_bpl.o gltbx/gl_defines_02_bpl.o gltbx/gl_defines_03_bpl.o gltbx/gl_defines_04_bpl.o gltbx/gl_defines_05_bpl.o gltbx/gl_defines_06_bpl.o gltbx/gl_defines_07_bpl.o gltbx/gl_functions_00_bpl.o gltbx/gl_functions_01_bpl.o gltbx/gl_functions_02_bpl.o gltbx/gl_functions_03_bpl.o gltbx/gl_functions_04_bpl.o gltbx/gl_functions_05_bpl.o gltbx/gl_functions_06_bpl.o gltbx/gl_functions_07_bpl.o gltbx/gl_functions_08_bpl.o gltbx/gl_functions_09_bpl.o gltbx/gl_functions_10_bpl.o gltbx/gl_functions_11_bpl.o gltbx/gl_functions_12_bpl.o gltbx/gl_functions_13_bpl.o gltbx/gl_functions_14_bpl.o gltbx/gl_functions_15_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm Create symlinks for: 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' 'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' 'lib/cctbx_eltbx_attenuation_coefficient_ext.so'->'lib/cctbx_eltbx_attenuation_coefficient_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' - 'lib/cctbx_maptbx_bcr_bcr_ext.so.0'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' - 'lib/cctbx_maptbx_bcr_bcr_ext.so'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' g++ -o lib/cctbx_geometry_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_ext.so.0 cctbx/geometry/boost_python/geometry_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/gltbx_glu_ext.so.0.0.1' + 'lib/gltbx_glu_ext.so.0'->'lib/gltbx_glu_ext.so.0.0.1' + 'lib/gltbx_glu_ext.so'->'lib/gltbx_glu_ext.so.0.0.1' g++ -o lib/cctbx_crystal_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_crystal_ext.so.0 cctbx/crystal/crystal_ext.o cctbx/crystal/asu_clusters_bpl.o cctbx/crystal/close_packing_bpl.o cctbx/crystal/coordination_sequences_bpl.o cctbx/crystal/direct_space_asu_bpl.o cctbx/crystal/incremental_pairs_bpl.o cctbx/crystal/neighbors_bpl.o cctbx/crystal/pair_tables_bpl.o cctbx/crystal/site_cluster_analysis_bpl.o cctbx/crystal/symmetry_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/cctbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_array_family_flex_ext.so.0 cctbx/array_family/boost_python/flex_ext.o cctbx/array_family/boost_python/flex_hendrickson_lattman.o cctbx/array_family/boost_python/flex_miller_index.o cctbx/array_family/boost_python/flex_xray_scatterer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/gltbx_gl_ext.so.0.0.1' - 'lib/gltbx_gl_ext.so.0'->'lib/gltbx_gl_ext.so.0.0.1' - 'lib/gltbx_gl_ext.so'->'lib/gltbx_gl_ext.so.0.0.1' -g++ -o lib/cctbx_statistics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_statistics_ext.so.0 cctbx/boost_python/statistics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/cctbx_adp_restraints_ext.so.0.0.1' + 'lib/cctbx_adp_restraints_ext.so.0'->'lib/cctbx_adp_restraints_ext.so.0.0.1' + 'lib/cctbx_adp_restraints_ext.so'->'lib/cctbx_adp_restraints_ext.so.0.0.1' +Create symlinks for: 'lib/dxtbx_flumpy.so.0.0.1' + 'lib/dxtbx_flumpy.so.0'->'lib/dxtbx_flumpy.so.0.0.1' + 'lib/dxtbx_flumpy.so'->'lib/dxtbx_flumpy.so.0.0.1' Create symlinks for: 'lib/cctbx_symmetry_search_ext.so.0.0.1' 'lib/cctbx_symmetry_search_ext.so.0'->'lib/cctbx_symmetry_search_ext.so.0.0.1' 'lib/cctbx_symmetry_search_ext.so'->'lib/cctbx_symmetry_search_ext.so.0.0.1' -g++ -o lib/gltbx_fonts_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_fonts_ext.so.0 gltbx/fonts_ext.o gltbx/font_ucs_8x13.o gltbx/font_ucs_9x15.o gltbx/font_ucs_10x20.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm -Create symlinks for: 'lib/cctbx_geometry_restraints_ext.so.0.0.1' - 'lib/cctbx_geometry_restraints_ext.so.0'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' - 'lib/cctbx_geometry_restraints_ext.so'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' +g++ -o lib/cctbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_array_family_flex_ext.so.0 cctbx/array_family/boost_python/flex_ext.o cctbx/array_family/boost_python/flex_hendrickson_lattman.o cctbx/array_family/boost_python/flex_miller_index.o cctbx/array_family/boost_python/flex_xray_scatterer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_bcr_bcr_ext.so.0 cctbx/maptbx/bcr/bcr_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/cctbx_geometry_ext.so.0.0.1' 'lib/cctbx_geometry_ext.so.0'->'lib/cctbx_geometry_ext.so.0.0.1' 'lib/cctbx_geometry_ext.so'->'lib/cctbx_geometry_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_statistics_ext.so.0.0.1' - 'lib/cctbx_statistics_ext.so.0'->'lib/cctbx_statistics_ext.so.0.0.1' - 'lib/cctbx_statistics_ext.so'->'lib/cctbx_statistics_ext.so.0.0.1' -Create symlinks for: 'lib/gltbx_fonts_ext.so.0.0.1' - 'lib/gltbx_fonts_ext.so.0'->'lib/gltbx_fonts_ext.so.0.0.1' - 'lib/gltbx_fonts_ext.so'->'lib/gltbx_fonts_ext.so.0.0.1' +g++ -o lib/cctbx_statistics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_statistics_ext.so.0 cctbx/boost_python/statistics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm g++ -o lib/cctbx_orientation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_orientation_ext.so.0 cctbx/boost_python/orientation_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm g++ -o lib/cctbx_eltbx_neutron_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_neutron_ext.so.0 cctbx/eltbx/boost_python/neutron_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/gltbx_gl_ext.so.0.0.1' + 'lib/gltbx_gl_ext.so.0'->'lib/gltbx_gl_ext.so.0.0.1' + 'lib/gltbx_gl_ext.so'->'lib/gltbx_gl_ext.so.0.0.1' g++ -o lib/determine_unit_cell_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=determine_unit_cell_ext.so.0 cctbx/uctbx/determine_unit_cell/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/dxtbx_masking_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_masking_ext.so.0 dxtbx/src/dxtbx/masking/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python311 -lcbf -lhdf5 -Create symlinks for: 'lib/dxtbx_model_ext.so.0.0.1' - 'lib/dxtbx_model_ext.so.0'->'lib/dxtbx_model_ext.so.0.0.1' - 'lib/dxtbx_model_ext.so'->'lib/dxtbx_model_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_array_family_flex_ext.so.0.0.1' - 'lib/cctbx_array_family_flex_ext.so.0'->'lib/cctbx_array_family_flex_ext.so.0.0.1' - 'lib/cctbx_array_family_flex_ext.so'->'lib/cctbx_array_family_flex_ext.so.0.0.1' -Create symlinks for: 'lib/determine_unit_cell_ext.so.0.0.1' - 'lib/determine_unit_cell_ext.so.0'->'lib/determine_unit_cell_ext.so.0.0.1' - 'lib/determine_unit_cell_ext.so'->'lib/determine_unit_cell_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_statistics_ext.so.0.0.1' + 'lib/cctbx_statistics_ext.so.0'->'lib/cctbx_statistics_ext.so.0.0.1' + 'lib/cctbx_statistics_ext.so'->'lib/cctbx_statistics_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' + 'lib/cctbx_maptbx_bcr_bcr_ext.so.0'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' + 'lib/cctbx_maptbx_bcr_bcr_ext.so'->'lib/cctbx_maptbx_bcr_bcr_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_fp_fdp_ext.so.0 cctbx/eltbx/boost_python/fp_fdp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_asymmetric_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_asymmetric_map_ext.so.0 cctbx/maptbx/asymmetric_map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lasymmetric_map -liotbx_xplor -lcctbx_sgtbx_asu -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/cctbx_orientation_ext.so.0.0.1' 'lib/cctbx_orientation_ext.so.0'->'lib/cctbx_orientation_ext.so.0.0.1' 'lib/cctbx_orientation_ext.so'->'lib/cctbx_orientation_ext.so.0.0.1' +g++ -o lib/gltbx_fonts_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_fonts_ext.so.0 gltbx/fonts_ext.o gltbx/font_ucs_8x13.o gltbx/font_ucs_9x15.o gltbx/font_ucs_10x20.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm +Create symlinks for: 'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' + 'lib/cctbx_eltbx_fp_fdp_ext.so.0'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' + 'lib/cctbx_eltbx_fp_fdp_ext.so'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' +g++ -o lib/cctbx_translation_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_translation_search_ext.so.0 cctbx/translation_search/boost_python/translation_search_ext.o cctbx/translation_search/boost_python/fast_nv1995.o cctbx/translation_search/boost_python/fast_terms.o cctbx/translation_search/boost_python/symmetry_flags.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/cctbx_eltbx_neutron_ext.so.0.0.1' 'lib/cctbx_eltbx_neutron_ext.so.0'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' 'lib/cctbx_eltbx_neutron_ext.so'->'lib/cctbx_eltbx_neutron_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_fp_fdp_ext.so.0 cctbx/eltbx/boost_python/fp_fdp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/cctbx_translation_search_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_translation_search_ext.so.0 cctbx/translation_search/boost_python/translation_search_ext.o cctbx/translation_search/boost_python/fast_nv1995.o cctbx/translation_search/boost_python/fast_terms.o cctbx/translation_search/boost_python/symmetry_flags.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/determine_unit_cell_ext.so.0.0.1' + 'lib/determine_unit_cell_ext.so.0'->'lib/determine_unit_cell_ext.so.0.0.1' + 'lib/determine_unit_cell_ext.so'->'lib/determine_unit_cell_ext.so.0.0.1' g++ -o lib/cctbx_covariance_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_covariance_ext.so.0 cctbx/covariance/boost_python/covariance_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm g++ -o lib/cctbx_multipolar_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_multipolar_ext.so.0 cctbx/multipolar/aspherical_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/cctbx_asymmetric_map_ext.so.0.0.1' + 'lib/cctbx_asymmetric_map_ext.so.0'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' + 'lib/cctbx_asymmetric_map_ext.so'->'lib/cctbx_asymmetric_map_ext.so.0.0.1' g++ -o lib/cctbx_dmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_dmtbx_ext.so.0 cctbx/dmtbx/boost_python/dmtbx_ext.o cctbx/dmtbx/boost_python/triplet_phase_relation.o cctbx/dmtbx/boost_python/triplet_generator.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_sgtbx_ext.so.0.0.1' - 'lib/cctbx_sgtbx_ext.so.0'->'lib/cctbx_sgtbx_ext.so.0.0.1' - 'lib/cctbx_sgtbx_ext.so'->'lib/cctbx_sgtbx_ext.so.0.0.1' -Create symlinks for: 'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' - 'lib/cctbx_eltbx_fp_fdp_ext.so.0'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' - 'lib/cctbx_eltbx_fp_fdp_ext.so'->'lib/cctbx_eltbx_fp_fdp_ext.so.0.0.1' -g++ -o lib/dxtbx_flumpy.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_flumpy.so.0 dxtbx/src/dxtbx/boost_python/flumpy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python311 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python311 -lcbf -lhdf5 -g++ -o lib/cctbx_sgtbx_asu_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_sgtbx_asu_ext.so.0 cctbx/sgtbx/direct_space_asu/proto/asu_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx_sgtbx_asu -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/gltbx_fonts_ext.so.0.0.1' + 'lib/gltbx_fonts_ext.so.0'->'lib/gltbx_fonts_ext.so.0.0.1' + 'lib/gltbx_fonts_ext.so'->'lib/gltbx_fonts_ext.so.0.0.1' +g++ -o lib/cctbx_masks_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_masks_ext.so.0 cctbx/masks/boost_python/masks_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/cctbx_multipolar_ext.so.0.0.1' 'lib/cctbx_multipolar_ext.so.0'->'lib/cctbx_multipolar_ext.so.0.0.1' 'lib/cctbx_multipolar_ext.so'->'lib/cctbx_multipolar_ext.so.0.0.1' g++ -o lib/cctbx_eltbx_sasaki_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_sasaki_ext.so.0 cctbx/eltbx/boost_python/sasaki_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/cctbx_covariance_ext.so.0.0.1' - 'lib/cctbx_covariance_ext.so.0'->'lib/cctbx_covariance_ext.so.0.0.1' - 'lib/cctbx_covariance_ext.so'->'lib/cctbx_covariance_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_henke_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_henke_ext.so.0 cctbx/eltbx/boost_python/henke_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/cctbx_translation_search_ext.so.0.0.1' 'lib/cctbx_translation_search_ext.so.0'->'lib/cctbx_translation_search_ext.so.0.0.1' 'lib/cctbx_translation_search_ext.so'->'lib/cctbx_translation_search_ext.so.0.0.1' -g++ -o lib/gltbx_util_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_util_ext.so.0 gltbx/util_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm +Create symlinks for: 'lib/cctbx_covariance_ext.so.0.0.1' + 'lib/cctbx_covariance_ext.so.0'->'lib/cctbx_covariance_ext.so.0.0.1' + 'lib/cctbx_covariance_ext.so'->'lib/cctbx_covariance_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_wavelengths_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_wavelengths_ext.so.0 cctbx/eltbx/boost_python/wavelengths_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_covalent_radii_ext.so.0 cctbx/eltbx/boost_python/covalent_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/cctbx_sgtbx_ext.so.0.0.1' + 'lib/cctbx_sgtbx_ext.so.0'->'lib/cctbx_sgtbx_ext.so.0.0.1' + 'lib/cctbx_sgtbx_ext.so'->'lib/cctbx_sgtbx_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_dmtbx_ext.so.0.0.1' 'lib/cctbx_dmtbx_ext.so.0'->'lib/cctbx_dmtbx_ext.so.0.0.1' 'lib/cctbx_dmtbx_ext.so'->'lib/cctbx_dmtbx_ext.so.0.0.1' -g++ -o lib/iotbx_mtz_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_mtz_ext.so.0 iotbx/mtz/ext.o iotbx/mtz/object_bpl.o iotbx/mtz/crystal_bpl.o iotbx/mtz/dataset_bpl.o iotbx/mtz/column_bpl.o iotbx/mtz/batch_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_mtz -lcctbx -lccp4io -lccp4c -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/dxtbx_masking_ext.so.0.0.1' - 'lib/dxtbx_masking_ext.so.0'->'lib/dxtbx_masking_ext.so.0.0.1' - 'lib/dxtbx_masking_ext.so'->'lib/dxtbx_masking_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_masks_ext.so.0.0.1' + 'lib/cctbx_masks_ext.so.0'->'lib/cctbx_masks_ext.so.0.0.1' + 'lib/cctbx_masks_ext.so'->'lib/cctbx_masks_ext.so.0.0.1' Create symlinks for: 'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' 'lib/cctbx_eltbx_sasaki_ext.so.0'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' 'lib/cctbx_eltbx_sasaki_ext.so'->'lib/cctbx_eltbx_sasaki_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' + 'lib/cctbx_eltbx_wavelengths_ext.so.0'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' + 'lib/cctbx_eltbx_wavelengths_ext.so'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' + 'lib/cctbx_eltbx_covalent_radii_ext.so.0'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' + 'lib/cctbx_eltbx_covalent_radii_ext.so'->'lib/cctbx_eltbx_covalent_radii_ext.so.0.0.1' +g++ -o lib/cctbx_merging_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_merging_ext.so.0 cctbx/merging/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/gltbx_util_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_util_ext.so.0 gltbx/util_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm +g++ -o lib/dxtbx_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=dxtbx_model_ext.so.0 dxtbx/src/dxtbx/model/boost_python/beam.o dxtbx/src/dxtbx/model/boost_python/spectrum.o dxtbx/src/dxtbx/model/boost_python/goniometer.o dxtbx/src/dxtbx/model/boost_python/kappa_goniometer.o dxtbx/src/dxtbx/model/boost_python/multi_axis_goniometer.o dxtbx/src/dxtbx/model/boost_python/panel.o dxtbx/src/dxtbx/model/boost_python/detector.o dxtbx/src/dxtbx/model/boost_python/scan.o dxtbx/src/dxtbx/model/boost_python/scan_helpers.o dxtbx/src/dxtbx/model/boost_python/crystal.o dxtbx/src/dxtbx/model/boost_python/parallax_correction.o dxtbx/src/dxtbx/model/boost_python/pixel_to_millimeter.o dxtbx/src/dxtbx/model/boost_python/experiment.o dxtbx/src/dxtbx/model/boost_python/experiment_list.o dxtbx/src/dxtbx/model/boost_python/model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/base/lib -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lm -ltiff -lboost_python311 -lcbf -lboost_thread -lboost_system -lm -lcctbx -lscitbx_boost_python -ltiff -lboost_python311 -lcbf -lhdf5 +g++ -o lib/gltbx_quadrics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=gltbx_quadrics_ext.so.0 gltbx/quadrics_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lGLU -lGL -lm +g++ -o lib/cctbx_maptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_maptbx_ext.so.0 cctbx/maptbx/boost_python/maptbx_ext.o cctbx/maptbx/boost_python/grid_indices_around_sites.o cctbx/maptbx/boost_python/grid_tags.o cctbx/maptbx/boost_python/gridding.o cctbx/maptbx/boost_python/misc.o cctbx/maptbx/boost_python/peak_search.o cctbx/maptbx/boost_python/pymol_interface.o cctbx/maptbx/boost_python/statistics.o cctbx/maptbx/boost_python/structure_factors.o cctbx/maptbx/boost_python/coordinate_transformers.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_miller_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_miller_ext.so.0 cctbx/miller/boost_python/miller_ext.o cctbx/miller/boost_python/asu.o cctbx/miller/boost_python/bins.o cctbx/miller/boost_python/change_basis.o cctbx/miller/boost_python/expand_to_p1.o cctbx/miller/boost_python/index_generator.o cctbx/miller/boost_python/index_span.o cctbx/miller/boost_python/match_bijvoet_mates.o cctbx/miller/boost_python/match_indices.o cctbx/miller/boost_python/match_multi_indices.o cctbx/miller/boost_python/merge_equivalents.o cctbx/miller/boost_python/phase_integrator.o cctbx/miller/boost_python/phase_transfer.o cctbx/miller/boost_python/sym_equiv.o cctbx/miller/boost_python/f_calc_map.o cctbx/miller/boost_python/lookup_utils.o cctbx/miller/boost_python/amplitude_normalisation.o cctbx/miller/boost_python/randomize_amplitude_and_phase.o cctbx/miller/boost_python/slices.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/cctbx_array_family_flex_ext.so.0.0.1' + 'lib/cctbx_array_family_flex_ext.so.0'->'lib/cctbx_array_family_flex_ext.so.0.0.1' + 'lib/cctbx_array_family_flex_ext.so'->'lib/cctbx_array_family_flex_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_merging_ext.so.0.0.1' + 'lib/cctbx_merging_ext.so.0'->'lib/cctbx_merging_ext.so.0.0.1' + 'lib/cctbx_merging_ext.so'->'lib/cctbx_merging_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_henke_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_henke_ext.so.0 cctbx/eltbx/boost_python/henke_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_emma_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_emma_ext.so.0 cctbx/boost_python/emma_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/gltbx_util_ext.so.0.0.1' + 'lib/gltbx_util_ext.so.0'->'lib/gltbx_util_ext.so.0.0.1' + 'lib/gltbx_util_ext.so'->'lib/gltbx_util_ext.so.0.0.1' +g++ -o lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_chemical_elements_ext.so.0 cctbx/eltbx/boost_python/chemical_elements_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_xray_observations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_observations_ext.so.0 cctbx/xray/observations/boost_python/observations.o cctbx/xray/observations/boost_python/observations_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/cctbx_eltbx_henke_ext.so.0.0.1' 'lib/cctbx_eltbx_henke_ext.so.0'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' 'lib/cctbx_eltbx_henke_ext.so'->'lib/cctbx_eltbx_henke_ext.so.0.0.1' -g++ -o lib/cctbx_eltbx_wavelengths_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_wavelengths_ext.so.0 cctbx/eltbx/boost_python/wavelengths_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_french_wilson_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_french_wilson_ext.so.0 cctbx/boost_python/french_wilson_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/cctbx_crystal_ext.so.0.0.1' 'lib/cctbx_crystal_ext.so.0'->'lib/cctbx_crystal_ext.so.0.0.1' 'lib/cctbx_crystal_ext.so'->'lib/cctbx_crystal_ext.so.0.0.1' +Create symlinks for: 'lib/gltbx_quadrics_ext.so.0.0.1' + 'lib/gltbx_quadrics_ext.so.0'->'lib/gltbx_quadrics_ext.so.0.0.1' + 'lib/gltbx_quadrics_ext.so'->'lib/gltbx_quadrics_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' + 'lib/cctbx_eltbx_chemical_elements_ext.so.0'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' + 'lib/cctbx_eltbx_chemical_elements_ext.so'->'lib/cctbx_eltbx_chemical_elements_ext.so.0.0.1' +Create symlinks for: 'lib/cctbx_emma_ext.so.0.0.1' + 'lib/cctbx_emma_ext.so.0'->'lib/cctbx_emma_ext.so.0.0.1' + 'lib/cctbx_emma_ext.so'->'lib/cctbx_emma_ext.so.0.0.1' +g++ -o lib/cctbx_geometry_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_geometry_restraints_ext.so.0 cctbx/geometry_restraints/geometry_restraints_ext.o cctbx/geometry_restraints/bond_bpl.o cctbx/geometry_restraints/bond_similarity_bpl.o cctbx/geometry_restraints/bond_sorted_bpl.o cctbx/geometry_restraints/nonbonded_bpl.o cctbx/geometry_restraints/nonbonded_sorted_bpl.o cctbx/geometry_restraints/angle_bpl.o cctbx/geometry_restraints/dihedral_bpl.o cctbx/geometry_restraints/chirality_bpl.o cctbx/geometry_restraints/planarity_bpl.o cctbx/geometry_restraints/parallelity_bpl.o cctbx/geometry_restraints/motif_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_anharmonic_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_anharmonic_ext.so.0 cctbx/adptbx/boost_python/anharmonic_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_eltbx_icsd_radii_ext.so.0 cctbx/eltbx/boost_python/icsd_radii_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/cctbx_xray_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_xray_ext.so.0 cctbx/xray/boost_python/xray_ext.o cctbx/xray/boost_python/conversions.o cctbx/xray/boost_python/gradient_flags.o cctbx/xray/boost_python/gradients_direct.o cctbx/xray/boost_python/each_hkl_gradients_direct.o cctbx/xray/boost_python/fast_gradients.o cctbx/xray/boost_python/minimization.o cctbx/xray/boost_python/scatterer_flags.o cctbx/xray/boost_python/scatterer.o cctbx/xray/boost_python/scattering_type_registry.o cctbx/xray/boost_python/sampling_base.o cctbx/xray/boost_python/sampled_model_density.o cctbx/xray/boost_python/structure_factors_direct.o cctbx/xray/boost_python/structure_factors_simple.o cctbx/xray/boost_python/curvatures_simple.o cctbx/xray/boost_python/targets.o cctbx/xray/boost_python/f_model_bpl.o cctbx/xray/boost_python/twin_targets.o cctbx/xray/boost_python/grouped_data.o cctbx/xray/boost_python/parameter_map.o cctbx/xray/boost_python/twin_components.o cctbx/xray/boost_python/extinction.o cctbx/xray/boost_python/sigmaa.o cctbx/xray/targets/shelxl_wght_ls_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/cctbx_french_wilson_ext.so.0.0.1' + 'lib/cctbx_french_wilson_ext.so.0'->'lib/cctbx_french_wilson_ext.so.0.0.1' + 'lib/cctbx_french_wilson_ext.so'->'lib/cctbx_french_wilson_ext.so.0.0.1' +g++ -o lib/cctbx_adptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=cctbx_adptbx_ext.so.0 cctbx/adptbx/boost_python/adptbx_ext.o cctbx/adptbx/boost_python/hirshfeld.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/cctbx_xray_observations_ext.so.0.0.1' + 'lib/cctbx_xray_observations_ext.so.0'->'lib/cctbx_xray_observations_ext.so.0.0.1' + 'lib/cctbx_xray_observations_ext.so'->'lib/cctbx_xray_observations_ext.so.0.0.1' +g++ -o lib/libiotbx_mtz.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_mtz.so.0 iotbx/mtz/object.o iotbx/mtz/crystal.o iotbx/mtz/dataset.o iotbx/mtz/column.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lccp4io -lccp4c -lm -lboost_thread -lboost_system +g++ -o lib/libiotbx_pdb.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libiotbx_pdb.so.0 iotbx/pdb/hybrid_36_c.o iotbx/pdb/hybrid_36_cpp.o iotbx/pdb/utils.o iotbx/pdb/write_utils.o iotbx/pdb/hierarchy.o iotbx/pdb/hierarchy_select.o iotbx/pdb/hierarchy_atoms.o iotbx/pdb/construct_hierarchy.o iotbx/pdb/overall_counts.o iotbx/pdb/hierarchy_write.o iotbx/pdb/atom_selection.o iotbx/pdb/input.o iotbx/pdb/input_write.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +Create symlinks for: 'lib/cctbx_anharmonic_ext.so.0.0.1' + 'lib/cctbx_anharmonic_ext.so.0'->'lib/cctbx_anharmonic_ext.so.0.0.1' + 'lib/cctbx_anharmonic_ext.so'->'lib/cctbx_anharmonic_ext.so.0.0.1' +g++ -o lib/iotbx_scalepack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_scalepack_ext.so.0 iotbx/misc/boost_python/scalepack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' + 'lib/cctbx_eltbx_icsd_radii_ext.so.0'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' + 'lib/cctbx_eltbx_icsd_radii_ext.so'->'lib/cctbx_eltbx_icsd_radii_ext.so.0.0.1' +g++ -o lib/iotbx_shelx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_shelx_ext.so.0 iotbx/shelx/shelx_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/libiotbx_mtz.so.0.0.1' + 'lib/libiotbx_mtz.so.0'->'lib/libiotbx_mtz.so.0.0.1' + 'lib/libiotbx_mtz.so'->'lib/libiotbx_mtz.so.0.0.1' +g++ -o lib/iotbx_mtz_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_mtz_ext.so.0 iotbx/mtz/ext.o iotbx/mtz/object_bpl.o iotbx/mtz/crystal_bpl.o iotbx/mtz/dataset_bpl.o iotbx/mtz/column_bpl.o iotbx/mtz/batch_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_mtz -lcctbx -lccp4io -lccp4c -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/cctbx_adptbx_ext.so.0.0.1' + 'lib/cctbx_adptbx_ext.so.0'->'lib/cctbx_adptbx_ext.so.0.0.1' + 'lib/cctbx_adptbx_ext.so'->'lib/cctbx_adptbx_ext.so.0.0.1' +Create symlinks for: 'lib/iotbx_scalepack_ext.so.0.0.1' + 'lib/iotbx_scalepack_ext.so.0'->'lib/iotbx_scalepack_ext.so.0.0.1' + 'lib/iotbx_scalepack_ext.so'->'lib/iotbx_scalepack_ext.so.0.0.1' +g++ -o lib/iotbx_wildcard_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_wildcard_ext.so.0 iotbx/wildcard_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/cctbx_maptbx_ext.so.0.0.1' + 'lib/cctbx_maptbx_ext.so.0'->'lib/cctbx_maptbx_ext.so.0.0.1' + 'lib/cctbx_maptbx_ext.so'->'lib/cctbx_maptbx_ext.so.0.0.1' +g++ -o lib/iotbx_xplor_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_xplor_ext.so.0 iotbx/xplor/boost_python/xplor_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_xplor -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/iotbx_shelx_ext.so.0.0.1' + 'lib/iotbx_shelx_ext.so.0'->'lib/iotbx_shelx_ext.so.0.0.1' + 'lib/iotbx_shelx_ext.so'->'lib/iotbx_shelx_ext.so.0.0.1' +Create symlinks for: 'lib/iotbx_wildcard_ext.so.0.0.1' + 'lib/iotbx_wildcard_ext.so.0'->'lib/iotbx_wildcard_ext.so.0.0.1' + 'lib/iotbx_wildcard_ext.so'->'lib/iotbx_wildcard_ext.so.0.0.1' +g++ -o spotfinder/dxtbx_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/libdistl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/iotbx_xplor_ext.so.0.0.1' + 'lib/iotbx_xplor_ext.so.0'->'lib/iotbx_xplor_ext.so.0.0.1' + 'lib/iotbx_xplor_ext.so'->'lib/iotbx_xplor_ext.so.0.0.1' +g++ -o spotfinder/dxtbx_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/distl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o spotfinder/core_toolbox/spot.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/spot.cpp +g++ -o spotfinder/core_toolbox/libdistl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/libdistl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/libiotbx_pdb.so.0.0.1' + 'lib/libiotbx_pdb.so.0'->'lib/libiotbx_pdb.so.0.0.1' + 'lib/libiotbx_pdb.so'->'lib/libiotbx_pdb.so.0.0.1' +g++ -o lib/iotbx_pdb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_ext.so.0 iotbx/pdb/ext.o iotbx/pdb/hybrid_36_bpl.o iotbx/pdb/common_residue_names_bpl.o iotbx/pdb/rna_dna_atom_names_bpl.o iotbx/pdb/input_bpl.o iotbx/pdb/xray_structure_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/cctbx_miller_ext.so.0.0.1' + 'lib/cctbx_miller_ext.so.0'->'lib/cctbx_miller_ext.so.0.0.1' + 'lib/cctbx_miller_ext.so'->'lib/cctbx_miller_ext.so.0.0.1' +Create symlinks for: 'lib/iotbx_mtz_ext.so.0.0.1' + 'lib/iotbx_mtz_ext.so.0'->'lib/iotbx_mtz_ext.so.0.0.1' + 'lib/iotbx_mtz_ext.so'->'lib/iotbx_mtz_ext.so.0.0.1' +g++ -o spotfinder/core_toolbox/hough.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/hough.cpp g++ -o spotfinder/core_toolbox/distl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/distl.cpp -g++ -o spotfinder/core_toolbox/spotfilter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/spotfilter.cpp -Create symlinks for: 'lib/dxtbx_flumpy.so.0.0.1' - 'lib/dxtbx_flumpy.so.0'->'lib/dxtbx_flumpy.so.0.0.1' - 'lib/dxtbx_flumpy.so'->'lib/dxtbx_flumpy.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/cctbx_sgtbx_asu_ext.so.0.0.1' - 'lib/cctbx_sgtbx_asu_ext.so.0'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' - 'lib/cctbx_sgtbx_asu_ext.so'->'lib/cctbx_sgtbx_asu_ext.so.0.0.1' -Create symlinks for: 'lib/gltbx_util_ext.so.0.0.1' - 'lib/gltbx_util_ext.so.0'->'lib/gltbx_util_ext.so.0.0.1' - 'lib/gltbx_util_ext.so'->'lib/gltbx_util_ext.so.0.0.1' +Create symlinks for: 'lib/iotbx_pdb_ext.so.0.0.1' + 'lib/iotbx_pdb_ext.so.0'->'lib/iotbx_pdb_ext.so.0.0.1' + 'lib/iotbx_pdb_ext.so'->'lib/iotbx_pdb_ext.so.0.0.1' +g++ -o spotfinder/core_toolbox/spotfilter.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Ispotfinder/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/src -Ispotfinder/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/spotfilter.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/dxtbx_model_ext.so.0.0.1' + 'lib/dxtbx_model_ext.so.0'->'lib/dxtbx_model_ext.so.0.0.1' + 'lib/dxtbx_model_ext.so'->'lib/dxtbx_model_ext.so.0.0.1' g++ -o mmtbx/masks/atom_mask.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/masks/atom_mask.cpp -Create symlinks for: 'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' - 'lib/cctbx_eltbx_wavelengths_ext.so.0'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' - 'lib/cctbx_eltbx_wavelengths_ext.so'->'lib/cctbx_eltbx_wavelengths_ext.so.0.0.1' -g++ -o mmtbx/tls/decompose.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/decompose.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/cctbx_xray_ext.so.0.0.1' + 'lib/cctbx_xray_ext.so.0'->'lib/cctbx_xray_ext.so.0.0.1' + 'lib/cctbx_xray_ext.so'->'lib/cctbx_xray_ext.so.0.0.1' +g++ -o mmtbx/tls/decompose.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/decompose.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/cctbx_geometry_restraints_ext.so.0.0.1' + 'lib/cctbx_geometry_restraints_ext.so.0'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' + 'lib/cctbx_geometry_restraints_ext.so'->'lib/cctbx_geometry_restraints_ext.so.0.0.1' g++ -o rstbx/dps_core/dps_core.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/dps_core.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/dps_core/directional_fft.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/directional_fft.cpp -g++ -o rstbx/dps_core/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o rstbx/dps_core/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/iotbx_mtz_ext.so.0.0.1' - 'lib/iotbx_mtz_ext.so.0'->'lib/iotbx_mtz_ext.so.0.0.1' - 'lib/iotbx_mtz_ext.so'->'lib/iotbx_mtz_ext.so.0.0.1' g++ -o rstbx/indexing_api/indexing_api.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/indexing_api.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/diffraction/ewald_sphere.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/ewald_sphere.cpp @@ -30144,19 +30180,27 @@ g++ -o scitbx/minpack/raw.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/minpack/raw.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ gcc -o scitbx/slatec/lib_c.o -c -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/slatec/lib_c.c +g++ -o smtbx/refinement/constraints/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/affine.cpp g++ -o lib/libscitbx_slatec.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_slatec.so.0 scitbx/slatec/lib_c.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libscitbx_slatec.so.0.0.1' 'lib/libscitbx_slatec.so.0'->'lib/libscitbx_slatec.so.0.0.1' 'lib/libscitbx_slatec.so'->'lib/libscitbx_slatec.so.0.0.1' -g++ -o smtbx/refinement/constraints/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/affine.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/geometrical_hydrogens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/occupancy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libmmtbx_tls.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libmmtbx_tls.so.0 mmtbx/tls/decompose.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lm +g++ -o lib/libspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libspotfinder.so.0 spotfinder/core_toolbox/spot.o spotfinder/core_toolbox/libdistl.o spotfinder/core_toolbox/hough.o spotfinder/core_toolbox/distl.o spotfinder/core_toolbox/spotfilter.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lomptbx -lm +Create symlinks for: 'lib/libmmtbx_tls.so.0.0.1' + 'lib/libmmtbx_tls.so.0'->'lib/libmmtbx_tls.so.0.0.1' + 'lib/libmmtbx_tls.so'->'lib/libmmtbx_tls.so.0.0.1' g++ -o smtbx/refinement/constraints/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/reparametrisation.cpp -g++ -o lib/libscitbx_minpack.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_minpack.so.0 scitbx/minpack/raw.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lm cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libscitbx_minpack.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libscitbx_minpack.so.0 scitbx/minpack/raw.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lm +Create symlinks for: 'lib/libspotfinder.so.0.0.1' + 'lib/libspotfinder.so.0'->'lib/libspotfinder.so.0.0.1' + 'lib/libspotfinder.so'->'lib/libspotfinder.so.0.0.1' g++ -o smtbx/refinement/constraints/rigid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/rigid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libscitbx_minpack.so.0.0.1' @@ -30164,28 +30208,20 @@ 'lib/libscitbx_minpack.so'->'lib/libscitbx_minpack.so.0.0.1' g++ -o smtbx/refinement/constraints/same_group.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/same_group.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libdxtbxspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libdxtbxspotfinder.so.0 spotfinder/dxtbx_toolbox/libdistl.o spotfinder/dxtbx_toolbox/distl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lann-cctbx -lomptbx -lm +Create symlinks for: 'lib/libdxtbxspotfinder.so.0.0.1' + 'lib/libdxtbxspotfinder.so.0'->'lib/libdxtbxspotfinder.so.0.0.1' + 'lib/libdxtbxspotfinder.so'->'lib/libdxtbxspotfinder.so.0.0.1' g++ -o smtbx/refinement/constraints/scaled_adp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/scaled_adp.cpp -g++ -o lib/libmmtbx_tls.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libmmtbx_tls.so.0 mmtbx/tls/decompose.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lm -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/libmmtbx_tls.so.0.0.1' - 'lib/libmmtbx_tls.so.0'->'lib/libmmtbx_tls.so.0.0.1' - 'lib/libmmtbx_tls.so'->'lib/libmmtbx_tls.so.0.0.1' g++ -o smtbx/refinement/constraints/shared.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/shared.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o smtbx/refinement/constraints/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/special_position.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/librstbx.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=librstbx.so.0 rstbx/dps_core/dps_core.o rstbx/dps_core/directional_fft.o rstbx/dps_core/direction.o rstbx/indexing_api/indexing_api.o rstbx/diffraction/ewald_sphere.o rstbx/diffraction/partial_spot_position_partial_H.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lcctbx -lm Create symlinks for: 'lib/librstbx.so.0.0.1' 'lib/librstbx.so.0'->'lib/librstbx.so.0.0.1' 'lib/librstbx.so'->'lib/librstbx.so.0.0.1' -g++ -o smtbx/refinement/constraints/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/special_position.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libspotfinder.so.0 spotfinder/core_toolbox/spot.o spotfinder/core_toolbox/libdistl.o spotfinder/core_toolbox/hough.o spotfinder/core_toolbox/distl.o spotfinder/core_toolbox/spotfilter.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lomptbx -lm -Create symlinks for: 'lib/libspotfinder.so.0.0.1' - 'lib/libspotfinder.so.0'->'lib/libspotfinder.so.0.0.1' - 'lib/libspotfinder.so'->'lib/libspotfinder.so.0.0.1' -g++ -o lib/libdxtbxspotfinder.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libdxtbxspotfinder.so.0 spotfinder/dxtbx_toolbox/libdistl.o spotfinder/dxtbx_toolbox/distl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lann-cctbx -lomptbx -lm -Create symlinks for: 'lib/libdxtbxspotfinder.so.0.0.1' - 'lib/libdxtbxspotfinder.so.0'->'lib/libdxtbxspotfinder.so.0.0.1' - 'lib/libdxtbxspotfinder.so'->'lib/libdxtbxspotfinder.so.0.0.1' g++ -o smtbx/refinement/constraints/symmetry_equivalent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/symmetry_equivalent.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/u_eq_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/u_eq_dependent_u_iso.cpp @@ -30207,8 +30243,8 @@ g++ -o mmtbx/secondary_structure/dssp_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/secondary_structure/dssp_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/dynamics/dynamics_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/dynamics/dynamics_ext.cpp -g++ -o mmtbx/dynamics/dynamics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/dynamics/dynamics.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o mmtbx/dynamics/dynamics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/dynamics/dynamics.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/libsmtbx_refinement_constraints.so.0.0.1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread -shared -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -Wl,-soname=libsmtbx_refinement_constraints.so.0 smtbx/refinement/constraints/affine.o smtbx/refinement/constraints/geometrical_hydrogens.o smtbx/refinement/constraints/occupancy.o smtbx/refinement/constraints/reparametrisation.o smtbx/refinement/constraints/rigid.o smtbx/refinement/constraints/same_group.o smtbx/refinement/constraints/scaled_adp.o smtbx/refinement/constraints/shared.o smtbx/refinement/constraints/special_position.o smtbx/refinement/constraints/symmetry_equivalent.o smtbx/refinement/constraints/u_eq_dependent_u_iso.o smtbx/refinement/constraints/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system Create symlinks for: 'lib/libsmtbx_refinement_constraints.so.0.0.1' @@ -30255,47 +30291,41 @@ 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ g++ -o lib/iotbx_pdb_hierarchy_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=iotbx_pdb_hierarchy_ext.so.0 iotbx/pdb/hierarchy_ext.o iotbx/pdb/hierarchy_atom_bpl.o iotbx/pdb/hierarchy_atoms_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/mmtbx_alignment_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_alignment_ext.so.0 mmtbx/alignment/alignment_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' 'lib/iotbx_pdb_hierarchy_ext.so.0'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' 'lib/iotbx_pdb_hierarchy_ext.so'->'lib/iotbx_pdb_hierarchy_ext.so.0.0.1' +g++ -o mmtbx/geometry/boost_python/indexing_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_alignment_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_alignment_ext.so.0 mmtbx/alignment/alignment_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/mmtbx_alignment_ext.so.0.0.1' 'lib/mmtbx_alignment_ext.so.0'->'lib/mmtbx_alignment_ext.so.0.0.1' 'lib/mmtbx_alignment_ext.so'->'lib/mmtbx_alignment_ext.so.0.0.1' -g++ -o mmtbx/geometry/boost_python/indexing_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/geometry/boost_python/primitive_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/primitive_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/libmmtbx_masks.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libmmtbx_masks.so.0 mmtbx/masks/atom_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm g++ -o lib/mmtbx_dssp_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dssp_ext.so.0 mmtbx/secondary_structure/dssp_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/mmtbx_dssp_ext.so.0.0.1' 'lib/mmtbx_dssp_ext.so.0'->'lib/mmtbx_dssp_ext.so.0.0.1' 'lib/mmtbx_dssp_ext.so'->'lib/mmtbx_dssp_ext.so.0.0.1' g++ -o mmtbx/geometry/boost_python/shared_types_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/libmmtbx_masks.so.0.0.1 -shared -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -Wl,-soname=libmmtbx_masks.so.0 mmtbx/masks/atom_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm -g++ -o lib/mmtbx_cablam_align_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_cablam_align_utils_ext.so.0 mmtbx/cablam/boost_python/cablam_align_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm g++ -o lib/mmtbx_dynamics_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_dynamics_ext.so.0 mmtbx/dynamics/dynamics_ext.o mmtbx/dynamics/dynamics.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/mmtbx_cablam_align_utils_ext.so.0.0.1' - 'lib/mmtbx_cablam_align_utils_ext.so.0'->'lib/mmtbx_cablam_align_utils_ext.so.0.0.1' - 'lib/mmtbx_cablam_align_utils_ext.so'->'lib/mmtbx_cablam_align_utils_ext.so.0.0.1' -g++ -o mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/sphere_surface_sampling_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/libmmtbx_masks.so.0.0.1' 'lib/libmmtbx_masks.so.0'->'lib/libmmtbx_masks.so.0.0.1' 'lib/libmmtbx_masks.so'->'lib/libmmtbx_masks.so.0.0.1' +g++ -o mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/sphere_surface_sampling_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_cablam_align_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_cablam_align_utils_ext.so.0 mmtbx/cablam/boost_python/cablam_align_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/mmtbx_dynamics_ext.so.0.0.1' 'lib/mmtbx_dynamics_ext.so.0'->'lib/mmtbx_dynamics_ext.so.0.0.1' 'lib/mmtbx_dynamics_ext.so'->'lib/mmtbx_dynamics_ext.so.0.0.1' g++ -o mmtbx/hydrogens/hydrogens_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/hydrogens/hydrogens_ext.cpp +Create symlinks for: 'lib/mmtbx_cablam_align_utils_ext.so.0.0.1' + 'lib/mmtbx_cablam_align_utils_ext.so.0'->'lib/mmtbx_cablam_align_utils_ext.so.0.0.1' + 'lib/mmtbx_cablam_align_utils_ext.so'->'lib/mmtbx_cablam_align_utils_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/masks/masks_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/masks/masks_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_building_loop_closure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_building_loop_closure_ext.so.0 mmtbx/building/loop_closure/ccd_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -liotbx_pdb -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/mmtbx_building_loop_closure_ext.so.0.0.1' - 'lib/mmtbx_building_loop_closure_ext.so.0'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' - 'lib/mmtbx_building_loop_closure_ext.so'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' -g++ -o mmtbx/max_lik/max_lik_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/max_lik/max_lik_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, from /usr/include/boost/function/detail/prologue.hpp:12, from /usr/include/boost/function/function_template.hpp:13, @@ -30330,6 +30360,12 @@ /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ +g++ -o lib/mmtbx_building_loop_closure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_building_loop_closure_ext.so.0 mmtbx/building/loop_closure/ccd_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -liotbx_pdb -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/mmtbx_building_loop_closure_ext.so.0.0.1' + 'lib/mmtbx_building_loop_closure_ext.so.0'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' + 'lib/mmtbx_building_loop_closure_ext.so'->'lib/mmtbx_building_loop_closure_ext.so.0.0.1' +g++ -o mmtbx/max_lik/max_lik_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/max_lik/max_lik_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/function/detail/requires_cxx11.hpp:9, from /usr/include/boost/function/detail/prologue.hpp:12, from /usr/include/boost/function/function_template.hpp:13, @@ -30337,9 +30373,13 @@ from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/converter/object_manager.hpp:8, - from /usr/include/boost/python/extract.hpp:10, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp:2: + from /usr/include/boost/python/converter/arg_to_python_base.hpp:7, + from /usr/include/boost/python/converter/arg_to_python.hpp:14, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object/class.hpp:9, + from /usr/include/boost/python/class.hpp:13, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ @@ -30350,26 +30390,22 @@ from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/converter/arg_to_python_base.hpp:7, - from /usr/include/boost/python/converter/arg_to_python.hpp:14, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object/class.hpp:9, - from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/shared_types_ext.cpp:2: + from /usr/include/boost/python/converter/object_manager.hpp:8, + from /usr/include/boost/python/extract.hpp:10, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry/boost_python/indexing_ext.cpp:2: /usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ -g++ -o lib/mmtbx_geometry_primitive_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_primitive_ext.so.0 mmtbx/geometry/boost_python/primitive_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/mmtbx_geometry_primitive_ext.so.0.0.1' - 'lib/mmtbx_geometry_primitive_ext.so.0'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' - 'lib/mmtbx_geometry_primitive_ext.so'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' -g++ -o mmtbx/max_lik/max_lik.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/max_lik/max_lik.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_den_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_den_restraints_ext.so.0 mmtbx/den/boost_python/den_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/mmtbx_den_restraints_ext.so.0.0.1' 'lib/mmtbx_den_restraints_ext.so.0'->'lib/mmtbx_den_restraints_ext.so.0.0.1' 'lib/mmtbx_den_restraints_ext.so'->'lib/mmtbx_den_restraints_ext.so.0.0.1' +g++ -o mmtbx/max_lik/max_lik.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/max_lik/max_lik.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_geometry_primitive_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_primitive_ext.so.0 mmtbx/geometry/boost_python/primitive_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/mmtbx_geometry_primitive_ext.so.0.0.1' + 'lib/mmtbx_geometry_primitive_ext.so.0'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' + 'lib/mmtbx_geometry_primitive_ext.so'->'lib/mmtbx_geometry_primitive_ext.so.0.0.1' g++ -o mmtbx/bulk_solvent/mosaic_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/bulk_solvent/mosaic_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_geometry_shared_types_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_shared_types_ext.so.0 mmtbx/geometry/boost_python/shared_types_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm @@ -30380,14 +30416,14 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_f_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_f_model_ext.so.0 mmtbx/f_model/f_model_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm g++ -o lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_sphere_surface_sampling_ext.so.0 mmtbx/geometry/boost_python/sphere_surface_sampling_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/mmtbx_f_model_ext.so.0.0.1' - 'lib/mmtbx_f_model_ext.so.0'->'lib/mmtbx_f_model_ext.so.0.0.1' - 'lib/mmtbx_f_model_ext.so'->'lib/mmtbx_f_model_ext.so.0.0.1' -g++ -o mmtbx/ncs/tncs_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/ncs/tncs_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0'->'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' 'lib/mmtbx_geometry_sphere_surface_sampling_ext.so'->'lib/mmtbx_geometry_sphere_surface_sampling_ext.so.0.0.1' +g++ -o mmtbx/ncs/tncs_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/ncs/tncs_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/mmtbx_f_model_ext.so.0.0.1' + 'lib/mmtbx_f_model_ext.so.0'->'lib/mmtbx_f_model_ext.so.0.0.1' + 'lib/mmtbx_f_model_ext.so'->'lib/mmtbx_f_model_ext.so.0.0.1' g++ -o mmtbx/pair_interaction/interaction_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/pair_interaction/interaction_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_hydrogens_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_hydrogens_ext.so.0 mmtbx/hydrogens/hydrogens_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm @@ -30422,23 +30458,11 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o mmtbx/reduce/boost_python/reduce_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/boost_python/reduce_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_geometry_indexing_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_indexing_ext.so.0 mmtbx/geometry/boost_python/indexing_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/mmtbx_geometry_indexing_ext.so.0.0.1' - 'lib/mmtbx_geometry_indexing_ext.so.0'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' - 'lib/mmtbx_geometry_indexing_ext.so'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' g++ -o mmtbx/reduce/PositionReturn.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/PositionReturn.cpp -g++ -o mmtbx/reduce/InteractionGraph.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/InteractionGraph.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o mmtbx/reduce/InteractionGraph.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/InteractionGraph.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_max_lik_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_max_lik_ext.so.0 mmtbx/max_lik/max_lik_ext.o mmtbx/max_lik/max_lik.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/mmtbx_max_lik_ext.so.0.0.1' - 'lib/mmtbx_max_lik_ext.so.0'->'lib/mmtbx_max_lik_ext.so.0.0.1' - 'lib/mmtbx_max_lik_ext.so'->'lib/mmtbx_max_lik_ext.so.0.0.1' -g++ -o mmtbx/reduce/Optimizers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/Optimizers.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_geometry_clash_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_clash_ext.so.0 mmtbx/geometry/boost_python/clash_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/xray/scatterer.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/restraints.h:6, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/dihedral.h:6, @@ -30448,9 +30472,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i'lib/mmtbx_geometry_clash_ext.so.0.0.1' - 'lib/mmtbx_geometry_clash_ext.so'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' +Create symlinks for: 'lib/mmtbx_max_lik_ext.so.0.0.1' + 'lib/mmtbx_max_lik_ext.so.0'->'lib/mmtbx_max_lik_ext.so.0.0.1' + 'lib/mmtbx_max_lik_ext.so'->'lib/mmtbx_max_lik_ext.so.0.0.1' +g++ -o mmtbx/reduce/Optimizers.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/reduce/Optimizers.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_geometry_clash_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_clash_ext.so.0 mmtbx/geometry/boost_python/clash_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/ramachandran.h: In instantiation of ‘scitbx::af::tiny mmtbx::geometry_restraints::target_phi_psi(const scitbx::af::const_ref, scitbx::af::trivial_accessor>&, const scitbx::af::const_ref, scitbx::af::trivial_accessor>&, const phi_psi_proxy&) [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/ramachandran.h:314:35: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/ramachandran.h:269:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -30459,8 +30486,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/ramachandran.h:284:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref, scitbx::af::trivial_accessor>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 284 | for(int i=0; i::initialize(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_3; std::size_t = long unsigned int]’ @@ -30472,6 +30497,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +Create symlinks for: 'lib/mmtbx_geometry_clash_ext.so.0.0.1' + 'lib/mmtbx_geometry_clash_ext.so.0'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' + 'lib/mmtbx_geometry_clash_ext.so'->'lib/mmtbx_geometry_clash_ext.so.0.0.1' +g++ -o mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_geometry_indexing_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_indexing_ext.so.0 mmtbx/geometry/boost_python/indexing_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/format/parsing.hpp:21, from /usr/include/boost/format.hpp:50, @@ -30483,17 +30514,21 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ +Create symlinks for: 'lib/mmtbx_geometry_indexing_ext.so.0.0.1' + 'lib/mmtbx_geometry_indexing_ext.so.0'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' + 'lib/mmtbx_geometry_indexing_ext.so'->'lib/mmtbx_geometry_indexing_ext.so.0.0.1' +g++ -o mmtbx/rotamer/fit_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/rotamer/fit_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_ncs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ncs_ext.so.0 mmtbx/ncs/tncs_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/mmtbx_ncs_ext.so.0.0.1' 'lib/mmtbx_ncs_ext.so.0'->'lib/mmtbx_ncs_ext.so.0.0.1' 'lib/mmtbx_ncs_ext.so'->'lib/mmtbx_ncs_ext.so.0.0.1' g++ -o mmtbx/rsr/rsr_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/rsr/rsr_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -ar rc probe/lib/libprobelib.a mmtbx/probe/Scoring.o mmtbx/probe/DotSpheres.o mmtbx/probe/SpatialQuery.o -ranlib probe/lib/libprobelib.a g++ -o mmtbx/scaling/scaling_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/scaling/scaling_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_pair_interaction_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_pair_interaction_ext.so.0 mmtbx/pair_interaction/interaction_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +ar rc probe/lib/libprobelib.a mmtbx/probe/Scoring.o mmtbx/probe/DotSpheres.o mmtbx/probe/SpatialQuery.o +ranlib probe/lib/libprobelib.a g++ -o mmtbx/scaling/twinning_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/scaling/twinning_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/wyckoff.h:4, @@ -30507,11 +30542,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:100:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 100 | for (int i=0; i'lib/mmtbx_pair_interaction_ext.so.0.0.1' - 'lib/mmtbx_pair_interaction_ext.so'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' -g++ -o mmtbx/scaling/relative_scaling_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/scaling/relative_scaling_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_pair_interaction_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_pair_interaction_ext.so.0 mmtbx/pair_interaction/interaction_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:14: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/geometry_restraints/proxy_select.h: In instantiation of ‘scitbx::af::shared cctbx::geometry_restraints::shared_proxy_remove(const scitbx::af::const_ref&, const scitbx::af::const_ref&) [with ProxyType = mmtbx::geometry_restraints::reference_coordinate_proxy]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.cpp:80:41: required from here @@ -30529,6 +30560,11 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:47:5: required from ‘cctbx::sgtbx::tensors::constraints::constraints(const scitbx::af::const_ref&, std::size_t, bool) [with FloatType = double; tensor_t = scitbx::matrix::tensors::tensor_rank_4; std::size_t = long unsigned int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/site_symmetry.h:214:75: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/cctbx/sgtbx/tensors.h:185:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +Create symlinks for: 'lib/mmtbx_pair_interaction_ext.so.0.0.1' + 'lib/mmtbx_pair_interaction_ext.so.0'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' + 'lib/mmtbx_pair_interaction_ext.so'->'lib/mmtbx_pair_interaction_ext.so.0.0.1' +g++ -o mmtbx/scaling/relative_scaling_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/scaling/relative_scaling_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_array.hpp:23, from /usr/include/boost/shared_array.hpp:17, @@ -30549,156 +30585,60 @@ 'lib/mmtbx_rsr_ext.so'->'lib/mmtbx_rsr_ext.so.0.0.1' g++ -o mmtbx/secondary_structure/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/ccp4 -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/secondary_structure/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_geometry_asa_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_asa_ext.so.0 mmtbx/geometry/boost_python/asa_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/mmtbx_probe_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_probe_ext.so.0 mmtbx/probe/boost_python/probe_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/probe/lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/mmtbx_probe_ext.so.0.0.1' + 'lib/mmtbx_probe_ext.so.0'->'lib/mmtbx_probe_ext.so.0.0.1' + 'lib/mmtbx_probe_ext.so'->'lib/mmtbx_probe_ext.so.0.0.1' +g++ -o mmtbx/tls/decompose_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/decompose_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_reference_coordinate_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_reference_coordinate_ext.so.0 mmtbx/geometry_restraints/boost_python/reference_coordinate_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/mmtbx_reference_coordinate_ext.so.0.0.1' 'lib/mmtbx_reference_coordinate_ext.so.0'->'lib/mmtbx_reference_coordinate_ext.so.0.0.1' 'lib/mmtbx_reference_coordinate_ext.so'->'lib/mmtbx_reference_coordinate_ext.so.0.0.1' -g++ -o mmtbx/tls/decompose_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/decompose_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_geometry_asa_ext.so.0.0.1' - 'lib/mmtbx_geometry_asa_ext.so.0'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' - 'lib/mmtbx_geometry_asa_ext.so'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' g++ -o mmtbx/tls/tls_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/tls_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o mmtbx/tls/optimise_amplitudes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/optimise_amplitudes.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_rotamer_fit_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_rotamer_fit_ext.so.0 mmtbx/rotamer/fit_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/mmtbx_geometry_asa_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_geometry_asa_ext.so.0 mmtbx/geometry/boost_python/asa_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/mmtbx_rotamer_fit_ext.so.0.0.1' 'lib/mmtbx_rotamer_fit_ext.so.0'->'lib/mmtbx_rotamer_fit_ext.so.0.0.1' 'lib/mmtbx_rotamer_fit_ext.so'->'lib/mmtbx_rotamer_fit_ext.so.0.0.1' -g++ -o mmtbx/tls/optimise_amplitudes_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/optimise_amplitudes_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_probe_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_probe_ext.so.0 mmtbx/probe/boost_python/probe_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/probe/lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/mmtbx_probe_ext.so.0.0.1' - 'lib/mmtbx_probe_ext.so.0'->'lib/mmtbx_probe_ext.so.0.0.1' - 'lib/mmtbx_probe_ext.so'->'lib/mmtbx_probe_ext.so.0.0.1' -g++ -o mmtbx/tls/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/utils.cpp +g++ -o mmtbx/tls/optimise_amplitudes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/optimise_amplitudes.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o mmtbx/tls/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/utils_ext.cpp +Create symlinks for: 'lib/mmtbx_geometry_asa_ext.so.0.0.1' + 'lib/mmtbx_geometry_asa_ext.so.0'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' + 'lib/mmtbx_geometry_asa_ext.so'->'lib/mmtbx_geometry_asa_ext.so.0.0.1' +g++ -o mmtbx/tls/optimise_amplitudes_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/optimise_amplitudes_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_secondary_structure_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_secondary_structure_ext.so.0 mmtbx/secondary_structure/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -liotbx_pdb -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/mmtbx_secondary_structure_ext.so.0.0.1' 'lib/mmtbx_secondary_structure_ext.so.0'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' 'lib/mmtbx_secondary_structure_ext.so'->'lib/mmtbx_secondary_structure_ext.so.0.0.1' +g++ -o mmtbx/tls/utils.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/utils.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o mmtbx/tls/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/tls/utils_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +ar rc reduce/lib/libreduce2lib.a mmtbx/reduce/PositionReturn.o mmtbx/reduce/InteractionGraph.o mmtbx/reduce/Optimizers.o +ranlib reduce/lib/libreduce2lib.a g++ -o mmtbx/utils/utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/utils/utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_ramachandran_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_ramachandran_restraints_ext.so.0 mmtbx/geometry_restraints/boost_python/ramachandran_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o mmtbx/validation/ramachandran/rama_eval_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/validation/ramachandran/rama_eval_bpl.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' 'lib/mmtbx_ramachandran_restraints_ext.so.0'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' 'lib/mmtbx_ramachandran_restraints_ext.so'->'lib/mmtbx_ramachandran_restraints_ext.so.0.0.1' -g++ -o mmtbx/validation/ramachandran/rama_eval_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/mmtbx/validation/ramachandran/rama_eval_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -ar rc reduce/lib/libreduce2lib.a mmtbx/reduce/PositionReturn.o mmtbx/reduce/InteractionGraph.o mmtbx/reduce/Optimizers.o -ranlib reduce/lib/libreduce2lib.a g++ -o omptbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/omptbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/array_family/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/array_family/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/array_family/flex_rstbx_arrays.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/array_family/flex_rstbx_arrays.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/mmtbx_tls_decompose_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_decompose_ext.so.0 mmtbx/tls/decompose_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/mmtbx_tls_decompose_ext.so.0.0.1' 'lib/mmtbx_tls_decompose_ext.so.0'->'lib/mmtbx_tls_decompose_ext.so.0.0.1' 'lib/mmtbx_tls_decompose_ext.so'->'lib/mmtbx_tls_decompose_ext.so.0.0.1' g++ -o rstbx/bandpass/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bandpass/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/src -Irstbx/bandpass/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o rstbx/bpcx/detector_model/detector_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/detector_model_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/omptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=omptbx_ext.so.0 omptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lomptbx -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_optimise_amplitudes_ext.so.0 mmtbx/tls/optimise_amplitudes.o mmtbx/tls/optimise_amplitudes_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/omptbx_ext.so.0.0.1' - 'lib/omptbx_ext.so.0'->'lib/omptbx_ext.so.0.0.1' - 'lib/omptbx_ext.so'->'lib/omptbx_ext.so.0.0.1' -g++ -o rstbx/bpcx/detector_model/sensor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' - 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' - 'lib/mmtbx_tls_optimise_amplitudes_ext.so'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' -g++ -o rstbx/diffraction/fastbragg/fastbragg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec2.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.h:3, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.cpp:2: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o rstbx/diffraction/fastbragg/fastbragg.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/mmtbx_scaling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_scaling_ext.so.0 mmtbx/scaling/scaling_ext.o mmtbx/scaling/twinning_bpl.o mmtbx/scaling/relative_scaling_bpl.o mmtbx/scaling/outlier_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/mmtbx_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_utils_ext.so.0 mmtbx/utils/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/mmtbx_validation_ramachandran_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_validation_ramachandran_ext.so.0 mmtbx/validation/ramachandran/rama_eval_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o rstbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/mmtbx_scaling_ext.so.0.0.1' - 'lib/mmtbx_scaling_ext.so.0'->'lib/mmtbx_scaling_ext.so.0.0.1' - 'lib/mmtbx_scaling_ext.so'->'lib/mmtbx_scaling_ext.so.0.0.1' -Create symlinks for: 'lib/mmtbx_utils_ext.so.0.0.1' - 'lib/mmtbx_utils_ext.so.0'->'lib/mmtbx_utils_ext.so.0.0.1' - 'lib/mmtbx_utils_ext.so'->'lib/mmtbx_utils_ext.so.0.0.1' -Create symlinks for: 'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' - 'lib/mmtbx_validation_ramachandran_ext.so.0'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' - 'lib/mmtbx_validation_ramachandran_ext.so'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' -g++ -o rstbx/indexing_api/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/indexing_api/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/src -Irstbx/indexing_api/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:10: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/parameters.h: In constructor ‘rstbx::bandpass::active_area_filter::active_area_filter(scitbx::af::shared)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/parameters.h:100:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -30792,6 +30732,95 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:933:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 933 | for (int idx = 0; idx < indices.size(); ++idx){ | ~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp: In instantiation of ‘void rstbx::bandpass::use_case_bp3::enclosed_pixels_and_margin_pixels_detail() [with pixel_accept_policy = resolution_limited_pixel_accept_policy]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:616:87: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:631:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 631 | for (int idx = 0; idx < spot_rectangle_vertices.size(); idx+=5){ + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp: In instantiation of ‘void rstbx::bandpass::use_case_bp3::enclosed_pixels_and_margin_pixels_detail() [with pixel_accept_policy = unlimited_pixel_accept_policy]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:620:78: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:631:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] +g++ -o lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_optimise_amplitudes_ext.so.0 mmtbx/tls/optimise_amplitudes.o mmtbx/tls/optimise_amplitudes_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/omptbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=omptbx_ext.so.0 omptbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lomptbx -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/omptbx_ext.so.0.0.1' + 'lib/omptbx_ext.so.0'->'lib/omptbx_ext.so.0.0.1' + 'lib/omptbx_ext.so'->'lib/omptbx_ext.so.0.0.1' +Create symlinks for: 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' + 'lib/mmtbx_tls_optimise_amplitudes_ext.so.0'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' + 'lib/mmtbx_tls_optimise_amplitudes_ext.so'->'lib/mmtbx_tls_optimise_amplitudes_ext.so.0.0.1' +g++ -o rstbx/bpcx/detector_model/detector_model_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/detector_model_ext.cpp +g++ -o rstbx/bpcx/detector_model/sensor.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/bpcx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/src -Irstbx/bpcx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec2.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.h:3, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bpcx/detector_model/sensor.cpp:2: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o rstbx/diffraction/fastbragg/fastbragg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o rstbx/diffraction/fastbragg/fastbragg.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/diffraction/fastbragg/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/src -Irstbx/diffraction/fastbragg/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_validation_ramachandran_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_validation_ramachandran_ext.so.0 mmtbx/validation/ramachandran/rama_eval_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -30844,11 +30873,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp: In instantiation of ‘void rstbx::bandpass::use_case_bp3::enclosed_pixels_and_margin_pixels_detail() [with pixel_accept_policy = resolution_limited_pixel_accept_policy]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:616:87: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:631:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 631 | for (int idx = 0; idx < spot_rectangle_vertices.size(); idx+=5){ - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -30856,9 +30880,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp: In instantiation of ‘void rstbx::bandpass::use_case_bp3::enclosed_pixels_and_margin_pixels_detail() [with pixel_accept_policy = unlimited_pixel_accept_policy]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:620:78: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:631:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ @@ -30878,7 +30899,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o rstbx/apps/integration_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/apps/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/src -Irstbx/apps/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/integration_ext.cpp +Create symlinks for: 'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' + 'lib/mmtbx_validation_ramachandran_ext.so.0'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' + 'lib/mmtbx_validation_ramachandran_ext.so'->'lib/mmtbx_validation_ramachandran_ext.so.0.0.1' +g++ -o rstbx/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/src -Irstbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::versa > rstbx::diffraction::fastbragg::detector::intdata()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:89:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -30904,6 +30928,29 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/memory:69, + from /usr/include/boost/config/no_tr1/memory.hpp:21, + from /usr/include/boost/get_pointer.hpp:14, + from /usr/include/boost/python/object/pointer_holder.hpp:11, + from /usr/include/boost/python/to_python_indirect.hpp:10, + from /usr/include/boost/python/converter/arg_to_python.hpp:10, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object.hpp:9, + from /usr/include/boost/python/scope.hpp:9, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:4: +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ +g++ -o rstbx/indexing_api/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/indexing_api/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/src -Irstbx/indexing_api/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/indexing_api/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:10: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In member function ‘scitbx::af::versa > rstbx::diffraction::fastbragg::detector::intdata()’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:89:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::versa_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -30933,7 +30980,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:305:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 305 | for(int i_lambda=0; i_lambda < lambdas.size(); ++i_lambda){ | ~~~~~~~~~^~~~~~~~~~~~~~~~ -g++ -o rstbx/simage/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/simage/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/src -Irstbx/simage/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp +g++ -o rstbx/apps/integration_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/apps/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/src -Irstbx/apps/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/integration_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In instantiation of ‘scitbx::af::shared rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector_get_indices(const bool&) [with IndexType = scitbx::vec3; MillerConversionPolicy = rstbx::diffraction::fastbragg::vec3_double_miller_index_policy]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:134:11: required from here @@ -30943,118 +30990,24 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h: In instantiation of ‘scitbx::af::shared rstbx::diffraction::fastbragg::fast_bragg_simulation::sweep_over_detector_get_indices(const bool&) [with IndexType = cctbx::miller::index<>; MillerConversionPolicy = rstbx::diffraction::fastbragg::integer_miller_index_policy]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg_ext.cpp:138:11: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/diffraction/fastbragg/fastbragg.h:456:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] +g++ -o lib/mmtbx_scaling_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_scaling_ext.so.0 mmtbx/scaling/scaling_ext.o mmtbx/scaling/twinning_bpl.o mmtbx/scaling/relative_scaling_bpl.o mmtbx/scaling/outlier_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/mmtbx_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_utils_ext.so.0 mmtbx/utils/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/mmtbx_utils_ext.so.0.0.1' + 'lib/mmtbx_utils_ext.so.0'->'lib/mmtbx_utils_ext.so.0.0.1' + 'lib/mmtbx_utils_ext.so'->'lib/mmtbx_utils_ext.so.0.0.1' +Create symlinks for: 'lib/mmtbx_scaling_ext.so.0.0.1' + 'lib/mmtbx_scaling_ext.so.0'->'lib/mmtbx_scaling_ext.so.0.0.1' + 'lib/mmtbx_scaling_ext.so'->'lib/mmtbx_scaling_ext.so.0.0.1' +g++ -o rstbx/simage/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/simage/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/src -Irstbx/simage/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o rstbx/simulation/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/simulation/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/src -Irstbx/simulation/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_bpcx_detector_model_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bpcx_detector_model_ext.so.0 rstbx/bpcx/detector_model/detector_model_ext.o rstbx/bpcx/detector_model/sensor.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' 'lib/rstbx_bpcx_detector_model_ext.so.0'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' 'lib/rstbx_bpcx_detector_model_ext.so'->'lib/rstbx_bpcx_detector_model_ext.so.0.0.1' -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/memory:69, - from /usr/include/boost/config/no_tr1/memory.hpp:21, - from /usr/include/boost/get_pointer.hpp:14, - from /usr/include/boost/python/object/pointer_holder.hpp:11, - from /usr/include/boost/python/to_python_indirect.hpp:10, - from /usr/include/boost/python/converter/arg_to_python.hpp:10, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object.hpp:9, - from /usr/include/boost/python/scope.hpp:9, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/bandpass/ext.cpp:4: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ g++ -o rstbx/symmetry/constraints/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -Irstbx/symmetry/constraints/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/symmetry/constraints/src -Irstbx/symmetry/constraints/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/symmetry/constraints/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/symmetry/constraints/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/libdistl.h:81, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/distl.h:14, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:9, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/integration_ext.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/detectors/scanbox.h: In member function ‘Distl::interval_list Distl::scanbox_tiling_explicit::generate_defined_x_tiles(const int&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/detectors/scanbox.h:268:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 268 | for (int tile = 0 ; tile < tile_count; ++tile){ - | ~~~~~^~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h: In member function ‘void rstbx::integration::simple_integration::append_ISmask(scitbx::af::shared)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:222:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 222 | for (int i=0; i < mask.size(); i+=2){ - | ~~^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h: In member function ‘void rstbx::integration::simple_integration::positional_correction_mapping(scitbx::af::shared >, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:273:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 273 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 287 | for (int p=0; p >, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:310:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 310 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 320 | for (int p=0; p > rstbx::integration::simple_integration::safe_background(const scitbx::af::flex_int&, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:366:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 366 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 378 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 395 | for (int i=0; i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 495 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 550 | for (int i=0; i >, scitbx::af::shared >, scitbx::af::shared >)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:575:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 575 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 631 | for (int k=0; k::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 638 | for (int k=0; k >&, const scitbx::af::const_ref&, const scitbx::mat3&, double, double, int, double, scitbx::vec2, scitbx::vec2, unsigned int, double)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:144:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] - 144 | for(int i=0;i<=point_spread;i++) { - | ~^~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:148:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] - 148 | for(int j=0;j<=point_spread;j++) { - | ~^~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:10: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp: In function ‘std::string rstbx::simage::ext::combine_rgb_images(const boost::python::list&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp:58:42: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 58 | TBXX_ASSERT(bp::len(rgb_images[j]) == img_size); - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/tbxx/error_utils.hpp:59:9: note: in definition of macro ‘TBXX_ASSERT’ - 59 | if (!(condition)) { \ - | ^~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/ext.cpp:11: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::shared rstbx::xfel1::select_proximal_indices(const int&, const double&, const double&, const cctbx::crystal_orientation&, const double&, const double&, const double&, const double&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h:113:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 113 | for (int x = 0; x < indices_all.size(); ++x){ - | ~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::versa > rstbx::xfel1::raw_diffraction(scitbx::af::shared, scitbx::af::versa >, const size_t&, const double&, const double&, const double&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] - 178 | for (int mcount=0; mcount::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 230 | for (int isel = 0; isel < selected.size(); ++isel){ - | ~~~~~^~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h:231:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 231 | for (int imos = 0; imos < mosaic_perturbations.size(); ++imos){ - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/real_to_complex.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/directional_fft.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/dps_core/dps_core.h:11, @@ -31121,10 +31074,105 @@ 135 | for (int i = 0; i < gradients.size(); ++i){ | ~~^~~~~~~~~~~~~~~~~~ g++ -o lib/mmtbx_reduce_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_reduce_ext.so.0 mmtbx/reduce/boost_python/reduce_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Lreduce/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/reduce/lib -Lprobe/lib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/probe/lib -lreduce2lib -lprobelib -liotbx_pdb -lcctbx -lscitbx_boost_python -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/libdistl.h:81, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/distl.h:14, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:9, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/integration_ext.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/detectors/scanbox.h: In member function ‘Distl::interval_list Distl::scanbox_tiling_explicit::generate_defined_x_tiles(const int&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/iotbx/detectors/scanbox.h:268:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 268 | for (int tile = 0 ; tile < tile_count; ++tile){ + | ~~~~~^~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h: In member function ‘void rstbx::integration::simple_integration::append_ISmask(scitbx::af::shared)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:222:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 222 | for (int i=0; i < mask.size(); i+=2){ + | ~~^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h: In member function ‘void rstbx::integration::simple_integration::positional_correction_mapping(scitbx::af::shared >, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:273:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 273 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 287 | for (int p=0; p >, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:310:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 310 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 320 | for (int p=0; p > rstbx::integration::simple_integration::safe_background(const scitbx::af::flex_int&, scitbx::af::shared >, const annlib_adaptbx::AnnAdaptor&, scitbx::af::shared)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:366:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 366 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 378 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 395 | for (int i=0; i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 495 | for (int isort=0; isort >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 550 | for (int i=0; i >, scitbx::af::shared >, scitbx::af::shared >)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/apps/stills/simple_integration.h:575:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 575 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 631 | for (int k=0; k::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 638 | for (int k=0; k'lib/mmtbx_reduce_ext.so.0.0.1' 'lib/mmtbx_reduce_ext.so'->'lib/mmtbx_reduce_ext.so.0.0.1' +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/ext.cpp:11: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::shared rstbx::xfel1::select_proximal_indices(const int&, const double&, const double&, const cctbx::crystal_orientation&, const double&, const double&, const double&, const double&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h:113:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 113 | for (int x = 0; x < indices_all.size(); ++x){ + | ~~^~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/array_family/boost_python/flex_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h: In member function ‘scitbx::af::versa > rstbx::xfel1::raw_diffraction(scitbx::af::shared, scitbx::af::versa >, const size_t&, const double&, const double&, const double&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] + 178 | for (int mcount=0; mcount::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 230 | for (int isel = 0; isel < selected.size(); ++isel){ + | ~~~~~^~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simulation/sim_xfel1.h:231:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::shared_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 231 | for (int imos = 0; imos < mosaic_perturbations.size(); ++imos){ + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp:2: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp: In member function ‘rstbx::simage::image_simple& rstbx::simage::image_simple::compute(const cctbx::uctbx::unit_cell&, const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const scitbx::mat3&, double, double, int, double, scitbx::vec2, scitbx::vec2, unsigned int, double)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:144:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] + 144 | for(int i=0;i<=point_spread;i++) { + | ~^~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:148:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] + 148 | for(int j=0;j<=point_spread;j++) { + | ~^~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/image_simple.hpp:10: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp: In function ‘std::string rstbx::simage::ext::combine_rgb_images(const boost::python::list&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/rstbx/simage/ext.cpp:58:42: warning: comparison of integer expressions of different signedness: ‘boost::python::ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 58 | TBXX_ASSERT(bp::len(rgb_images[j]) == img_size); + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/tbxx/error_utils.hpp:59:9: note: in definition of macro ‘TBXX_ASSERT’ + 59 | if (!(condition)) { \ + | ^~~~~~~~~ +g++ -o lib/rstbx_bandpass_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bandpass_ext.so.0 rstbx/bandpass/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lann_adaptor -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/rstbx_bandpass_ext.so.0.0.1' + 'lib/rstbx_bandpass_ext.so.0'->'lib/rstbx_bandpass_ext.so.0.0.1' + 'lib/rstbx_bandpass_ext.so'->'lib/rstbx_bandpass_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_grid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_grid.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/mmtbx_tls_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_ext.so.0 mmtbx/tls/tls_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/mmtbx_tls_ext.so.0.0.1' + 'lib/mmtbx_tls_ext.so.0'->'lib/mmtbx_tls_ext.so.0.0.1' + 'lib/mmtbx_tls_ext.so'->'lib/mmtbx_tls_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_bool.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, @@ -31141,46 +31189,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = cctbx::crystal_orientation]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 175 | resize(new_size, ElementType()); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const cctbx::crystal_orientation&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = cctbx::crystal_orientation]’ declared here - 165 | void resize(size_type const& new_size, ElementType const& x) { - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here - 175 | resize(new_size, ElementType()); - | ^~~~~~~~~~~~~ -g++ -o lib/mmtbx_tls_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_ext.so.0 mmtbx/tls/tls_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/mmtbx_tls_ext.so.0.0.1' - 'lib/mmtbx_tls_ext.so.0'->'lib/mmtbx_tls_ext.so.0.0.1' - 'lib/mmtbx_tls_ext.so'->'lib/mmtbx_tls_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_grid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_grid.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/rstbx_diffraction_fastbragg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_diffraction_fastbragg_ext.so.0 rstbx/diffraction/fastbragg/fastbragg_ext.o rstbx/diffraction/fastbragg/fastbragg.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' - 'lib/rstbx_diffraction_fastbragg_ext.so.0'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' - 'lib/rstbx_diffraction_fastbragg_ext.so'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_bool.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/rstbx_bandpass_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_bandpass_ext.so.0 rstbx/bandpass/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lann_adaptor -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/rstbx_simage_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simage_ext.so.0 rstbx/simage/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/rstbx_simulation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simulation_ext.so.0 rstbx/simulation/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/rstbx_simage_ext.so.0.0.1' - 'lib/rstbx_simage_ext.so.0'->'lib/rstbx_simage_ext.so.0.0.1' - 'lib/rstbx_simage_ext.so'->'lib/rstbx_simage_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_size_t.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp -Create symlinks for: 'lib/rstbx_bandpass_ext.so.0.0.1' - 'lib/rstbx_bandpass_ext.so.0'->'lib/rstbx_bandpass_ext.so.0.0.1' - 'lib/rstbx_bandpass_ext.so'->'lib/rstbx_bandpass_ext.so.0.0.1' -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/boost_python/flex_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/rstbx_simulation_ext.so.0.0.1' - 'lib/rstbx_simulation_ext.so.0'->'lib/rstbx_simulation_ext.so.0.0.1' - 'lib/rstbx_simulation_ext.so'->'lib/rstbx_simulation_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_float.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp: In member function ‘const char* scitbx::af::boost_python::cost_of_m_handle_in_af_shared::operator()(unsigned int, unsigned int)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:367:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 367 | for(int n=0; n < n_repeats; ++n) { @@ -31191,7 +31199,16 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:383:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 383 | for(int n=0; n < n_repeats; ++n) { | ~~^~~~~~~~~~~ -g++ -o lib/rstbx_symmetry_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_symmetry_constraints_ext.so.0 rstbx/symmetry/constraints/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = cctbx::crystal_orientation]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:15: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 175 | resize(new_size, ElementType()); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const cctbx::crystal_orientation&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = cctbx::crystal_orientation]’ declared here + 165 | void resize(size_type const& new_size, ElementType const& x) { + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here + 175 | resize(new_size, ElementType()); + | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, @@ -31210,11 +31227,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/selections.h:156:7: note: in expansion of macro ‘SCITBX_ASSERT’ 156 | SCITBX_ASSERT(iselection[i] < selectee_size); | ^~~~~~~~~~~~~ -Create symlinks for: 'lib/rstbx_symmetry_constraints_ext.so.0.0.1' - 'lib/rstbx_symmetry_constraints_ext.so.0'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' - 'lib/rstbx_symmetry_constraints_ext.so'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/assert.hpp:58, from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, from /usr/include/boost/shared_ptr.hpp:17, @@ -31617,17 +31629,17 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:290:7: required from ‘scitbx::boost_python::container_conversions::tuple_mapping_fixed_capacity::tuple_mapping_fixed_capacity() [with ContainerType = scitbx::af::small, 8>]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_ext.cpp:159:59: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -g++ -o lib/rstbx_indexing_api_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_indexing_api_ext.so.0 rstbx/indexing_api/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/rstbx_indexing_api_ext.so.0.0.1' - 'lib/rstbx_indexing_api_ext.so.0'->'lib/rstbx_indexing_api_ext.so.0.0.1' - 'lib/rstbx_indexing_api_ext.so'->'lib/rstbx_indexing_api_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_double_matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp +g++ -o lib/rstbx_diffraction_fastbragg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_diffraction_fastbragg_ext.so.0 rstbx/diffraction/fastbragg/fastbragg_ext.o rstbx/diffraction/fastbragg/fastbragg.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' + 'lib/rstbx_diffraction_fastbragg_ext.so.0'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' + 'lib/rstbx_diffraction_fastbragg_ext.so'->'lib/rstbx_diffraction_fastbragg_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_size_t.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/rstbx_integration_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_integration_ext.so.0 rstbx/apps/integration_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lann_adaptor -lspotfinder -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/rstbx_integration_ext.so.0.0.1' - 'lib/rstbx_integration_ext.so.0'->'lib/rstbx_integration_ext.so.0.0.1' - 'lib/rstbx_integration_ext.so'->'lib/rstbx_integration_ext.so.0.0.1' -g++ -o scitbx/array_family/boost_python/flex_complex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp +g++ -o lib/rstbx_symmetry_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_symmetry_constraints_ext.so.0 rstbx/symmetry/constraints/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/rstbx_symmetry_constraints_ext.so.0.0.1' + 'lib/rstbx_symmetry_constraints_ext.so.0'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' + 'lib/rstbx_symmetry_constraints_ext.so'->'lib/rstbx_symmetry_constraints_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, @@ -31644,21 +31656,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ +g++ -o lib/rstbx_simulation_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simulation_ext.so.0 rstbx/simulation/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = bool]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:429:8: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = bool]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] @@ -31689,6 +31687,12 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ +Create symlinks for: 'lib/rstbx_simulation_ext.so.0.0.1' + 'lib/rstbx_simulation_ext.so.0'->'lib/rstbx_simulation_ext.so.0.0.1' + 'lib/rstbx_simulation_ext.so'->'lib/rstbx_simulation_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_float.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/rstbx_indexing_api_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_indexing_api_ext.so.0 rstbx/indexing_api/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -31712,26 +31716,53 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = bool]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = bool]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i'lib/rstbx_indexing_api_ext.so.0.0.1' + 'lib/rstbx_indexing_api_ext.so'->'lib/rstbx_indexing_api_ext.so.0.0.1' +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = bool]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = bool]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +g++ -o scitbx/array_family/boost_python/flex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/rstbx_simage_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_simage_ext.so.0 rstbx/simage/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/rstbx_simage_ext.so.0.0.1' + 'lib/rstbx_simage_ext.so.0'->'lib/rstbx_simage_ext.so.0.0.1' + 'lib/rstbx_simage_ext.so'->'lib/rstbx_simage_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_double_matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/rstbx_integration_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_integration_ext.so.0 rstbx/apps/integration_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lann-cctbx -lann_adaptor -lspotfinder -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/rstbx_integration_ext.so.0.0.1' + 'lib/rstbx_integration_ext.so.0'->'lib/rstbx_integration_ext.so.0.0.1' + 'lib/rstbx_integration_ext.so'->'lib/rstbx_integration_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_complex_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:1: + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); @@ -31782,23 +31813,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = bool]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = bool]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long unsigned int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -31833,14 +31847,6 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = bool]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = bool]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = bool; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_bool.cpp:367:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = unsigned char]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -31868,21 +31874,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = short unsigned int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ @@ -31916,40 +31907,235 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/bits/stl_function.h:1438, - from /usr/include/c++/13/functional:49, - from /usr/include/boost/config/no_tr1/functional.hpp:21, - from /usr/include/boost/function/detail/prologue.hpp:15, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ +In file included from /usr/include/c++/13/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ +g++ -o scitbx/array_family/boost_python/flex_std_string.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned char]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = unsigned char]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = short unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = short unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i::type* scitbx::af::{anonymous}::from_list_or_tuple_of_lists_or_tuples(PyObject*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:138:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 138 | if (PyList_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:154:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 154 | if (PyTuple_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:190:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 190 | if (PyList_GET_SIZE(row) != n_columns) { + | ^ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i >&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:452:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 452 | for (int i=1; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 454 | if (i != indices.size() - 1) o << ","; + | ~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] @@ -31960,6 +32146,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref&) [with FloatType = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:365:26: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 25 | for (int i=0; i scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = long int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] @@ -31990,48 +32182,75 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); | ^~~~~~~~~~~~~ -In file included from /usr/include/c++/13/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp: In function ‘scitbx::af::flex::type* scitbx::af::{anonymous}::from_list_or_tuple_of_lists_or_tuples(PyObject*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:138:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 138 | if (PyList_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:154:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 154 | if (PyTuple_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:190:38: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 190 | if (PyList_GET_SIZE(row) != n_columns) { - | ^ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:206:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘long int’} and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 206 | if (PyTuple_GET_SIZE(row) != n_columns) { - | ^ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:536:8: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ + 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); + | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned char]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned char]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/bits/stl_function.h:1438, + from /usr/include/c++/13/functional:49, + from /usr/include/boost/config/no_tr1/functional.hpp:21, + from /usr/include/boost/function/detail/prologue.hpp:15, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:4: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref >&) [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:119:74: required from here @@ -32041,36 +32260,16 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:16:51: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 16 | for (int i=0; i > scitbx::af::copy_slice(const const_ref >&, small) [with T = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:452:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::small_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 452 | for (int i=1; i >&, small, const const_ref >&) [with T = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 454 | if (i != indices.size() - 1) o << ","; - | ~~^~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_inf(const scitbx::af::const_ref >&) [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double_matrix.cpp:177:11: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:32:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -32084,23 +32283,16 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:46:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | for (int k=0; k < a_ij.size(); ++k) norm_accu(a_ij[k]); | ~~^~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h: In instantiation of ‘FloatType scitbx::matrix::norm_1(const scitbx::af::const_ref&) [with FloatType = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:365:26: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/norms.h:25:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 25 | for (int i=0; i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = float]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -32126,56 +32318,80 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = int]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +In file included from /usr/include/c++/13/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] + 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); + | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/bits/stl_function.h:1438, + from /usr/include/c++/13/functional:49, + from /usr/include/boost/config/no_tr1/functional.hpp:21, + from /usr/include/boost/function/detail/prologue.hpp:15, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/13/backward/binders.h:172:5: note: declared here + 172 | bind2nd(const _Operation& __fn, const _Tp& __x) + | ^~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = float]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -In file included from /usr/include/c++/13/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h: In instantiation of ‘scitbx::af::shared scitbx::af::boost_python::shared_from_byte_str(const boost::python::api::object&) [with ElementType = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:536:8: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:59: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘boost::python::ssize_t’ {aka ‘long int’} [-Wsign-compare] - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/byte_str.h:81:5: note: in expansion of macro ‘SCITBX_ASSERT’ - 81 | SCITBX_ASSERT(shared_array_size * sizeof(ElementType) == len_byte_str); - | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = long int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -32198,6 +32414,29 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = signed char]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -32220,22 +32459,17 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = double]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = double]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = short int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -32258,117 +32492,6 @@ /usr/include/c++/13/backward/binders.h:172:5: note: declared here 172 | bind2nd(const _Operation& __fn, const _Tp& __x) | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:963:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:616:41: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 616 | return first_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/bits/stl_function.h:1438, - from /usr/include/c++/13/functional:49, - from /usr/include/boost/config/no_tr1/functional.hpp:21, - from /usr/include/boost/function/detail/prologue.hpp:15, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::last_index_a_s(const f_t&, e_t) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >; e_t = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:964:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:621:40: warning: ‘std::binder2nd<_Operation> std::bind2nd(const _Operation&, const _Tp&) [with _Operation = equal_to; _Tp = double]’ is deprecated: use 'std::bind' instead [-Wdeprecated-declarations] - 621 | return last_index(a, std::bind2nd(std::equal_to(), x)); - | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ -/usr/include/c++/13/backward/binders.h:172:5: note: declared here - 172 | bind2nd(const _Operation& __fn, const _Tp& __x) - | ^~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned char]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = unsigned char]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = short unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = short unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (int i=0;i >&, small, const const_ref >&) [with T = unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = long unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:140:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = float]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = float]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = float; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_float.cpp:12:33: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned char]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned char]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:141:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = double]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = double]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1020:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric(const std::string&, const boost::python::api::object&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_double.cpp:477:42: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:142:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -32556,16 +32604,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:320:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = unsigned int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = unsigned int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_size_t.cpp:143:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = signed char; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -32602,21 +32640,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -32714,7 +32737,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ @@ -32727,6 +32749,22 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:319:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; +g++ -o lib/mmtbx_tls_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=mmtbx_tls_utils_ext.so.0 mmtbx/tls/utils.o mmtbx/tls/utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_tls -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = long int]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = long int]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = long int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ @@ -32752,6 +32790,19 @@ Create symlinks for: 'lib/mmtbx_tls_utils_ext.so.0.0.1' 'lib/mmtbx_tls_utils_ext.so.0'->'lib/mmtbx_tls_utils_ext.so.0.0.1' 'lib/mmtbx_tls_utils_ext.so'->'lib/mmtbx_tls_utils_ext.so.0.0.1' +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short int]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short int]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] +g++ -o scitbx/array_family/boost_python/flex_random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_random.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -32777,8 +32828,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -g++ -o scitbx/array_family/boost_python/flex_std_string.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = std::complex]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -32798,28 +32847,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = std::complex]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = std::complex]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = short int]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = short int]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:966:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_no_pow(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1031:28: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:1048:21: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::signed_integer(const std::string&, const boost::python::api::object&) [with ElementType = short int; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_ >, scitbx::af::boost_python::flex_wrapper, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_int.cpp:322:3: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] -g++ -o scitbx/array_family/boost_python/flex_random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_random.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:3: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h: In function ‘scitbx::af::shared > scitbx::misc::split_lines(const char*, std::size_t, bool, bool)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -32837,6 +32864,15 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/misc/split_lines.h:46:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 46 | if (j < size) { | ~~^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = std::complex]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = std::complex]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:910:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::numeric_common(const std::string&, const boost::python::api::object&) [with ElementType = std::complex; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_complex_double.cpp:117:24: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h: In instantiation of ‘static boost::optional scitbx::af::boost_python::flex_wrapper::first_index_a_s(const f_t&, e_t) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >; e_t = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:885:12: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ @@ -32897,6 +32933,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:888:19: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::ordered(const std::string&, const boost::python::api::object&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +g++ -o lib/rstbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_ext.so.0 rstbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = std::__cxx11::basic_string; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -32925,18 +32962,17 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_std_string.cpp:132:16: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -g++ -o lib/rstbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_ext.so.0 rstbx/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/rstbx_ext.so.0.0.1' 'lib/rstbx_ext.so.0'->'lib/rstbx_ext.so.0.0.1' 'lib/rstbx_ext.so'->'lib/rstbx_ext.so.0.0.1' g++ -o scitbx/array_family/boost_python/flex_sort.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sort.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/rstbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=rstbx_array_family_flex_ext.so.0 rstbx/array_family/ext.o rstbx/array_family/flex_rstbx_arrays.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lrstbx -lann-cctbx -lcctbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o scitbx/array_family/boost_python/flex_histogram.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_histogram.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/rstbx_array_family_flex_ext.so.0.0.1' 'lib/rstbx_array_family_flex_ext.so.0'->'lib/rstbx_array_family_flex_ext.so.0.0.1' 'lib/rstbx_array_family_flex_ext.so'->'lib/rstbx_array_family_flex_ext.so.0.0.1' +g++ -o scitbx/array_family/boost_python/flex_histogram.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_histogram.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_weighted_histogram.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_weighted_histogram.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_mean_and_variance.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mean_and_variance.cpp @@ -32947,8 +32983,6 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/flex_vec3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/boost_python/flex_vec2_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:2: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/basic_statistics.h: In instantiation of ‘scitbx::math::median_statistics scitbx::math::median_functor::dispersion(const scitbx::af::ref&) [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_median.cpp:31:26: required from ‘static scitbx::math::median_statistics scitbx::af::boost_python::median_functor_wrapper::dispersion(wt&, const scitbx::af::const_ref&) [with FloatType = double; wt = scitbx::math::median_functor]’ @@ -32957,13 +32991,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/basic_statistics.h:210:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 210 | for (int i=0; i < data.size(); ++i) { | ~~^~~~~~~~~~~~~ -g++ -o scitbx/array_family/boost_python/flex_vec3_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/boost_python/flex_sym_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/boost_python/flex_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp +g++ -o scitbx/array_family/boost_python/flex_vec2_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/boost_python/flex_tiny_size_t_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, @@ -32979,27 +33008,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp: In function ‘scitbx::af::flex >::type* scitbx::af::{anonymous}::array_indices_as_double_from_array_focus_dimensions(const scitbx::vec2&)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:128:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] - 128 | for(std::size_t i=0;i::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +g++ -o scitbx/array_family/boost_python/flex_vec3_int.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +g++ -o scitbx/array_family/boost_python/flex_sym_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/flex_mat3_double.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp: In function ‘scitbx::af::flex >::type* scitbx::af::{anonymous}::array_indices_as_double_from_array_focus_dimensions(const scitbx::vec2&)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:128:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] + 128 | for(std::size_t i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec2]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy]’ @@ -33080,14 +33122,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_double.cpp:567:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec2]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec2]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec2; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ @@ -33096,6 +33130,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec2_double.cpp:440:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; +g++ -o scitbx/array_family/boost_python/flex_tiny_size_t_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/loops.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/loops.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, @@ -33113,6 +33149,119 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); | ^~~~~~~~~~~~~ +g++ -o scitbx/array_family/boost_python/show_sizes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/show_sizes.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /usr/include/c++/13/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ + 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ + | ^~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ + 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); + | ^~~~~~~~~~~~~ +In file included from /usr/include/c++/13/cassert:44, + from /usr/include/boost/move/detail/type_traits.hpp:33, + from /usr/include/boost/move/traits.hpp:31, + from /usr/include/boost/move/utility.hpp:30, + from /usr/include/boost/optional/optional.hpp:59, + from /usr/include/boost/optional.hpp:15, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::mat3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::mat3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::mat3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::mat3]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] + 70 | if (idx_a[j] < slices[j].stop) break; In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, @@ -33168,29 +33317,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | for (int i=0;i::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘void scitbx::af::detail::copy_to_slice_detail(scitbx::af::versa >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::sym_mat3]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::sym_mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ @@ -33199,31 +33325,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_sym_mat3_double.cpp:124:15: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::vec3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::vec3]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::vec3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_vec3_int.cpp:117:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -33275,23 +33376,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_tiny_size_t_2.cpp:32:47: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | if (idx_a[j] < slices[j].stop) break; -g++ -o scitbx/array_family/boost_python/show_sizes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/show_sizes.cpp +g++ -o scitbx/array_family/boost_python/numpy_bridge.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DSCITBX_HAVE_NUMPY_INCLUDE -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/numpy/core/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/boost_python/shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h: In member function ‘void scitbx::af::boost_python::detail::getstate_manager::advance(char*)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:43: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ - 166 | if (!(assertion)) throw error_class(__FILE__, __LINE__, \ - | ^~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_pickle_single_buffered.h:43:9: note: in expansion of macro ‘SCITBX_ASSERT’ - 43 | SCITBX_ASSERT(str_end - str_begin <= str_capacity); - | ^~~~~~~~~~~~~ In file included from /usr/include/c++/13/cassert:44, from /usr/include/boost/move/detail/type_traits.hpp:33, from /usr/include/boost/move/traits.hpp:31, @@ -33300,52 +33388,51 @@ from /usr/include/boost/optional.hpp:15, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared_plain >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:769:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:3: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::vector; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:40:53: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 197 | if (!is_range) assert(i == obj_size); | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:773:52: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::vector; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:41:51: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::set; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:42:50: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:48:37: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:49:40: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:50:40: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:51:40: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:18: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h: In instantiation of ‘scitbx::af::versa > scitbx::af::copy_slice(const const_ref >&, small) [with T = scitbx::mat3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:202:29: required from ‘static scitbx::af::versa > scitbx::af::boost_python::flex_wrapper::getitem_nd_slice(const scitbx::af::const_ref >&, const scitbx::af::small&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:228:54: required from ‘static boost::python::api::object scitbx::af::boost_python::flex_wrapper::getitem_tuple(boost::python::api::object&, boost::python::api::object) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:806:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:89:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 89 | for (int i=0;i >&, small, const const_ref >&) [with T = scitbx::mat3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:114:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 114 | for (int i=0;i >&, scitbx::af::small, const scitbx::af::const_ref >&) [with T = scitbx::mat3]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:119:35: required from ‘void scitbx::af::copy_to_slice(versa >&, small, const const_ref >&) [with T = scitbx::mat3]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:269:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_nd_slice(f_t&, const scitbx::af::small&, const f_t&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; f_t = scitbx::af::versa, scitbx::af::flex_grid<> >]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:289:25: required from ‘static void scitbx::af::boost_python::flex_wrapper::setitem_tuple(boost::python::api::object&, boost::python::api::object, boost::python::api::object&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:810:13: required from ‘static scitbx::af::boost_python::flex_wrapper::class_f_t scitbx::af::boost_python::flex_wrapper::plain(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; class_f_t = boost::python::class_, scitbx::af::flex_grid<> >, scitbx::af::boost_python::flex_wrapper >, boost::python::detail::not_specified, boost::python::detail::not_specified>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_mat3_double.cpp:180:15: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/slice.h:70:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 70 | if (idx_a[j] < slices[j].stop) break; -g++ -o scitbx/array_family/boost_python/numpy_bridge.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -DSCITBX_HAVE_NUMPY_INCLUDE -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/usr/lib/python3/dist-packages/numpy/core/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -33362,17 +33449,16 @@ from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::af::tiny*; _Size = long unsigned int; _Tp = scitbx::af::tiny]’ declared here +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ -g++ -o scitbx/array_family/boost_python/shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::sym_mat3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -33389,30 +33475,20 @@ from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::sym_mat3*; _Size = long unsigned int; _Tp = scitbx::sym_mat3]’ declared here +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/cubicle_neighbors_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicle_neighbors_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::af::tiny; AccessorType = scitbx::af::flex_grid<>]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::af::tiny]’ declared here - 165 | void resize(size_type const& new_size, ElementType const& x) { - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ^~~~~~~~~~~~~ +g++ -o scitbx/fftpack/boost_python/fftpack_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::mat3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -33429,23 +33505,12 @@ from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::mat3*; _Size = long unsigned int; _Tp = scitbx::mat3]’ declared here 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::sym_mat3; AccessorType = scitbx::af::flex_grid<>]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::sym_mat3]’ declared here - 165 | void resize(size_type const& new_size, ElementType const& x) { - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here - 168 | base_class::resize(m_accessor.size_1d(), ElementType()); - | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); @@ -33457,32 +33522,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec2]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /usr/include/c++/13/memory:69, - from /usr/include/boost/function/function_base.hpp:33, - from /usr/include/boost/function/detail/prologue.hpp:18, - from /usr/include/boost/function/function_template.hpp:13, - from /usr/include/boost/function/detail/maybe_include.hpp:15, - from /usr/include/boost/function/function0.hpp:11, - from /usr/include/boost/python/errors.hpp:13, - from /usr/include/boost/python/handle.hpp:11, - from /usr/include/boost/python/to_python_value.hpp:14, - from /usr/include/boost/python/default_call_policies.hpp:10, - from /usr/include/boost/python/make_function.hpp:10, - from /usr/include/boost/python/def.hpp:11, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec2*; _Size = long unsigned int; _Tp = scitbx::vec2]’ declared here - 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) - | ^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here - 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); - | ^~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp: In instantiation of ‘boost::python::api::object scitbx::af::boost_python::ref_flex_as_numpy_array(const scitbx::af::ref >&, bool, int) [with ElementType = bool]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:202:3: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/numpy_bridge.cpp:86:23: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] @@ -33766,7 +33805,7 @@ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::mat3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::sym_mat3]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -33783,7 +33822,7 @@ from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::mat3*; _Size = long unsigned int; _Tp = scitbx::mat3]’ declared here +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::sym_mat3*; _Size = long unsigned int; _Tp = scitbx::sym_mat3]’ declared here 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here @@ -33792,7 +33831,7 @@ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec3]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::vec2]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@ -33809,54 +33848,49 @@ from /usr/include/boost/python/make_function.hpp:10, from /usr/include/boost/python/def.hpp:11, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: -/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec3*; _Size = long unsigned int; _Tp = scitbx::vec3]’ declared here +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::vec2*; _Size = long unsigned int; _Tp = scitbx::vec2]’ declared here 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec2; AccessorType = scitbx::af::flex_grid<>]’: +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/flex_types.h:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/c++/13/memory:69, + from /usr/include/boost/function/function_base.hpp:33, + from /usr/include/boost/function/detail/prologue.hpp:18, + from /usr/include/boost/function/function_template.hpp:13, + from /usr/include/boost/function/detail/maybe_include.hpp:15, + from /usr/include/boost/function/function0.hpp:11, + from /usr/include/boost/python/errors.hpp:13, + from /usr/include/boost/python/handle.hpp:11, + from /usr/include/boost/python/to_python_value.hpp:14, + from /usr/include/boost/python/default_call_policies.hpp:10, + from /usr/include/boost/python/make_function.hpp:10, + from /usr/include/boost/python/def.hpp:11, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/flex_wrapper.h:6: +/usr/include/c++/13/bits/stl_uninitialized.h:312:5: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = scitbx::af::tiny*; _Size = long unsigned int; _Tp = scitbx::af::tiny]’ declared here + 312 | uninitialized_fill_n(_ForwardIterator __first, _Size __n, const _Tp& __x) + | ^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here + 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec2]’ declared here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ -g++ -o scitbx/fftpack/boost_python/fftpack_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/boost_python/fftpack_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /usr/include/c++/13/cassert:44, - from /usr/include/boost/move/detail/type_traits.hpp:33, - from /usr/include/boost/move/traits.hpp:31, - from /usr/include/boost/move/utility.hpp:30, - from /usr/include/boost/optional/optional.hpp:59, - from /usr/include/boost/optional.hpp:15, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref_reductions.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:31, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:12, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:3: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::vector; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:40:53: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::vector; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:41:51: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = std::set; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:42:50: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::mat3; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); @@ -33868,26 +33902,17 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ^~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::mat3; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:48:37: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:49:40: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:50:40: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::shared >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_wrapper.h:130:52: required from ‘static boost::python::class_ > scitbx::af::boost_python::shared_wrapper::wrap(const std::string&) [with ElementType = scitbx::af::tiny; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/shared_ext.cpp:51:40: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec2; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec2&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec2]’ declared here + 165 | void resize(size_type const& new_size, ElementType const& x) { + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ^~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicle_neighbors_ext.cpp:3: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicle_neighbors.hpp: In instantiation of ‘std::map > scitbx::cubicle_neighbors::neighbors_of(const scitbx::af::const_ref >&, const FloatType&) [with FloatType = double]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicle_neighbors_ext.cpp:23:36: required from here @@ -33913,12 +33938,23 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/cubicles.h:176:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 176 | else if (j >= ref.accessor()[i]) j = ref.accessor()[i]-1; | ~~^~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::vec3; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::af::tiny; AccessorType = scitbx::af::flex_grid<>]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 168 | base_class::resize(m_accessor.size_1d(), ElementType()); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::vec3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::vec3]’ declared here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::af::tiny&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::af::tiny]’ declared here + 165 | void resize(size_type const& new_size, ElementType const& x) { + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ^~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘void scitbx::af::versa_plain::resize(const AccessorType&) [with ElementType = scitbx::sym_mat3; AccessorType = scitbx::af::flex_grid<>]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:27: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] + 168 | base_class::resize(m_accessor.size_1d(), ElementType()); + | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:165:12: note: by argument 3 of type ‘const scitbx::sym_mat3&’ to ‘void scitbx::af::shared_plain::resize(const size_type&, const ElementType&) [with ElementType = scitbx::sym_mat3]’ declared here 165 | void resize(size_type const& new_size, ElementType const& x) { | ^~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:168:50: note: ‘’ declared here @@ -33935,16 +33971,16 @@ | ~~^~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/glmtbx/boost_python/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/glmtbx/boost_python/ext.cc cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_cubicle_neighbors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_cubicle_neighbors_ext.so.0 scitbx/cubicle_neighbors_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' + 'lib/scitbx_cubicle_neighbors_ext.so.0'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' + 'lib/scitbx_cubicle_neighbors_ext.so'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' g++ -o scitbx/graphics_utils/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/graphics_utils/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/iso_surface/iso_surface_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/iso_surface/iso_surface_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/lbfgs/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -DSCITBX_LBFGS_HAVE_LBFGS_FEM -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgs/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_cubicle_neighbors_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_cubicle_neighbors_ext.so.0 scitbx/cubicle_neighbors_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' - 'lib/scitbx_cubicle_neighbors_ext.so.0'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' - 'lib/scitbx_cubicle_neighbors_ext.so'->'lib/scitbx_cubicle_neighbors_ext.so.0.0.1' g++ -o scitbx/lbfgs/lbfgs_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable scitbx/lbfgs/lbfgs_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/io.hpp:8, @@ -33988,6 +34024,8 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/linalg/boost_python/linalg_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/linalg_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/linalg/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/matrix.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, from /usr/include/boost/smart_ptr/scoped_array.hpp:13, from /usr/include/boost/scoped_array.hpp:13, @@ -33998,8 +34036,7 @@ /usr/include/boost/timer.hpp:25:1: note: ‘#pragma message: This header is deprecated. Use the facilities in instead.’ 25 | BOOST_HEADER_DEPRECATED( "the facilities in " ) | ^~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/linalg/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/matrix.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/linalg/boost_python/cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/cholesky.cpp In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/serialization/base_256.h:2, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/floating_point_epsilon.h:4, @@ -34017,6 +34054,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:3671:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3671 | SCITBX_ASSERT(x.size() == n); | ^~~~~~~~~~~~~ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:3672:28: warning: comparison of integer expressions of different signedness: ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 3672 | SCITBX_ASSERT(l.size() == n); /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error_utils.h:166:9: note: in definition of macro ‘SCITBX_ERROR_UTILS_ASSERT’ @@ -34098,8 +34136,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb.h:120:9: note: in expansion of macro ‘SCITBX_ASSERT’ 120 | SCITBX_ASSERT(nbd.size() == n); | ^~~~~~~~~~~~~ -g++ -o scitbx/linalg/boost_python/cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/cholesky.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/linalg/boost_python/householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/householder.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_iso_surface_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_iso_surface_ext.so.0 scitbx/iso_surface/iso_surface_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm @@ -34108,34 +34144,40 @@ 'lib/scitbx_iso_surface_ext.so'->'lib/scitbx_iso_surface_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/svd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_graphics_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_graphics_utils_ext.so.0 scitbx/graphics_utils/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/scitbx_graphics_utils_ext.so.0.0.1' - 'lib/scitbx_graphics_utils_ext.so.0'->'lib/scitbx_graphics_utils_ext.so.0.0.1' - 'lib/scitbx_graphics_utils_ext.so'->'lib/scitbx_graphics_utils_ext.so.0.0.1' g++ -o scitbx/linalg/boost_python/eigensystem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/eigensystem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/linalg/boost_python/lapack_fem_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_glmtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_glmtbx_ext.so.0 scitbx/glmtbx/boost_python/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/scitbx_glmtbx_ext.so.0.0.1' 'lib/scitbx_glmtbx_ext.so.0'->'lib/scitbx_glmtbx_ext.so.0.0.1' 'lib/scitbx_glmtbx_ext.so'->'lib/scitbx_glmtbx_ext.so.0.0.1' -g++ -o scitbx/lstbx/boost_python/lstbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lstbx/boost_python/lstbx_ext.cpp +g++ -o lib/scitbx_graphics_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_graphics_utils_ext.so.0 scitbx/graphics_utils/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/scitbx_fftpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_fftpack_ext.so.0 scitbx/fftpack/boost_python/fftpack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o scitbx/linalg/boost_python/lapack_fem_bpl.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/lstbx/boost_python/normal_equations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lstbx/boost_python/normal_equations.cpp +Create symlinks for: 'lib/scitbx_graphics_utils_ext.so.0.0.1' + 'lib/scitbx_graphics_utils_ext.so.0'->'lib/scitbx_graphics_utils_ext.so.0.0.1' + 'lib/scitbx_graphics_utils_ext.so'->'lib/scitbx_graphics_utils_ext.so.0.0.1' +g++ -o scitbx/lstbx/boost_python/lstbx_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lstbx/boost_python/lstbx_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_fftpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_fftpack_ext.so.0 scitbx/fftpack/boost_python/fftpack_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/scitbx_lbfgsb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgsb_ext.so.0 scitbx/lbfgsb/boost_python/lbfgsb_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/scitbx_fftpack_ext.so.0.0.1' 'lib/scitbx_fftpack_ext.so.0'->'lib/scitbx_fftpack_ext.so.0.0.1' 'lib/scitbx_fftpack_ext.so'->'lib/scitbx_fftpack_ext.so.0.0.1' -Create symlinks for: 'lib/scitbx_lbfgsb_ext.so.0.0.1' - 'lib/scitbx_lbfgsb_ext.so.0'->'lib/scitbx_lbfgsb_ext.so.0.0.1' - 'lib/scitbx_lbfgsb_ext.so'->'lib/scitbx_lbfgsb_ext.so.0.0.1' +g++ -o scitbx/lstbx/boost_python/normal_equations.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lstbx/boost_python/normal_equations.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/math_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/math_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_array_family_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_shared_ext.so.0 scitbx/array_family/boost_python/shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -lboost_numpy311 +Create symlinks for: 'lib/scitbx_array_family_shared_ext.so.0.0.1' + 'lib/scitbx_array_family_shared_ext.so.0'->'lib/scitbx_array_family_shared_ext.so.0.0.1' + 'lib/scitbx_array_family_shared_ext.so'->'lib/scitbx_array_family_shared_ext.so.0.0.1' g++ -o scitbx/math/boost_python/basic_statistics.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/basic_statistics.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_lbfgsb_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgsb_ext.so.0 scitbx/lbfgsb/boost_python/lbfgsb_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/scitbx_lbfgsb_ext.so.0.0.1' + 'lib/scitbx_lbfgsb_ext.so.0'->'lib/scitbx_lbfgsb_ext.so.0.0.1' + 'lib/scitbx_lbfgsb_ext.so'->'lib/scitbx_lbfgsb_ext.so.0.0.1' +g++ -o scitbx/math/boost_python/gaussian.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/gaussian.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sym_mat3.h:4, @@ -34150,36 +34192,30 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/linalg/boost_python/lapack_fem_bpl.cpp:246:5: note: in expansion of macro ‘SCITBX_ASSERT’ 246 | SCITBX_ASSERT(w.size() == n); | ^~~~~~~~~~~~~ -g++ -o scitbx/math/boost_python/gaussian.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/gaussian.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/golay.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/golay.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/minimum_covering_sphere.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/minimum_covering_sphere.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/principal_axes_of_inertia.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/principal_axes_of_inertia.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/math/boost_python/row_echelon.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/row_echelon.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/math/boost_python/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/tensor_rank_2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_lbfgs_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lbfgs_ext.so.0 scitbx/lbfgs/ext.o scitbx/lbfgs/lbfgs_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/scitbx_lbfgs_ext.so.0.0.1' 'lib/scitbx_lbfgs_ext.so.0'->'lib/scitbx_lbfgs_ext.so.0.0.1' 'lib/scitbx_lbfgs_ext.so'->'lib/scitbx_lbfgs_ext.so.0.0.1' -g++ -o scitbx/math/boost_python/row_echelon.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/row_echelon.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/math/boost_python/tensor_rank_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/tensor_rank_2.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_linalg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_linalg_ext.so.0 scitbx/linalg/boost_python/linalg_ext.o scitbx/linalg/boost_python/matrix.o scitbx/linalg/boost_python/cholesky.o scitbx/linalg/boost_python/householder.o scitbx/linalg/boost_python/svd.o scitbx/linalg/boost_python/eigensystem.o scitbx/linalg/boost_python/lapack_fem_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/scitbx_linalg_ext.so.0.0.1' - 'lib/scitbx_linalg_ext.so.0'->'lib/scitbx_linalg_ext.so.0.0.1' - 'lib/scitbx_linalg_ext.so'->'lib/scitbx_linalg_ext.so.0.0.1' g++ -o scitbx/math/boost_python/chebyshev.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/chebyshev.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_array_family_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_shared_ext.so.0 scitbx/array_family/boost_python/shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -lboost_numpy311 -Create symlinks for: 'lib/scitbx_array_family_shared_ext.so.0.0.1' - 'lib/scitbx_array_family_shared_ext.so.0'->'lib/scitbx_array_family_shared_ext.so.0.0.1' - 'lib/scitbx_array_family_shared_ext.so'->'lib/scitbx_array_family_shared_ext.so.0.0.1' g++ -o scitbx/math/boost_python/icosahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/icosahedron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_linalg_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_linalg_ext.so.0 scitbx/linalg/boost_python/linalg_ext.o scitbx/linalg/boost_python/matrix.o scitbx/linalg/boost_python/cholesky.o scitbx/linalg/boost_python/householder.o scitbx/linalg/boost_python/svd.o scitbx/linalg/boost_python/eigensystem.o scitbx/linalg/boost_python/lapack_fem_bpl.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm g++ -o scitbx/math/boost_python/slatec.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/slatec.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/scitbx_linalg_ext.so.0.0.1' + 'lib/scitbx_linalg_ext.so.0'->'lib/scitbx_linalg_ext.so.0.0.1' + 'lib/scitbx_linalg_ext.so'->'lib/scitbx_linalg_ext.so.0.0.1' g++ -o scitbx/math/boost_python/line_search.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/line_search.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/r3_rotation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/r3_rotation.cpp @@ -34195,28 +34231,28 @@ g++ -o scitbx/math/boost_python/least_squares_plane.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/least_squares_plane.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_lstbx_normal_equations_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_lstbx_normal_equations_ext.so.0 scitbx/lstbx/boost_python/lstbx_ext.o scitbx/lstbx/boost_python/normal_equations.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o scitbx/math/boost_python/continued_fraction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/continued_fraction.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' 'lib/scitbx_lstbx_normal_equations_ext.so.0'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' 'lib/scitbx_lstbx_normal_equations_ext.so'->'lib/scitbx_lstbx_normal_equations_ext.so.0.0.1' +g++ -o scitbx/math/boost_python/continued_fraction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/continued_fraction.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/numeric_limits.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/numeric_limits.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/distributions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/distributions.cpp -g++ -o scitbx/math/boost_python/exp_functions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/exp_functions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/math/boost_python/exp_functions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/exp_functions.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/zernike.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/zernike.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/zernike_moments.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/zernike_moments.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/2d_zernike_moments.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/2d_zernike_moments.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/weighted_covariance.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/weighted_covariance.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/rotation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/rotation.cpp -g++ -o scitbx/math/boost_python/interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/interpolation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/math/boost_python/interpolation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/interpolation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/boost_python/tetrahedron.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/boost_python/tetrahedron.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -34226,6 +34262,10 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/r3_utils_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/r3_utils_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/random/boost_python/random_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/random/boost_python/random_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/random/boost_python/basic_distributions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/random/boost_python/basic_distributions.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/minpack/raw.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/minpack/levenberg_marquardt.h:4, @@ -34240,21 +34280,11 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/minpack/levenberg_marquardt.h:80:9: note: in expansion of macro ‘SCITBX_ASSERT’ 80 | SCITBX_ASSERT(fvec.size() == m); | ^~~~~~~~~~~~~ -g++ -o scitbx/random/boost_python/random_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/random/boost_python/random_ext.cpp -g++ -o scitbx/random/boost_python/basic_distributions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/random/boost_python/basic_distributions.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/rigid_body/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/rigid_body/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/sparse/boost_python/vector.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/vector.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_minpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_minpack_ext.so.0 scitbx/minpack/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_minpack -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/scitbx_minpack_ext.so.0.0.1' - 'lib/scitbx_minpack_ext.so.0'->'lib/scitbx_minpack_ext.so.0.0.1' - 'lib/scitbx_minpack_ext.so'->'lib/scitbx_minpack_ext.so.0.0.1' g++ -o lib/scitbx_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_array_family_flex_ext.so.0 scitbx/array_family/boost_python/flex_ext.o scitbx/array_family/boost_python/flex_grid.o scitbx/array_family/boost_python/flex_bool.o scitbx/array_family/boost_python/flex_size_t.o scitbx/array_family/boost_python/flex_int.o scitbx/array_family/boost_python/flex_float.o scitbx/array_family/boost_python/flex_double.o scitbx/array_family/boost_python/flex_double_matrix.o scitbx/array_family/boost_python/flex_complex_double.o scitbx/array_family/boost_python/flex_std_string.o scitbx/array_family/boost_python/flex_random.o scitbx/array_family/boost_python/flex_sort.o scitbx/array_family/boost_python/flex_histogram.o scitbx/array_family/boost_python/flex_weighted_histogram.o scitbx/array_family/boost_python/flex_mean_and_variance.o scitbx/array_family/boost_python/flex_median.o scitbx/array_family/boost_python/flex_linear_interpolation.o scitbx/array_family/boost_python/flex_vec3_double.o scitbx/array_family/boost_python/flex_vec2_double.o scitbx/array_family/boost_python/flex_vec3_int.o scitbx/array_family/boost_python/flex_sym_mat3_double.o scitbx/array_family/boost_python/flex_mat3_double.o scitbx/array_family/boost_python/flex_tiny_size_t_2.o scitbx/array_family/boost_python/loops.o scitbx/array_family/boost_python/show_sizes.o scitbx/array_family/boost_python/numpy_bridge.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -lboost_numpy311 -g++ -o scitbx/sparse/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/matrix.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:6, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/vec3.h:4, @@ -34273,6 +34303,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:30:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS’ 30 | SCITBX_ARRAY_FAMILY_TINY_CONVENIENCE_CONSTRUCTORS(tiny) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/sparse/boost_python/matrix.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/matrix.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_matrix.h:6, @@ -34285,8 +34317,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o scitbx/sparse/boost_python/approx_equal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/approx_equal.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_r3_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_r3_utils_ext.so.0 scitbx/r3_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/mat3.h:5: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/rigid_body/tardy.h: In instantiation of ‘scitbx::af::shared > > scitbx::rigid_body::tardy::construct_bodies(const scitbx::af::const_ref >&, const scitbx::af::const_ref&, const boost::python::api::object&, const FloatType&) [with FloatType = double]’: @@ -34309,6 +34340,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/rigid_body/tardy.h:163:9: note: in expansion of macro ‘SCITBX_ASSERT’ 163 | SCITBX_ASSERT(body->parent < nc); | ^~~~~~~~~~~~~ +Create symlinks for: 'lib/scitbx_r3_utils_ext.so.0.0.1' + 'lib/scitbx_r3_utils_ext.so.0'->'lib/scitbx_r3_utils_ext.so.0.0.1' + 'lib/scitbx_r3_utils_ext.so'->'lib/scitbx_r3_utils_ext.so.0.0.1' +g++ -o scitbx/sparse/boost_python/approx_equal.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/approx_equal.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_minpack_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_minpack_ext.so.0 scitbx/minpack/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_minpack -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h: In instantiation of ‘scitbx::af::tiny::tiny(const OtherElementType*, const OtherElementType*) [with OtherElementType = double; ElementType = double; long unsigned int N = 1]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/rigid_body/joint_lib.h:648:13: required from ‘boost::shared_ptr > scitbx::rigid_body::joint_lib::revolute::new_q(const scitbx::af::const_ref&) const [with FloatType = double]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/rigid_body/joint_lib.h:643:5: required from here @@ -34345,27 +34382,24 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ -g++ -o lib/scitbx_r3_utils_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_r3_utils_ext.so.0 scitbx/r3_utils_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/scitbx_minpack_ext.so.0.0.1' + 'lib/scitbx_minpack_ext.so.0'->'lib/scitbx_minpack_ext.so.0.0.1' + 'lib/scitbx_minpack_ext.so'->'lib/scitbx_minpack_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/random.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/random.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_r3_utils_ext.so.0.0.1' - 'lib/scitbx_r3_utils_ext.so.0'->'lib/scitbx_r3_utils_ext.so.0.0.1' - 'lib/scitbx_r3_utils_ext.so'->'lib/scitbx_r3_utils_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/lu_factorization.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/lu_factorization.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/scitbx_array_family_flex_ext.so.0.0.1' + 'lib/scitbx_array_family_flex_ext.so.0'->'lib/scitbx_array_family_flex_ext.so.0.0.1' + 'lib/scitbx_array_family_flex_ext.so'->'lib/scitbx_array_family_flex_ext.so.0.0.1' g++ -o scitbx/sparse/boost_python/sparse_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/boost_python/sparse_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/map_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/map_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/stl/set_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/set_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_array_family_flex_ext.so.0.0.1' - 'lib/scitbx_array_family_flex_ext.so.0'->'lib/scitbx_array_family_flex_ext.so.0.0.1' - 'lib/scitbx_array_family_flex_ext.so'->'lib/scitbx_array_family_flex_ext.so.0.0.1' g++ -o scitbx/stl/vector_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/suffixtree/boost_python/suffixtree_shared_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/set_ext.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/set_wrapper.h: In static member function ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/set_wrapper.h:52:28: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] @@ -34402,36 +34436,12 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/set_wrapper.h:68:52: required from ‘static void scitbx::stl::boost_python::set_wrapper::wrap(const std::string&) [with ElementType = std::__cxx11::basic_string; std::string = std::__cxx11::basic_string]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/set_ext.cpp:10:35: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +g++ -o scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/suffixtree/boost_python/suffixtree_shared_ext.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/suffixtree/boost_python/suffixtree_single_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/suffixtree/boost_python/suffixtree_single_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object/class.hpp:9, - from /usr/include/boost/python/class.hpp:13, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_wrapper.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp:2: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp:10:35: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp:11:33: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = std::set; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp:14:50: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +g++ -o scitbx/suffixtree/boost_python/object_extensions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/suffixtree/boost_python/object_extensions.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_matrix.h:4: @@ -34456,6 +34466,24 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ +In file included from /usr/include/boost/assert.hpp:58, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object/class.hpp:9, + from /usr/include/boost/python/class.hpp:13, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_wrapper.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp:2: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = unsigned int; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp:10:35: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In constructor ‘scitbx::af::shared_plain::shared_plain(const size_type&) [with ElementType = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:34: warning: ‘’ may be used uninitialized [-Wmaybe-uninitialized] 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); @@ -34466,13 +34494,27 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:132:48: note: ‘’ declared here 132 | std::uninitialized_fill_n(begin(), sz, ElementType()); | ^~~~~~~~~~~~~ -g++ -o scitbx/suffixtree/boost_python/object_extensions.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/suffixtree/boost_python/object_extensions.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = double; GetitemReturnValuePolicy = boost::python::return_value_policy; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp:11:33: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector, std::allocator > >; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_wrapper.h:121:52: required from ‘static void scitbx::stl::boost_python::vector_wrapper::wrap(const std::string&) [with ElementType = std::set; GetitemReturnValuePolicy = boost::python::return_internal_reference<>; std::string = std::__cxx11::basic_string]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/stl/vector_ext.cpp:14:50: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +g++ -o lib/scitbx_random_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_random_ext.so.0 scitbx/random/boost_python/random_ext.o scitbx/random/boost_python/basic_distributions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/scitbx_random_ext.so.0.0.1' + 'lib/scitbx_random_ext.so.0'->'lib/scitbx_random_ext.so.0.0.1' + 'lib/scitbx_random_ext.so'->'lib/scitbx_random_ext.so.0.0.1' +g++ -o scitbx/wigner/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/wigner/ext.cpp g++ -o lib/scitbx_suffixtree_shared_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_shared_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_shared_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_suffixtree_shared_ext.so.0.0.1' 'lib/scitbx_suffixtree_shared_ext.so.0'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' 'lib/scitbx_suffixtree_shared_ext.so'->'lib/scitbx_suffixtree_shared_ext.so.0.0.1' -g++ -o scitbx/wigner/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/wigner/ext.cpp +g++ -o smtbx/ab_initio/ab_initio_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/ab_initio/ab_initio_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:307: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h: In member function ‘void scitbx::af::shared_plain::resize(const size_type&) [with ElementType = scitbx::af::tiny]’: @@ -34485,49 +34527,43 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/push_back_etc.h:175:26: note: ‘’ declared here 175 | resize(new_size, ElementType()); | ^~~~~~~~~~~~~ -g++ -o lib/scitbx_random_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_random_ext.so.0 scitbx/random/boost_python/random_ext.o scitbx/random/boost_python/basic_distributions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -Create symlinks for: 'lib/scitbx_random_ext.so.0.0.1' - 'lib/scitbx_random_ext.so.0'->'lib/scitbx_random_ext.so.0.0.1' - 'lib/scitbx_random_ext.so'->'lib/scitbx_random_ext.so.0.0.1' -g++ -o smtbx/ab_initio/ab_initio_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/ab_initio/ab_initio_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/array_family/af_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/array_family/af_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_math_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_math_ext.so.0 scitbx/math/boost_python/math_ext.o scitbx/math/boost_python/basic_statistics.o scitbx/math/boost_python/gaussian.o scitbx/math/boost_python/golay.o scitbx/math/boost_python/minimum_covering_sphere.o scitbx/math/boost_python/principal_axes_of_inertia.o scitbx/math/boost_python/row_echelon.o scitbx/math/boost_python/tensor_rank_2.o scitbx/math/boost_python/chebyshev.o scitbx/math/boost_python/icosahedron.o scitbx/math/boost_python/slatec.o scitbx/math/boost_python/line_search.o scitbx/math/boost_python/r3_rotation.o scitbx/math/boost_python/resample.o scitbx/math/boost_python/quadrature.o scitbx/math/boost_python/unimodular_generator.o scitbx/math/boost_python/halton.o scitbx/math/boost_python/least_squares_plane.o scitbx/math/boost_python/continued_fraction.o scitbx/math/boost_python/numeric_limits.o scitbx/math/boost_python/distributions.o scitbx/math/boost_python/exp_functions.o scitbx/math/boost_python/zernike.o scitbx/math/boost_python/zernike_moments.o scitbx/math/boost_python/2d_zernike_moments.o scitbx/math/boost_python/weighted_covariance.o scitbx/math/boost_python/rotation.o scitbx/math/boost_python/interpolation.o scitbx/math/boost_python/tetrahedron.o scitbx/math/boost_python/angle_derivative.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_slatec -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o smtbx/refinement/constraints/boost_python/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/affine.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_stl_set_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_set_ext.so.0 scitbx/stl/set_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/scitbx_stl_set_ext.so.0.0.1' 'lib/scitbx_stl_set_ext.so.0'->'lib/scitbx_stl_set_ext.so.0.0.1' 'lib/scitbx_stl_set_ext.so'->'lib/scitbx_stl_set_ext.so.0.0.1' +g++ -o smtbx/refinement/constraints/boost_python/affine.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/affine.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/constraints_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/constraints_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -Create symlinks for: 'lib/scitbx_math_ext.so.0.0.1' - 'lib/scitbx_math_ext.so.0'->'lib/scitbx_math_ext.so.0.0.1' - 'lib/scitbx_math_ext.so'->'lib/scitbx_math_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/direction.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/direction.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_array_family_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_array_family_ext.so.0 smtbx/array_family/af_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o lib/smtbx_ab_initio_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_ab_initio_ext.so.0 smtbx/ab_initio/ab_initio_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/smtbx_array_family_ext.so.0.0.1' 'lib/smtbx_array_family_ext.so.0'->'lib/smtbx_array_family_ext.so.0.0.1' 'lib/smtbx_array_family_ext.so'->'lib/smtbx_array_family_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/geometrical_hydrogens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/independent_scalar_parameters.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/smtbx_ab_initio_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_ab_initio_ext.so.0 smtbx/ab_initio/ab_initio_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o lib/scitbx_wigner_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_wigner_ext.so.0 scitbx/wigner/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/smtbx_ab_initio_ext.so.0.0.1' 'lib/smtbx_ab_initio_ext.so.0'->'lib/smtbx_ab_initio_ext.so.0.0.1' 'lib/smtbx_ab_initio_ext.so'->'lib/smtbx_ab_initio_ext.so.0.0.1' +g++ -o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/independent_scalar_parameters.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'lib/scitbx_math_ext.so.0.0.1' + 'lib/scitbx_math_ext.so.0'->'lib/scitbx_math_ext.so.0.0.1' + 'lib/scitbx_math_ext.so'->'lib/scitbx_math_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/occupancy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/occupancy.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_sparse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_sparse_ext.so.0 scitbx/sparse/boost_python/vector.o scitbx/sparse/boost_python/matrix.o scitbx/sparse/boost_python/approx_equal.o scitbx/sparse/boost_python/random.o scitbx/sparse/boost_python/lu_factorization.o scitbx/sparse/boost_python/sparse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o smtbx/refinement/constraints/boost_python/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/reparametrisation.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_wigner_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_wigner_ext.so.0 scitbx/wigner/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/scitbx_wigner_ext.so.0.0.1' 'lib/scitbx_wigner_ext.so.0'->'lib/scitbx_wigner_ext.so.0.0.1' 'lib/scitbx_wigner_ext.so'->'lib/scitbx_wigner_ext.so.0.0.1' -g++ -o smtbx/refinement/constraints/boost_python/reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/reparametrisation.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_sparse_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_sparse_ext.so.0 scitbx/sparse/boost_python/vector.o scitbx/sparse/boost_python/matrix.o scitbx/sparse/boost_python/approx_equal.o scitbx/sparse/boost_python/random.o scitbx/sparse/boost_python/lu_factorization.o scitbx/sparse/boost_python/sparse_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm g++ -o smtbx/refinement/constraints/boost_python/rigid.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/rigid.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/scitbx_sparse_ext.so.0.0.1' @@ -34541,33 +34577,33 @@ 'lib/scitbx_rigid_body_ext.so'->'lib/scitbx_rigid_body_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/scaled_adp.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/scaled_adp.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o smtbx/refinement/constraints/boost_python/scatterer_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/scatterer_parameters.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/scitbx_stl_vector_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_vector_ext.so.0 scitbx/stl/vector_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/scitbx_stl_vector_ext.so.0.0.1' 'lib/scitbx_stl_vector_ext.so.0'->'lib/scitbx_stl_vector_ext.so.0.0.1' 'lib/scitbx_stl_vector_ext.so'->'lib/scitbx_stl_vector_ext.so.0.0.1' -g++ -o smtbx/refinement/constraints/boost_python/scatterer_parameters.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/scatterer_parameters.cpp g++ -o smtbx/refinement/constraints/boost_python/shared.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/shared.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_map_ext.so.0 scitbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/scitbx_stl_map_ext.so.0.0.1' + 'lib/scitbx_stl_map_ext.so.0'->'lib/scitbx_stl_map_ext.so.0.0.1' + 'lib/scitbx_stl_map_ext.so'->'lib/scitbx_stl_map_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/symmetry_equivalent.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/scitbx_suffixtree_single_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_single_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_single_ext.o scitbx/suffixtree/boost_python/object_extensions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/scitbx_suffixtree_single_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_suffixtree_single_ext.so.0 scitbx/suffixtree/boost_python/suffixtree_single_ext.o scitbx/suffixtree/boost_python/object_extensions.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/scitbx_suffixtree_single_ext.so.0.0.1' 'lib/scitbx_suffixtree_single_ext.so.0'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' 'lib/scitbx_suffixtree_single_ext.so'->'lib/scitbx_suffixtree_single_ext.so.0.0.1' -g++ -o lib/scitbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=scitbx_stl_map_ext.so.0 scitbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm g++ -o smtbx/refinement/boost_python/least_squares_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/boost_python/least_squares_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/boost_python/weighting_schemes.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/boost_python/weighting_schemes.cpp -Create symlinks for: 'lib/scitbx_stl_map_ext.so.0.0.1' - 'lib/scitbx_stl_map_ext.so.0'->'lib/scitbx_stl_map_ext.so.0.0.1' - 'lib/scitbx_stl_map_ext.so'->'lib/scitbx_stl_map_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/boost_python/least_squares.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/boost_python/least_squares.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ @@ -34592,8 +34628,8 @@ g++ -o spotfinder/dxtbx_toolbox/ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/python3.11 -Ispotfinder/dxtbx_toolbox/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/src -Ispotfinder/dxtbx_toolbox/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/dxtbx_toolbox/ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o spotfinder/core_toolbox/boost_python/hough_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/annlib_adaptbx/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/dxtbx/src -I/usr/include/python3.11 -Ispotfinder/core_toolbox/boost_python/src -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/boost_python/src -Ispotfinder/core_toolbox/boost_python/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/boost_python/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/spotfinder/core_toolbox/boost_python/hough_ext.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/std_pair_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=std_pair_ext.so.0 boost_adaptbx/std_pair_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lboost_python311 -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ Create symlinks for: 'lib/std_pair_ext.so.0.0.1' 'lib/std_pair_ext.so.0'->'lib/std_pair_ext.so.0.0.1' 'lib/std_pair_ext.so'->'lib/std_pair_ext.so.0.0.1' @@ -34601,39 +34637,6 @@ cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/boost_python/regression_test_ext.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -DBOOST_PYTHON_MAX_BASES=2 -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/usr/include/python3.11 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -In file included from /usr/include/boost/assert.hpp:58, - from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, - from /usr/include/boost/shared_ptr.hpp:17, - from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, - from /usr/include/boost/python/converter/arg_to_python.hpp:15, - from /usr/include/boost/python/call.hpp:15, - from /usr/include/boost/python/object_core.hpp:14, - from /usr/include/boost/python/object.hpp:9, - from /usr/include/boost/python/list.hpp:10, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:156:78: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] - 197 | if (!is_range) assert(i == obj_size); - | ~~^~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:160:72: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:164:71: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:168:71: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:172:75: required from here -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] g++ -o scitbx/array_family/tst_accessors.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o lib/smtbx_stl_map_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_stl_map_ext.so.0 smtbx/stl/map_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm @@ -34642,7 +34645,6 @@ 'lib/smtbx_stl_map_ext.so'->'lib/smtbx_stl_map_ext.so.0.0.1' g++ -o scitbx/array_family/tst_af_1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_1.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/spotfinder_hough_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_hough_ext.so.0 spotfinder/core_toolbox/boost_python/hough_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -34677,11 +34679,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -Create symlinks for: 'lib/spotfinder_hough_ext.so.0.0.1' - 'lib/spotfinder_hough_ext.so.0'->'lib/spotfinder_hough_ext.so.0.0.1' - 'lib/spotfinder_hough_ext.so'->'lib/spotfinder_hough_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_af_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_2.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o mmtbx/masks/tst_mask -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread mmtbx/masks/tst_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_masks -liotbx_pdb -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -34784,9 +34782,11 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp:326:11: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] +g++ -o scitbx/array_family/tst_af_2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_2.cpp /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp: In instantiation of ‘void {anonymous}::verify(long int, const VectorType1&, const VectorType2&) [with VectorType1 = scitbx::af::small; VectorType2 = scitbx::af::tiny]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_accessors.cpp:371:11: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_helpers.cpp:17:18: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const long unsigned int’ [-Wsign-compare] +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include/scitbx/array_family/tiny_plain_apply.h:15, @@ -34817,6 +34817,39 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_2.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -34895,48 +34928,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small.h:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/flex_grid.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_2.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o mmtbx/masks/tst_mask -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread mmtbx/masks/tst_mask.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lmmtbx_masks -liotbx_pdb -lcctbx -lomptbx -lcctbx_sgtbx_asu -lm -In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, - from /usr/include/boost/smart_ptr/scoped_array.hpp:13, - from /usr/include/boost/scoped_array.hpp:13, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:10: -/usr/include/boost/bind.hpp: At global scope: -/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ - 36 | BOOST_PRAGMA_MESSAGE( - | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -35015,6 +35006,14 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, + from /usr/include/boost/smart_ptr/scoped_array.hpp:13, + from /usr/include/boost/scoped_array.hpp:13, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:10: +/usr/include/boost/bind.hpp: At global scope: +/usr/include/boost/bind.hpp:36:1: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ + 36 | BOOST_PRAGMA_MESSAGE( + | ^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_1.cpp: In instantiation of ‘static void {anonymous}::array_exercise::run_2() [with ArrayType = scitbx::af::small_plain]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_1.cpp:29:12: required from ‘static void {anonymous}::array_exercise::run() [with ArrayType = scitbx::af::small_plain]’ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_1.cpp:619:52: required from here @@ -35078,8 +35077,42 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:59:15: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘long int’ [-Wsign-compare] 59 | if (N < last - first) throw_range_error(); | ~~^~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_af_2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o scitbx/array_family/tst_af_3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_3.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +In file included from /usr/include/boost/assert.hpp:58, + from /usr/include/boost/smart_ptr/shared_ptr.hpp:25, + from /usr/include/boost/shared_ptr.hpp:17, + from /usr/include/boost/python/converter/shared_ptr_to_python.hpp:12, + from /usr/include/boost/python/converter/arg_to_python.hpp:15, + from /usr/include/boost/python/call.hpp:15, + from /usr/include/boost/python/object_core.hpp:14, + from /usr/include/boost/python/object.hpp:9, + from /usr/include/boost/python/list.hpp:10, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:7: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::vector; ConversionPolicy = scitbx::boost_python::container_conversions::variable_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:156:78: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] + 197 | if (!is_range) assert(i == obj_size); + | ~~^~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = std::__cxx11::list; ConversionPolicy = scitbx::boost_python::container_conversions::linked_list_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:160:72: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:164:71: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = boost::array; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_size_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:168:71: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h: In instantiation of ‘static void* scitbx::boost_python::container_conversions::from_python_sequence::convertible(PyObject*) [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy; PyObject = _object]’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:146:9: required from ‘scitbx::boost_python::container_conversions::from_python_sequence::from_python_sequence() [with ContainerType = scitbx::af::small; ConversionPolicy = scitbx::boost_python::container_conversions::fixed_capacity_policy]’ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/boost_python/regression_test_ext.cpp:172:75: required from here +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/boost_python/container_conversions.h:197:33: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/simple_io.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_3.cpp:1: @@ -35187,9 +35220,15 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_af_2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o lib/spotfinder_hough_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_hough_ext.so.0 spotfinder/core_toolbox/boost_python/hough_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/spotfinder_hough_ext.so.0.0.1' + 'lib/spotfinder_hough_ext.so.0'->'lib/spotfinder_hough_ext.so.0.0.1' + 'lib/spotfinder_hough_ext.so'->'lib/spotfinder_hough_ext.so.0.0.1' g++ -o scitbx/array_family/tst_af_4.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_4.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_accessors -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_accessors.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/array_family/tst_af_5.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_5.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/simple_io.h:5, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_4.cpp:1: @@ -35219,6 +35258,35 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/simple_io.h:5, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_5.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -35297,48 +35365,35 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/boost_python/regression_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=regression_test_ext.so.0 scitbx/array_family/boost_python/regression_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -lboost_numpy311 -g++ -o scitbx/array_family/tst_af_3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/array_family/tst_accessors -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_accessors.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -Create symlinks for: 'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' - 'scitbx/array_family/boost_python/regression_test_ext.so.0'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' - 'scitbx/array_family/boost_python/regression_test_ext.so'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_af_5.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_5.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_mat3.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_optional_copy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_optional_copy.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o lib/smtbx_refinement_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_constraints_ext.so.0 smtbx/refinement/constraints/boost_python/affine.o smtbx/refinement/constraints/boost_python/constraints_ext.o smtbx/refinement/constraints/boost_python/direction.o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o smtbx/refinement/constraints/boost_python/occupancy.o smtbx/refinement/constraints/boost_python/reparametrisation.o smtbx/refinement/constraints/boost_python/rigid.o smtbx/refinement/constraints/boost_python/same_group.o smtbx/refinement/constraints/boost_python/scaled_adp.o smtbx/refinement/constraints/boost_python/scatterer_parameters.o smtbx/refinement/constraints/boost_python/shared.o smtbx/refinement/constraints/boost_python/special_position.o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/simple_io.h:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_af_5.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 62 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 65 | if (i >= sz) throw_range_error(); return beg[i]; \ | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_af_3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/array_family/tst_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_mat3.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -35371,32 +35426,10 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘const ElementType& scitbx::af::shared_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_af_1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/array_family/tst_optional_copy.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_optional_copy.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_af_5 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_5.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -35430,7 +35463,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o lib/spotfinder_dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_dxtbx_ext.so.0 spotfinder/dxtbx_toolbox/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -ldxtbxspotfinder -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o scitbx/array_family/tst_rectangular_full_packed.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -35509,12 +35542,11 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -Create symlinks for: 'lib/spotfinder_dxtbx_ext.so.0.0.1' - 'lib/spotfinder_dxtbx_ext.so.0'->'lib/spotfinder_dxtbx_ext.so.0.0.1' - 'lib/spotfinder_dxtbx_ext.so'->'lib/spotfinder_dxtbx_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_rectangular_full_packed.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/array_family/tst_af_1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o lib/smtbx_refinement_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_restraints_ext.so.0 smtbx/refinement/restraints/boost_python/origin_fixing.o smtbx/refinement/restraints/boost_python/restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/smtbx_refinement_restraints_ext.so.0.0.1' + 'lib/smtbx_refinement_restraints_ext.so.0'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' + 'lib/smtbx_refinement_restraints_ext.so'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/accessors/rectangular_full_packed.h:3, @@ -35545,7 +35577,8 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o lib/smtbx_refinement_restraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_restraints_ext.so.0 smtbx/refinement/restraints/boost_python/origin_fixing.o smtbx/refinement/restraints/boost_python/restraints_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o scitbx/array_family/tst_ref_matrix_facet.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -35572,6 +35605,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/boost_python/regression_test_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=regression_test_ext.so.0 scitbx/array_family/boost_python/regression_test_ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm -lboost_numpy311 /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -35598,6 +35632,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -35631,20 +35666,14 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_rectangular_full_packed.cpp:53:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 53 | for(int j=0; j'lib/smtbx_refinement_constraints_ext.so.0.0.1' - 'lib/smtbx_refinement_constraints_ext.so'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' g++ -o scitbx/array_family/tst_sym_mat3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_sym_mat3.cpp -Create symlinks for: 'lib/smtbx_refinement_restraints_ext.so.0.0.1' - 'lib/smtbx_refinement_restraints_ext.so.0'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' - 'lib/smtbx_refinement_restraints_ext.so'->'lib/smtbx_refinement_restraints_ext.so.0.0.1' cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +Create symlinks for: 'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' + 'scitbx/array_family/boost_python/regression_test_ext.so.0'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' + 'scitbx/array_family/boost_python/regression_test_ext.so'->'scitbx/array_family/boost_python/regression_test_ext.so.0.0.1' g++ -o scitbx/array_family/tst_unsigned_float_arithmetic.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_unsigned_float_arithmetic.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_rectangular_full_packed -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_rectangular_full_packed.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/array_family/tst_af_5 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_5.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_ref_matrix_facet.cpp:1: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: @@ -35700,7 +35729,6 @@ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o scitbx/array_family/tst_vec3.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/usr/include -Iscitbx/array_family -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tst_vec3.cpp -g++ -o scitbx/array_family/tst_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -35727,7 +35755,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h: In member function ‘ElementType& scitbx::af::versa_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -35754,9 +35781,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/versa_plain.h:161:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 161 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(versa_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/error/tst_error.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/error -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error/tst_error.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/fftpack/timing/fftpack_timer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/timing/fftpack_timer.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, @@ -35791,7 +35815,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o lib/smtbx_refinement_constraints_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_constraints_ext.so.0 smtbx/refinement/constraints/boost_python/affine.o smtbx/refinement/constraints/boost_python/constraints_ext.o smtbx/refinement/constraints/boost_python/direction.o smtbx/refinement/constraints/boost_python/geometrical_hydrogens.o smtbx/refinement/constraints/boost_python/independent_scalar_parameters.o smtbx/refinement/constraints/boost_python/occupancy.o smtbx/refinement/constraints/boost_python/reparametrisation.o smtbx/refinement/constraints/boost_python/rigid.o smtbx/refinement/constraints/boost_python/same_group.o smtbx/refinement/constraints/boost_python/scaled_adp.o smtbx/refinement/constraints/boost_python/scatterer_parameters.o smtbx/refinement/constraints/boost_python/shared.o smtbx/refinement/constraints/boost_python/special_position.o smtbx/refinement/constraints/boost_python/symmetry_equivalent.o smtbx/refinement/constraints/boost_python/u_eq_dependent_u_iso.o smtbx/refinement/constraints/boost_python/u_iso_dependent_u_iso.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -35823,10 +35847,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/fftpack/timing/test0.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/timing/test0.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/array_family/tst_unsigned_float_arithmetic -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_unsigned_float_arithmetic.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/error/tst_error -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/error/tst_error.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -35858,9 +35879,19 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/lbfgs/sdrive_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable scitbx/lbfgs/sdrive_fem.cpp +g++ -o scitbx/error/tst_error.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/error -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error/tst_error.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/lbfgs/tst_lbfgs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgs/tst_lbfgs.cpp +g++ -o scitbx/array_family/tst_optional_copy -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_optional_copy.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/fftpack/timing/fftpack_timer.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/timing/fftpack_timer.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_ref_matrix_facet -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_ref_matrix_facet.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +Create symlinks for: 'lib/smtbx_refinement_constraints_ext.so.0.0.1' + 'lib/smtbx_refinement_constraints_ext.so.0'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' + 'lib/smtbx_refinement_constraints_ext.so'->'lib/smtbx_refinement_constraints_ext.so.0.0.1' +g++ -o scitbx/fftpack/timing/test0.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/timing/test0.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o lib/spotfinder_dxtbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_dxtbx_ext.so.0 spotfinder/dxtbx_toolbox/ext.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -ldxtbxspotfinder -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o scitbx/lbfgs/sdrive_fem.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable scitbx/lbfgs/sdrive_fem.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, @@ -35928,7 +35959,14 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/fftpack/factorization.h:67:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::tiny_plain::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 67 | for (i = 0; i < opt_factors.size(); i++) { | ~~^~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_ref_matrix_facet -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_ref_matrix_facet.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/error/tst_error -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/error/tst_error.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +Create symlinks for: 'lib/spotfinder_dxtbx_ext.so.0.0.1' + 'lib/spotfinder_dxtbx_ext.so.0'->'lib/spotfinder_dxtbx_ext.so.0.0.1' + 'lib/spotfinder_dxtbx_ext.so'->'lib/spotfinder_dxtbx_ext.so.0.0.1' +g++ -o scitbx/lbfgs/tst_lbfgs.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgs/tst_lbfgs.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/lbfgsb/dev/driver1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver1.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:4, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny.h:4, @@ -35963,6 +36001,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +g++ -o scitbx/array_family/tst_sym_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_sym_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -36048,7 +36087,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/lbfgsb/dev/driver1.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver1.cpp +g++ -o scitbx/lbfgsb/dev/driver2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver2.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/io.hpp:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/close_chain.hpp:4, @@ -36062,32 +36101,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/simple_streams.hpp:63:13: warning: comparison of integer expressions of different signedness: ‘fem::ssize_t’ {aka ‘long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 63 | if (i < sz) s[i++] = c; | ~~^~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { - | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:9: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] - 115 | if (dexp <= ad_hoc_limits::max_digit_count) { - | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] - 653 | if (iw+1 != ed.size()) { - | ~~~~~^~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/variant.hpp:5, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:7: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp: In member function ‘void fem::utils::equivalence::array_alignment::infer_diffs0_from_diff_matrix()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/equivalence.hpp:93:28: warning: comparison of integer expressions of different signedness: ‘const fem::ssize_t’ {aka ‘const long int’} and ‘fem::size_t’ {aka ‘long unsigned int’} [-Wsign-compare] - 93 | if (c0e[0] == i0) { - | ~~~~~~~^~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/major_types.hpp:8: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp: In destructor ‘fem::write_loop::~write_loop()’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/write.hpp:704:24: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] - 704 | while (pos < internal_file_len) { - | ~~~~^~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_vec3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_vec3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:6, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver1.cpp:1: @@ -36117,8 +36130,7 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/lbfgsb/dev/driver2.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver2.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/array_family/tst_vec3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_vec3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -36145,7 +36157,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/array_family/tst_sym_mat3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_sym_mat3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, from /usr/include/boost/smart_ptr/scoped_array.hpp:13, from /usr/include/boost/scoped_array.hpp:13, @@ -36154,6 +36165,10 @@ /usr/include/boost/timer.hpp:25:1: note: ‘#pragma message: This header is deprecated. Use the facilities in instead.’ 25 | BOOST_HEADER_DEPRECATED( "the facilities in " ) | ^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp: In member function ‘void fem::common::getarg(int, fem::str_ref) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/common.hpp:40:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 40 | if (pos < 0 || pos >= command_line_args.buffer.size()) { + | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h: In member function ‘ElementType& scitbx::af::shared_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -36180,6 +36195,16 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double_fmt.hpp:4, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:9: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp: In member function ‘void fem::utils::string_to_double::convert(fem::utils::simple_istream&, unsigned int, int)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/utils/string_to_double.hpp:115:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] + 115 | if (dexp <= ad_hoc_limits::max_digit_count) { + | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp: In member function ‘double fem::read_loop::read_fmt_double()’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/fable/fem/read.hpp:653:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] + 653 | if (iw+1 != ed.size()) { + | ~~~~~^~~~~~~~~~~~ In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/error.h:16, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/serialization/base_256.h:2, from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/floating_point_epsilon.h:4, @@ -36239,8 +36264,18 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:188:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | for(int j=0;j::at(size_type) const’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 65 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -36271,8 +36305,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/math/tests/tst.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/math/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/tests/tst.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -36333,35 +36365,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/shared_plain.h:277:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 277 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(shared_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:6, - from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver3.cpp:1: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 62 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ - 65 | if (i >= sz) throw_range_error(); return beg[i]; \ - | ^~~~~~ -/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ - 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h: In instantiation of ‘void scitbx::lbfgsb::raw::write_ref1(const std::string&, const ref1&, const char*) [with ElementType = double; std::string = std::__cxx11::basic_string]’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver2.cpp:102:19: required from here /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:184:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘scitbx::af::const_ref::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] @@ -36417,6 +36420,35 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ +In file included from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/ref.h:8, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:6, + from /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/dev/driver3.cpp:1: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘ElementType& scitbx::af::tiny_plain::at(size_type)’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 62 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h: In member function ‘const ElementType& scitbx::af::tiny_plain::at(size_type) const’: +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:65:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ + 65 | if (i >= sz) throw_range_error(); return beg[i]; \ + | ^~~~~~ +/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/tiny_plain.h:48:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ + 48 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(tiny_plain, elems, N) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h: In member function ‘ElementType& scitbx::af::small_plain::at(size_type)’: /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/detail/ref_helpers.h:62:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 62 | if (i >= sz) throw_range_error(); return beg[i]; \ @@ -36443,8 +36475,6 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/array_family/small_plain.h:107:7: note: in expansion of macro ‘SCITBX_ARRAY_FAMILY_BEGIN_END_ETC’ 107 | SCITBX_ARRAY_FAMILY_BEGIN_END_ETC(small_plain, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -g++ -o scitbx/matrix/tests/tst_cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests/tst_cholesky.cpp -cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ In file included from /usr/include/boost/smart_ptr/detail/requires_cxx11.hpp:9, from /usr/include/boost/smart_ptr/scoped_array.hpp:13, from /usr/include/boost/scoped_array.hpp:13, @@ -36534,57 +36564,63 @@ /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/lbfgsb/raw.h:3675:5: note: in expansion of macro ‘SCITBX_ASSERT’ 3675 | SCITBX_ASSERT(g.size() == n); | ^~~~~~~~~~~~~ +g++ -o scitbx/lbfgs/sdrive_fem -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgs/sdrive_fem.o scitbx/lbfgs/lbfgs_fem.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm +g++ -o scitbx/math/tests/tst.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/math/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/math/tests/tst.cpp +g++ -o scitbx/lbfgs/tst_lbfgs -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgs/tst_lbfgs.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/matrix/tests/tst_cholesky.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests/tst_cholesky.cpp +cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/fftpack/timing/fftpack_timer -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/fftpack_timer.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lomptbx -lm g++ -o scitbx/matrix/tests/tst_givens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests/tst_givens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/math/tests/tst -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/math/tests/tst.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/lbfgsb/dev/driver3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o scitbx/matrix/tests/tst_householder.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests/tst_householder.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/fftpack/timing/test0 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/test0.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lomptbx -lm -g++ -o scitbx/lbfgsb/dev/driver1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o scitbx/matrix/tests/tst_svd.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/matrix/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/matrix/tests/tst_svd.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/lbfgsb/dev/driver1 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver1.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm +g++ -o scitbx/fftpack/timing/test0 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/fftpack/timing/test0.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -lomptbx -lm g++ -o scitbx/serialization/tst_base_256.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -Wall -Wno-unknown-pragmas -Wno-parentheses -Winit-self -Wno-unused-local-typedefs -Werror=vla -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/serialization -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/serialization /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/serialization/tst_base_256.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/matrix/tests/tst_givens -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_givens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/lbfgsb/dev/driver2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm -g++ -o scitbx/lbfgsb/dev/driver3 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver3.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o scitbx/sparse/tests/tst_sparse.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Iscitbx/sparse/tests -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/tests /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/scitbx/sparse/tests/tst_sparse.cpp +g++ -o scitbx/matrix/tests/tst_givens -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_givens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ +g++ -o scitbx/lbfgsb/dev/driver2 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/lbfgsb/dev/driver2.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/tests/tst_reparametrisation.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ g++ -o scitbx/serialization/tst_base_256 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/serialization/tst_base_256.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o smtbx/refinement/constraints/tests/tst_special_position.o -c -g -O2 -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -I/usr/include/hdf5/serial -DBOOST_TIMER_ENABLE_DEPRECATED=1 -std=c++14 -pthread -fPIC -fno-strict-aliasing -w -g -O0 -fno-inline -DBOOST_ALL_NO_LIB -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build_/include -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 -I/usr/include -Ismtbx/refinement/constraints -I/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints /build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/smtbx/refinement/constraints/tests/tst_special_position.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ -g++ -o scitbx/matrix/tests/tst_cholesky -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_cholesky.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system -g++ -o scitbx/matrix/tests/tst_svd -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_svd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o lib/spotfinder_distltbx_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_distltbx_ext.so.0 spotfinder/core_toolbox/boost_python/distltbx_ext.o spotfinder/diffraction/geometry.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/spotfinder_distltbx_ext.so.0.0.1' 'lib/spotfinder_distltbx_ext.so.0'->'lib/spotfinder_distltbx_ext.so.0.0.1' 'lib/spotfinder_distltbx_ext.so'->'lib/spotfinder_distltbx_ext.so.0.0.1' -g++ -o scitbx/matrix/tests/tst_householder -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_householder.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/matrix/tests/tst_cholesky -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_cholesky.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o scitbx/matrix/tests/tst_svd -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_svd.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o lib/smtbx_structure_factors_direct_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_structure_factors_direct_ext.so.0 smtbx/structure_factors/direct/boost_python/ext.o smtbx/structure_factors/direct/boost_python/standard_xray.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm +Create symlinks for: 'lib/smtbx_structure_factors_direct_ext.so.0.0.1' + 'lib/smtbx_structure_factors_direct_ext.so.0'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' + 'lib/smtbx_structure_factors_direct_ext.so'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' g++ -o scitbx/sparse/tests/tst_sparse -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/sparse/tests/tst_sparse.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system g++ -o lib/smtbx_refinement_least_squares_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_refinement_least_squares_ext.so.0 smtbx/refinement/boost_python/least_squares_ext.o smtbx/refinement/boost_python/weighting_schemes.o smtbx/refinement/boost_python/least_squares.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lsmtbx_refinement_constraints -lscitbx_boost_python -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm +g++ -o scitbx/matrix/tests/tst_householder -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/matrix/tests/tst_householder.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lboost_thread -lboost_system +g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_reparametrisation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system Create symlinks for: 'lib/smtbx_refinement_least_squares_ext.so.0.0.1' 'lib/smtbx_refinement_least_squares_ext.so.0'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' 'lib/smtbx_refinement_least_squares_ext.so'->'lib/smtbx_refinement_least_squares_ext.so.0.0.1' g++ -o smtbx/refinement/constraints/tests/tst_special_position -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_special_position.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system g++ -o smtbx/refinement/constraints/tests/tst_geometrical_hydrogens -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_geometrical_hydrogens.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system -g++ -o lib/smtbx_structure_factors_direct_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=smtbx_structure_factors_direct_ext.so.0 smtbx/structure_factors/direct/boost_python/ext.o smtbx/structure_factors/direct/boost_python/standard_xray.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lboost_thread -lboost_system -lboost_python311 -lm -g++ -o smtbx/refinement/constraints/tests/tst_reparametrisation -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread smtbx/refinement/constraints/tests/tst_reparametrisation.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lcctbx -lsmtbx_refinement_constraints -lboost_thread -lboost_system -Create symlinks for: 'lib/smtbx_structure_factors_direct_ext.so.0.0.1' - 'lib/smtbx_structure_factors_direct_ext.so.0'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' - 'lib/smtbx_structure_factors_direct_ext.so'->'lib/smtbx_structure_factors_direct_ext.so.0.0.1' -g++ -o scitbx/array_family/tst_af_4 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_4.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm g++ -o lib/spotfinder_array_family_flex_ext.so.0.0.1 -shared -rdynamic -std=c++14 -Wl,-soname=spotfinder_array_family_flex_ext.so.0 spotfinder/array_family/flex_ext.o spotfinder/array_family/flex_distl_spot.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lspotfinder -lomptbx -lscitbx_boost_python -lboost_thread -lboost_system -lboost_python311 -lm Create symlinks for: 'lib/spotfinder_array_family_flex_ext.so.0.0.1' 'lib/spotfinder_array_family_flex_ext.so.0'->'lib/spotfinder_array_family_flex_ext.so.0.0.1' 'lib/spotfinder_array_family_flex_ext.so'->'lib/spotfinder_array_family_flex_ext.so.0.0.1' +g++ -o scitbx/array_family/tst_af_4 -rdynamic -Wl,-z,relro -L/usr/lib/aarch64-linux-gnu/hdf5/serial -lhdf5 -std=c++14 -pthread scitbx/array_family/tst_af_4.o -L/usr/lib -L/usr/lib64 -L/usr/lib/aarch64-linux-gnu -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -Llib -L/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/lib -lm scons: done building targets. -usr+sys time: 35.73 seconds -wall clock time: 8 minutes 57.06 seconds (537.06 seconds total) +usr+sys time: 36.71 seconds +wall clock time: 20 minutes 13.09 seconds (1213.09 seconds total) iconv -f ISO-8859-1 -t UTF-8 cctbx/eltbx/covalent_radii.h > covalent_radii.h mv covalent_radii.h cctbx/eltbx/covalent_radii.h # cp all extensions into the python build directory @@ -67283,11 +67319,11 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/phenix.pdb.biomt_reconstruction"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../iotbx/command_line/biomt_reconstruction.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/gltbx.try_imports"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../gltbx/command_line/try_imports.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/phenix.xtriage"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../mmtbx/command_line/xtriage.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/mmtbx.xtriage"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../mmtbx/command_line/xtriage.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/mmtbx.verify_mon_lib_data"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../mmtbx/command_line/verify_mon_lib_data.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/mmtbx.water_b_factors"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../mmtbx/command_line/water_b_factors.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/mmtbx.water_screen"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../mmtbx/command_line/water_screen.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/phenix.xmanip"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../mmtbx/command_line/xmanip.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/mmtbx.xtriage"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../mmtbx/command_line/xtriage.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/mmtbx.validation_summary"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../mmtbx/command_line/validation_summary.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/mmtbx.validate_waters"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../mmtbx/command_line/validate_waters.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/mmtbx.validate_ligands"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../mmtbx/command_line/validate_ligands.py"), @@ -67562,7 +67598,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin/wxtbx.show_dist_paths"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../libtbx/command_line/show_dist_paths.py")}, 'bin_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="bin"), 'boost_version': 108300, - 'build_options': , + 'build_options': , 'build_path': absolute_path("/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12"), 'command_line_redirections': {}, 'command_version_suffix': None, @@ -67599,30 +67635,30 @@ 'lib_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="lib"), 'missing_for_build': set(), 'missing_for_use': set(), - 'missing_optional': {'reduce', 'docutils', 'king', 'probe', 'cbflib'}, - 'module_dict': {'annlib': , - 'boost': , - 'cbflib': , - 'ccp4io': , - 'cctbx': , - 'chiltbx': , - 'cma_es': , - 'crys3d': , - 'dxtbx': , - 'fable': , - 'gltbx': , - 'iotbx': , - 'libtbx': , - 'mmtbx': , - 'omptbx': , - 'rstbx': , - 'scitbx': , - 'serialtbx': , - 'smtbx': , - 'spotfinder': , - 'tbxx': , - 'ucif': , - 'wxtbx': }, + 'missing_optional': {'probe', 'docutils', 'king', 'cbflib', 'reduce'}, + 'module_dict': {'annlib': , + 'boost': , + 'cbflib': , + 'ccp4io': , + 'cctbx': , + 'chiltbx': , + 'cma_es': , + 'crys3d': , + 'dxtbx': , + 'fable': , + 'gltbx': , + 'iotbx': , + 'libtbx': , + 'mmtbx': , + 'omptbx': , + 'rstbx': , + 'scitbx': , + 'serialtbx': , + 'smtbx': , + 'spotfinder': , + 'tbxx': , + 'ucif': , + 'wxtbx': }, 'module_dist_paths': {'annlib': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../annlib"), 'annlib_adaptbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../annlib_adaptbx"), 'boost': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../boost"), @@ -67649,29 +67685,29 @@ 'tbxx': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../tbxx"), 'ucif': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../ucif"), 'wxtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../wxtbx")}, - 'module_list': [, - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - ], + 'module_list': [, + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + ], 'no_bin_python': False, 'path_utility': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="../../../libtbx/command_line/path_utility.py"), 'python_exe': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.12", relocatable="/usr/bin/python3.12"), @@ -67691,7 +67727,13 @@ {'_dispatcher_include_at_start': [], '_dispatcher_include_before_command': [], '_dispatcher_precall_commands': None, - '_dispatcher_registry': {relocatable_path(anchor="/usr", relocatable="bin/phenix.data_viewer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/hklview.py"), + '_dispatcher_registry': {relocatable_path(anchor="/usr", relocatable="bin/phenix.HKLinfo"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/HKLinfo.py"), + relocatable_path(anchor="/usr", relocatable="bin/phasertng.HKLviewer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/HKLviewer.py"), + relocatable_path(anchor="/usr", relocatable="bin/cctbx.HKLviewer"): relocatable_path(anchor="/usr", 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relocatable_path(anchor="/usr", relocatable="bin/phenix.cc_star"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cc_star.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.cdl_lookup"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cdl_lookup.py"), - relocatable_path(anchor="/usr", relocatable="bin/molprobity.chiral_validation"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/chiral_validation.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.chains_as_models"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/chains_as_models.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.cbetadev"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cbetadev.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.cablam_idealization"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cablam_idealization.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.barbed_wire_analysis"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/barbed_wire_analysis.py"), + relocatable_path(anchor="/usr", relocatable="bin/molprobity.chiral_validation"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/chiral_validation.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.chiral_validation"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/chiral_validation.py"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.cif_as_mtz"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cif_as_mtz.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.cif_as_mtz"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cif_as_mtz.py"), @@ -68211,17 +68254,10 @@ relocatable_path(anchor="/usr", relocatable="bin/phenix.pdb_interpretation"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/pdb_interpretation.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.pdb_view_ad_hoc"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/pdb_view_ad_hoc.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.pdbtools"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/pdbtools.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.perigee"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/perigee.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.plan_sad_experiment"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/plan_sad_experiment.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.polder"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/polder.py"), - relocatable_path(anchor="/usr", relocatable="bin/mmtbx.prepare_pdb_deposition"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/prepare_pdb_deposition.py"), - relocatable_path(anchor="/usr", relocatable="bin/mmtbx.probe2"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/probe2.py"), - relocatable_path(anchor="/usr", relocatable="bin/molprobity.probescore_ligand"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/probescore_ligand.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.process_predicted_model"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/process_predicted_model.py"), - relocatable_path(anchor="/usr", relocatable="bin/wxtbx.plan_sad_experiment"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/plan_sad_experiment.py")}, + relocatable_path(anchor="/usr", relocatable="bin/phenix.perigee"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/perigee.py")}, 'bin_path': relocatable_path(anchor="/usr", relocatable="bin"), 'boost_version': 108300, - 'build_options': , + 'build_options': , 'build_path': absolute_path("/usr/lib/cctbx/python3.12"), 'command_line_redirections': {}, 'command_version_suffix': None, @@ -68258,30 +68294,30 @@ 'lib_path': relocatable_path(anchor="/usr", relocatable="lib"), 'missing_for_build': set(), 'missing_for_use': set(), - 'missing_optional': {'reduce', 'docutils', 'king', 'probe', 'cbflib'}, - 'module_dict': {'annlib': , - 'boost': , - 'cbflib': , - 'ccp4io': , - 'cctbx': , - 'chiltbx': , - 'cma_es': , - 'crys3d': , - 'dxtbx': , - 'fable': , - 'gltbx': , - 'iotbx': , - 'libtbx': , - 'mmtbx': , - 'omptbx': , - 'rstbx': , - 'scitbx': , - 'serialtbx': , - 'smtbx': , - 'spotfinder': , - 'tbxx': , - 'ucif': , - 'wxtbx': }, + 'missing_optional': {'probe', 'docutils', 'king', 'cbflib', 'reduce'}, + 'module_dict': {'annlib': , + 'boost': , + 'cbflib': , + 'ccp4io': , + 'cctbx': , + 'chiltbx': , + 'cma_es': , + 'crys3d': , + 'dxtbx': , + 'fable': , + 'gltbx': , + 'iotbx': , + 'libtbx': , + 'mmtbx': , + 'omptbx': , + 'rstbx': , + 'scitbx': , + 'serialtbx': , + 'smtbx': , + 'spotfinder': , + 'tbxx': , + 'ucif': , + 'wxtbx': }, 'module_dist_paths': {'annlib': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/annlib"), 'annlib_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/annlib_adaptbx"), 'boost': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/boost"), @@ -68308,29 +68344,29 @@ 'tbxx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/tbxx"), 'ucif': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/ucif"), 'wxtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx")}, - 'module_list': [, - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - ], + 'module_list': [, + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + ], 'no_bin_python': True, 'path_utility': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/path_utility.py"), 'python_exe': relocatable_path(anchor="/usr", relocatable="bin/python3.12"), @@ -68385,7 +68421,7 @@ smtbx/refinement/constraints/tests/tst_reparametrisation smtbx/refinement/constraints/tests/tst_special_position -sent 17,035,149 bytes received 568 bytes 34,071,434.00 bytes/sec +sent 17,035,203 bytes received 568 bytes 34,071,542.00 bytes/sec total size is 17,023,336 speedup is 1.00 building file list ... done ./ @@ -68447,13 +68483,13 @@ libspotfinder.so.0 -> libspotfinder.so.0.0.1 libspotfinder.so.0.0.1 -sent 58,608,843 bytes received 494 bytes 117,218,674.00 bytes/sec +sent 58,608,871 bytes received 494 bytes 16,745,532.86 bytes/sec total size is 58,592,258 speedup is 1.00 building file list ... done annlib_adaptbx/ annlib_adaptbx/ann_adaptor.h -sent 2,234 bytes received 38 bytes 4,544.00 bytes/sec +sent 2,232 bytes received 38 bytes 4,540.00 bytes/sec total size is 2,068 speedup is 0.91 building file list ... done boost_adaptbx/ @@ -68479,7 +68515,7 @@ boost_adaptbx/tests/ boost_adaptbx/tests/tst_optional_copy.h -sent 73,854 bytes received 386 bytes 148,480.00 bytes/sec +sent 73,856 bytes received 386 bytes 148,484.00 bytes/sec total size is 72,301 speedup is 0.97 building file list ... done cbflib_adaptbx/ @@ -68493,7 +68529,7 @@ cbflib_adaptbx/detectors/boost_python/cbf_binary_adaptor.h cbflib_adaptbx/detectors/boost_python/general_cbf_write.h -sent 22,345 bytes received 158 bytes 45,006.00 bytes/sec +sent 22,339 bytes received 158 bytes 44,994.00 bytes/sec total size is 21,656 speedup is 0.96 building file list ... done ccp4io_adaptbx/ @@ -68515,7 +68551,7 @@ ccp4io_adaptbx/dev/ ccp4io_adaptbx/dev/fftlib.hpp -sent 87,920 bytes received 326 bytes 176,492.00 bytes/sec +sent 87,936 bytes received 326 bytes 176,524.00 bytes/sec total size is 86,683 speedup is 0.98 building file list ... done cctbx/ @@ -68775,7 +68811,7 @@ cctbx/xray/targets/mli.h cctbx/xray/targets/shelxl_wght_ls.hpp -sent 1,903,900 bytes received 4,420 bytes 3,816,640.00 bytes/sec +sent 1,903,922 bytes received 4,420 bytes 3,816,684.00 bytes/sec total size is 1,887,271 speedup is 0.99 building file list ... done cma_es/ @@ -68783,7 +68819,7 @@ cma_es/cma/cmaes.h cma_es/cma/cmaes_interface.h -sent 6,892 bytes received 60 bytes 13,904.00 bytes/sec +sent 6,888 bytes received 60 bytes 13,896.00 bytes/sec total size is 6,671 speedup is 0.96 building file list ... done @@ -68829,7 +68865,7 @@ dxtbx/model/boost_python/pickle_suite.h dxtbx/model/boost_python/to_from_dict.h -sent 379,938 bytes received 610 bytes 761,096.00 bytes/sec +sent 379,933 bytes received 610 bytes 761,086.00 bytes/sec total size is 377,522 speedup is 0.99 building file list ... done ./ @@ -68883,7 +68919,7 @@ fem/utils/string_to_double_fmt.hpp fem/utils/token.hpp -sent 203,947 bytes received 918 bytes 409,730.00 bytes/sec +sent 203,951 bytes received 918 bytes 409,738.00 bytes/sec total size is 200,764 speedup is 0.98 building file list ... done gltbx/ @@ -68940,11 +68976,11 @@ iotbx/xplor/map_reader.h iotbx/xplor/map_writer.h -sent 269,520 bytes received 629 bytes 540,298.00 bytes/sec +sent 269,516 bytes received 629 bytes 540,290.00 bytes/sec total size is 266,716 speedup is 0.99 building file list ... done -sent 466 bytes received 12 bytes 956.00 bytes/sec +sent 489 bytes received 12 bytes 1,002.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done mmtbx/ @@ -69039,7 +69075,7 @@ mmtbx/validation/ramachandran/rama8000_tables.h mmtbx/validation/ramachandran/rama_eval.h -sent 2,050,508 bytes received 1,313 bytes 4,103,642.00 bytes/sec +sent 2,050,504 bytes received 1,313 bytes 4,103,634.00 bytes/sec total size is 2,044,213 speedup is 1.00 building file list ... done omptbx/ @@ -69083,7 +69119,7 @@ rstbx/symmetry/constraints/ rstbx/symmetry/constraints/a_g_conversion.h -sent 111,337 bytes received 400 bytes 223,474.00 bytes/sec +sent 111,333 bytes received 400 bytes 223,466.00 bytes/sec total size is 109,476 speedup is 0.98 building file list ... done scitbx/ @@ -69406,7 +69442,7 @@ scitbx/wigner/ scitbx/wigner/wigner3j.h -sent 1,904,798 bytes received 5,521 bytes 3,820,638.00 bytes/sec +sent 1,904,810 bytes received 5,521 bytes 1,273,554.00 bytes/sec total size is 1,885,050 speedup is 0.99 building file list ... done @@ -69446,7 +69482,7 @@ smtbx/structure_factors/direct/standard_xray.h smtbx/structure_factors/direct/table_based.h -sent 182,123 bytes received 512 bytes 365,270.00 bytes/sec +sent 182,137 bytes received 512 bytes 365,298.00 bytes/sec total size is 179,686 speedup is 0.98 building file list ... done spotfinder/ @@ -69465,7 +69501,7 @@ spotfinder/dxtbx_toolbox/distl.h spotfinder/dxtbx_toolbox/libdistl.h -sent 42,937 bytes received 221 bytes 86,316.00 bytes/sec +sent 42,933 bytes received 221 bytes 86,308.00 bytes/sec total size is 41,966 speedup is 0.97 building file list ... done tbxx/ @@ -69476,7 +69512,7 @@ tbxx/pretty_type_name.hpp tbxx/time_accu.hpp -sent 12,031 bytes received 133 bytes 24,328.00 bytes/sec +sent 12,027 bytes received 133 bytes 24,320.00 bytes/sec total size is 11,532 speedup is 0.95 building file list ... done @@ -69486,6 +69522,7 @@ ./ boost_adaptbx/ boost_adaptbx/type_id_eq.h +cctbx/ cctbx/boost_python/ cctbx/boost_python/flex_fwd.h scitbx/ @@ -69515,38 +69552,39 @@ scitbx/array_family/detail/ scitbx/array_family/detail/operator_functors.h scitbx/array_family/detail/std_imports.h +smtbx/ smtbx/boost_python/ smtbx/boost_python/flex_fwd.h -sent 347,278 bytes received 534 bytes 695,624.00 bytes/sec +sent 347,315 bytes received 540 bytes 695,710.00 bytes/sec total size is 345,070 speedup is 0.99 building file list ... done -sent 256 bytes received 12 bytes 178.67 bytes/sec +sent 248 bytes received 12 bytes 520.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done boost_adaptbx/ boost_adaptbx/command_line/ -sent 519 bytes received 22 bytes 1,082.00 bytes/sec -total size is 6,883 speedup is 12.72 +sent 558 bytes received 55 bytes 1,226.00 bytes/sec +total size is 6,883 speedup is 11.23 building file list ... done cbflib_adaptbx/ cbflib_adaptbx/command_line/ -sent 230 bytes received 22 bytes 504.00 bytes/sec -total size is 1,215 speedup is 4.82 +sent 234 bytes received 28 bytes 524.00 bytes/sec +total size is 1,215 speedup is 4.64 building file list ... done -sent 145 bytes received 12 bytes 314.00 bytes/sec +sent 149 bytes received 12 bytes 322.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done cctbx/ cctbx/command_line/ cctbx/command_line/web.install.csh -sent 2,997 bytes received 41 bytes 6,076.00 bytes/sec -total size is 39,547 speedup is 13.02 +sent 3,078 bytes received 101 bytes 6,358.00 bytes/sec +total size is 39,547 speedup is 12.44 building file list ... done sent 87 bytes received 12 bytes 198.00 bytes/sec @@ -69555,32 +69593,32 @@ crys3d/ crys3d/command_line/ -sent 468 bytes received 22 bytes 980.00 bytes/sec -total size is 31,515 speedup is 64.32 +sent 494 bytes received 52 bytes 1,092.00 bytes/sec +total size is 31,515 speedup is 57.72 building file list ... done dxtbx/ dxtbx/command_line/ -sent 829 bytes received 22 bytes 1,702.00 bytes/sec -total size is 81,902 speedup is 96.24 +sent 881 bytes received 79 bytes 1,920.00 bytes/sec +total size is 81,902 speedup is 85.31 building file list ... done fable/ fable/command_line/ -sent 455 bytes received 22 bytes 954.00 bytes/sec -total size is 15,542 speedup is 32.58 +sent 480 bytes received 43 bytes 1,046.00 bytes/sec +total size is 15,542 speedup is 29.72 building file list ... done gltbx/ gltbx/command_line/ -sent 181 bytes received 22 bytes 406.00 bytes/sec -total size is 606 speedup is 2.99 +sent 195 bytes received 28 bytes 446.00 bytes/sec +total size is 606 speedup is 2.72 building file list ... done iotbx/ iotbx/command_line/ -sent 2,634 bytes received 22 bytes 5,312.00 bytes/sec -total size is 217,626 speedup is 81.94 +sent 2,852 bytes received 244 bytes 6,192.00 bytes/sec +total size is 217,626 speedup is 70.29 building file list ... done libtbx/ libtbx/command_line/ @@ -69601,8 +69639,8 @@ libtbx/command_line/unpack_in_sources.csh libtbx/command_line/valgrind.sh -sent 6,823 bytes received 329 bytes 14,304.00 bytes/sec -total size is 156,446 speedup is 21.87 +sent 7,114 bytes received 605 bytes 5,146.00 bytes/sec +total size is 156,446 speedup is 20.27 building file list ... done mmtbx/ mmtbx/command_line/ @@ -69610,8 +69648,8 @@ mmtbx/regression/command_line/ mmtbx/regression/command_line/tst_find_residue_in_pdb.py -sent 5,245 bytes received 51 bytes 10,592.00 bytes/sec -total size is 805,446 speedup is 152.09 +sent 5,672 bytes received 486 bytes 12,316.00 bytes/sec +total size is 805,446 speedup is 130.80 building file list ... done sent 76 bytes received 12 bytes 176.00 bytes/sec @@ -69620,8 +69658,8 @@ rstbx/ rstbx/command_line/ -sent 755 bytes received 22 bytes 1,554.00 bytes/sec -total size is 11,108 speedup is 14.30 +sent 778 bytes received 49 bytes 1,654.00 bytes/sec +total size is 11,108 speedup is 13.43 building file list ... done scitbx/ scitbx/command_line/ @@ -69632,7 +69670,7 @@ scitbx/command_line/show_sizes.py scitbx/command_line/unicode_examples.py -sent 11,687 bytes received 136 bytes 23,646.00 bytes/sec +sent 11,715 bytes received 136 bytes 23,702.00 bytes/sec total size is 9,958 speedup is 0.84 building file list ... done @@ -69642,14 +69680,14 @@ smtbx/ smtbx/command_line/ -sent 878 bytes received 22 bytes 1,800.00 bytes/sec -total size is 37,436 speedup is 41.60 +sent 910 bytes received 40 bytes 1,900.00 bytes/sec +total size is 37,436 speedup is 39.41 building file list ... done spotfinder/ spotfinder/command_line/ -sent 518 bytes received 22 bytes 1,080.00 bytes/sec -total size is 22,750 speedup is 42.13 +sent 539 bytes received 43 bytes 1,164.00 bytes/sec +total size is 22,750 speedup is 39.09 building file list ... done sent 87 bytes received 12 bytes 198.00 bytes/sec @@ -69658,11 +69696,11 @@ wxtbx/ wxtbx/command_line/ -sent 453 bytes received 22 bytes 950.00 bytes/sec -total size is 16,078 speedup is 33.85 +sent 485 bytes received 58 bytes 1,086.00 bytes/sec +total size is 16,078 speedup is 29.61 building file list ... done -sent 256 bytes received 12 bytes 536.00 bytes/sec +sent 248 bytes received 12 bytes 520.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done boost_adaptbx/graph/ @@ -69695,21 +69733,21 @@ boost_adaptbx/tests/tst_swig_args.py boost_adaptbx/tests/tst_tuple.py -sent 91,618 bytes received 515 bytes 184,266.00 bytes/sec +sent 91,628 bytes received 515 bytes 184,286.00 bytes/sec total size is 89,657 speedup is 0.97 building file list ... done cbflib_adaptbx/detectors/ cbflib_adaptbx/detectors/tst_memory.cpp -sent 1,213 bytes received 34 bytes 2,494.00 bytes/sec +sent 1,211 bytes received 34 bytes 2,490.00 bytes/sec total size is 967 speedup is 0.78 building file list ... done ccp4io_adaptbx/ ccp4io_adaptbx/dev/ ccp4io_adaptbx/dev/tst_fftlib.py -sent 7,594 bytes received 44 bytes 15,276.00 bytes/sec -total size is 9,205 speedup is 1.21 +sent 7,596 bytes received 44 bytes 15,280.00 bytes/sec +total size is 9,205 speedup is 1.20 building file list ... done cctbx/adp_restraints/ cctbx/adptbx/ @@ -69797,21 +69835,21 @@ cctbx/xray/observations/ cctbx/xray/targets/ -sent 435,597 bytes received 879 bytes 872,952.00 bytes/sec -total size is 2,034,432 speedup is 4.66 +sent 435,990 bytes received 1,251 bytes 874,482.00 bytes/sec +total size is 2,034,432 speedup is 4.65 building file list ... done cma_es/ -sent 118 bytes received 19 bytes 274.00 bytes/sec -total size is 3,008 speedup is 21.96 +sent 121 bytes received 22 bytes 286.00 bytes/sec +total size is 3,008 speedup is 21.03 building file list ... done crys3d/regression/ -sent 355 bytes received 15 bytes 740.00 bytes/sec -total size is 41,841 speedup is 113.08 +sent 373 bytes received 33 bytes 812.00 bytes/sec +total size is 41,841 speedup is 103.06 building file list ... done -sent 634 bytes received 12 bytes 1,292.00 bytes/sec +sent 647 bytes received 12 bytes 439.33 bytes/sec total size is 0 speedup is 0.00 building file list ... done fable/test/ @@ -69820,12 +69858,12 @@ fable/test/tst_separate_files.py fable/test/tst_show_calls.py -sent 12,829 bytes received 91 bytes 25,840.00 bytes/sec -total size is 151,847 speedup is 11.75 +sent 12,848 bytes received 106 bytes 25,908.00 bytes/sec +total size is 151,847 speedup is 11.72 building file list ... done -sent 210 bytes received 12 bytes 444.00 bytes/sec -total size is 8,108 speedup is 36.52 +sent 226 bytes received 24 bytes 500.00 bytes/sec +total size is 8,108 speedup is 32.43 building file list ... done iotbx/bioinformatics/ iotbx/bioinformatics/test/ @@ -69873,14 +69911,14 @@ iotbx/xds/tests/tst_xparm.py iotbx/xplor/ -sent 264,585 bytes received 499 bytes 530,168.00 bytes/sec -total size is 2,334,818 speedup is 8.81 +sent 264,969 bytes received 883 bytes 531,704.00 bytes/sec +total size is 2,334,818 speedup is 8.78 building file list ... done libtbx/phil/ libtbx/queuing_system_utils/ -sent 1,101 bytes received 18 bytes 2,238.00 bytes/sec -total size is 243,381 speedup is 217.50 +sent 1,199 bytes received 105 bytes 2,608.00 bytes/sec +total size is 243,381 speedup is 186.64 building file list ... done mmtbx/atomic_environment_vectors/ mmtbx/building/ @@ -69969,13 +70007,13 @@ mmtbx/validation/regression/ mmtbx/wwpdb/ -sent 747,706 bytes received 854 bytes 1,497,120.00 bytes/sec -total size is 6,530,029 speedup is 8.72 +sent 748,777 bytes received 1,925 bytes 1,501,404.00 bytes/sec +total size is 6,530,029 speedup is 8.70 building file list ... done omptbx/ -sent 97 bytes received 19 bytes 232.00 bytes/sec -total size is 1,175 speedup is 10.13 +sent 100 bytes received 22 bytes 244.00 bytes/sec +total size is 1,175 speedup is 9.63 building file list ... done rstbx/bpcx/ rstbx/bpcx/detector_model/ @@ -69989,8 +70027,8 @@ rstbx/sublattice_support/ rstbx/viewer/ -sent 1,007 bytes received 45 bytes 2,104.00 bytes/sec -total size is 179,407 speedup is 170.54 +sent 1,049 bytes received 87 bytes 2,272.00 bytes/sec +total size is 179,407 speedup is 157.93 building file list ... done scitbx/array_family/ scitbx/array_family/tst_accessors.cpp @@ -70096,7 +70134,7 @@ scitbx/tests/tst_smoothing.py scitbx/wigner/ -sent 674,740 bytes received 1,349 bytes 1,352,178.00 bytes/sec +sent 674,958 bytes received 1,547 bytes 451,003.33 bytes/sec total size is 1,108,176 speedup is 1.64 building file list ... done @@ -70129,7 +70167,7 @@ smtbx/structure_factors/direct/tests/ smtbx/structure_factors/direct/tests/tst_standard_xray.py -sent 130,419 bytes received 231 bytes 261,300.00 bytes/sec +sent 130,450 bytes received 252 bytes 261,404.00 bytes/sec total size is 208,206 speedup is 1.59 building file list ... done spotfinder/core_toolbox/ @@ -70143,7 +70181,7 @@ tbxx/tests/ tbxx/tests/tst_pretty_type_name.cpp -sent 499 bytes received 41 bytes 1,080.00 bytes/sec +sent 495 bytes received 41 bytes 1,072.00 bytes/sec total size is 323 speedup is 0.60 building file list ... done wxtbx/regression/ @@ -70619,7 +70657,7 @@ smtbx/regression/test_data/thpp.hkl smtbx/regression/test_data/thpp.ins -sent 4,301,788 bytes received 8,718 bytes 8,621,012.00 bytes/sec +sent 4,302,967 bytes received 8,718 bytes 2,874,456.67 bytes/sec total size is 4,208,590 speedup is 0.98 I: pybuild base:311: debian/install-cctbx.sh -- --pyver=3.11 --srcdir=/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1 --builddir='/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/.pybuild/cpython3_3.11/build'_ --modules='annlib_adaptbx boost_adaptbx cbflib_adaptbx ccp4io_adaptbx cctbx cma_es crys3d dxtbx fable gltbx iotbx libtbx mmtbx omptbx rstbx scitbx serialtbx smtbx spotfinder tbxx wxtbx' debian/install-cctbx.sh: line 7: 0: command not found @@ -70641,8 +70679,7 @@ {'_dispatcher_include_at_start': [], '_dispatcher_include_before_command': [], '_dispatcher_precall_commands': None, - '_dispatcher_registry': {relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.verify_mon_lib_data"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/verify_mon_lib_data.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.validation_summary"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/validation_summary.py"), + '_dispatcher_registry': {relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.validation_summary"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/validation_summary.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.validate_waters"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/validate_waters.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.validate_ligands"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/validate_ligands.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.validate_ions"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/validate_ions.py"), @@ -70676,7 +70713,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.rotalyze"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/rotalyze.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/molprobity.rotalyze"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/rotalyze.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.rna_validate_suites"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/rna_validate_suites.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/gltbx.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_build_path.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/molprobity.rna_validate_suites"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/rna_validate_suites.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/spotfinder.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/rstbx.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_build_path.py"), @@ -70743,7 +70780,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/smtbx.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/iotbx.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/dxtbx.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_build_path.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/distl.mp_spotfinder_server_read_file"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../spotfinder/command_line/mp_spotfinder_server_read_file.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/gltbx.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/distl.image_viewer"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../spotfinder/command_line/image_viewer.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/distl.find_active_area"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../spotfinder/command_line/find_active_area.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.image_viewer"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../rstbx/command_line/viewer.py"), @@ -70810,7 +70847,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/distl.thin_client"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../spotfinder/command_line/thin_client.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/distl.sweep_strength"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../spotfinder/command_line/sweep_strength.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/distl.signal_strength"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../spotfinder/command_line/signal_strength.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.kinemage"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/kinemage.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/distl.mp_spotfinder_server_read_file"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../spotfinder/command_line/mp_spotfinder_server_read_file.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/molprobity.kinemage"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/kinemage.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.hydrogenate"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/hydrogenate.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.helix_sheet_recs_as_pdb_files"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/helix_sheet_recs_as_pdb_files.py"), @@ -70844,7 +70881,6 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.fem"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/development_fem.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.feature_enhanced_map"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/development_fem.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.development.aev"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/development.aev.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.pdb_interpretation"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/pdb_interpretation.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.pdb_interpretation"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/pdb_interpretation.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.pdb_atom_selection"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/pdb_atom_selection.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.partial_omit_map"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/partial_omit_map.py"), @@ -70879,7 +70915,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.map_to_model_histogram"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/map_to_model_histogram.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.map_comparison"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/map_comparison.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.map_box"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/map_box.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/molprobity.rna_validate_suites"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/rna_validate_suites.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.kinemage"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/kinemage.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.rna_validate_puckers"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/rna_validate_puckers.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/molprobity.rna_validate_puckers"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/rna_validate_puckers.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.rna_validate_bonds"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/rna_validate_bonds.py"), @@ -70914,7 +70950,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.perigee"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/perigee.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.pdbtools"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/pdbtools.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.pdb_view_ad_hoc"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/pdb_view_ad_hoc.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/iotbx.r_free_flags_accumulation"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../iotbx/command_line/r_free_flags_accumulation.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.pdb_interpretation"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/pdb_interpretation.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/iotbx.poscar_as_xray_structure"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../iotbx/command_line/poscar_as_xray_structure.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/iotbx.phil"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../iotbx/command_line/phil.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/iotbx.pdb.split_models"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../iotbx/command_line/pdb_split_models.py"), @@ -70980,7 +71016,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.xmanip"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/xmanip.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.water_screen"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/water_screen.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.water_b_factors"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/water_b_factors.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/crys3d.model_viewer"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../crys3d/command_line/model_viewer.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/mmtbx.verify_mon_lib_data"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../mmtbx/command_line/verify_mon_lib_data.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/cctbx.make_install_HKLviewer_ChimeraX"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../crys3d/command_line/make_install_HKLviewer_ChimeraX.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/phenix.data_viewer"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../crys3d/command_line/hklview.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/cctbx.data_viewer"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../crys3d/command_line/hklview.py"), @@ -71015,7 +71051,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/iotbx.reflection_file_converter"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../iotbx/command_line/reflection_file_converter.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/iotbx.r_free_flags_completion_simple"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../iotbx/command_line/r_free_flags_completion_simple.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/iotbx.r_free_flags_as_cns"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../iotbx/command_line/r_free_flags_as_cns.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/fable.cout"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../fable/command_line/cout.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/iotbx.r_free_flags_accumulation"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../iotbx/command_line/r_free_flags_accumulation.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/scitbx.unicode_examples"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../scitbx/command_line/unicode_examples.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/scitbx.show_sizes"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../scitbx/command_line/show_sizes.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/scitbx.show_exp_times"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../scitbx/command_line/show_exp_times.py"), @@ -71047,7 +71083,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/cctbx.visualize_r_factors"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../crys3d/command_line/visualize_r_factors.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/crys3d.qttbx.view_structure"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../crys3d/command_line/qttbx.view_structure.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/cctbx.multiplicity_viewer"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../crys3d/command_line/multiplicity_viewer.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.configure"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/configure.sh"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/crys3d.model_viewer"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../crys3d/command_line/model_viewer.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.clear_paths"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/clear_paths.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.clean_clutter"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/clean_clutter.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.chunk"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/chunk.py"), @@ -71081,7 +71117,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/fable.read"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../fable/command_line/read.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/fable.insert_write_at_start_of_each_procedure"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../fable/command_line/insert_write_at_start_of_each_procedure.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/fable.fem_include_search_paths"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../fable/command_line/fem_include_search_paths.py"), - relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.pdflatex"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/pdflatex.sh"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/fable.cout"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../fable/command_line/cout.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.path_utility"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/path_utility.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.parallel_simple"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/parallel_simple.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.nequal"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/nequal.py"), @@ -71122,6 +71158,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.create_installer"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/create_installer.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.create_install_script_bat"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/create_install_script_bat.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.create_cctbx_bundle_for_installer"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/create_cctbx_bundle_for_installer.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.configure"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/configure.sh"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.scons"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/scons.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.run_tests_parallel"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/run_tests_parallel.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.run_pickled_function"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/run_pickled_function.py"), @@ -71133,6 +71170,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.printenv"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/printenv.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.prime_factors_of"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/prime_factors_of.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.phil"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/phil.py"), + relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.pdflatex"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/pdflatex.sh"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.show_but_no_repr"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_but_no_repr.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.show_build_path"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.show_build_options"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_build_options.py"), @@ -71171,7 +71209,7 @@ relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin/libtbx.show_repository_paths"): relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/show_repository_paths.py")}, 'bin_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="bin"), 'boost_version': 108300, - 'build_options': , + 'build_options': , 'build_path': absolute_path("/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11"), 'command_line_redirections': {}, 'command_version_suffix': None, @@ -71208,30 +71246,30 @@ 'lib_path': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="lib"), 'missing_for_build': set(), 'missing_for_use': set(), - 'missing_optional': {'king', 'reduce', 'docutils', 'cbflib', 'probe'}, - 'module_dict': {'annlib': , - 'boost': , - 'cbflib': , - 'ccp4io': , - 'cctbx': , - 'chiltbx': , - 'cma_es': , - 'crys3d': , - 'dxtbx': , - 'fable': , - 'gltbx': , - 'iotbx': , - 'libtbx': , - 'mmtbx': , - 'omptbx': , - 'rstbx': , - 'scitbx': , - 'serialtbx': , - 'smtbx': , - 'spotfinder': , - 'tbxx': , - 'ucif': , - 'wxtbx': }, + 'missing_optional': {'king', 'reduce', 'cbflib', 'docutils', 'probe'}, + 'module_dict': {'annlib': , + 'boost': , + 'cbflib': , + 'ccp4io': , + 'cctbx': , + 'chiltbx': , + 'cma_es': , + 'crys3d': , + 'dxtbx': , + 'fable': , + 'gltbx': , + 'iotbx': , + 'libtbx': , + 'mmtbx': , + 'omptbx': , + 'rstbx': , + 'scitbx': , + 'serialtbx': , + 'smtbx': , + 'spotfinder': , + 'tbxx': , + 'ucif': , + 'wxtbx': }, 'module_dist_paths': {'annlib': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../annlib"), 'annlib_adaptbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../annlib_adaptbx"), 'boost': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../boost"), @@ -71258,29 +71296,29 @@ 'tbxx': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../tbxx"), 'ucif': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../ucif"), 'wxtbx': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../wxtbx")}, - 'module_list': [, - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - ], + 'module_list': [, + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + ], 'no_bin_python': False, 'path_utility': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="../../../libtbx/command_line/path_utility.py"), 'python_exe': relocatable_path(anchor="/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1/debian/tmp/usr/lib/cctbx/python3.11", relocatable="/usr/bin/python3.11"), @@ -71300,9 +71338,7 @@ {'_dispatcher_include_at_start': [], '_dispatcher_include_before_command': [], '_dispatcher_precall_commands': None, - '_dispatcher_registry': {relocatable_path(anchor="/usr", relocatable="bin/mmtbx.search_pdb_symmetry"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/search_pdb_symmetry.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.rotalyze"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/rotalyze.py"), - relocatable_path(anchor="/usr", relocatable="bin/molprobity.rotalyze"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/rotalyze.py"), + '_dispatcher_registry': {relocatable_path(anchor="/usr", relocatable="bin/molprobity.rotalyze"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/rotalyze.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.rna_validate_suites"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/rna_validate_suites.py"), relocatable_path(anchor="/usr", relocatable="bin/molprobity.rna_validate_suites"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/rna_validate_suites.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.rna_validate_puckers"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/rna_validate_puckers.py"), @@ -71331,10 +71367,9 @@ relocatable_path(anchor="/usr", relocatable="bin/mmtbx.prune_model"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/prune_model.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.process_predicted_model"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/process_predicted_model.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.process_predicted_model"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/process_predicted_model.py"), - relocatable_path(anchor="/usr", relocatable="bin/fable.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), - relocatable_path(anchor="/usr", relocatable="bin/scitbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), - relocatable_path(anchor="/usr", relocatable="bin/annlib.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), - relocatable_path(anchor="/usr", relocatable="bin/cbflib.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), + relocatable_path(anchor="/usr", relocatable="bin/molprobity.probescore_ligand"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/probescore_ligand.py"), + relocatable_path(anchor="/usr", relocatable="bin/mmtbx.probe2"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/probe2.py"), + relocatable_path(anchor="/usr", relocatable="bin/mmtbx.prepare_pdb_deposition"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/prepare_pdb_deposition.py"), relocatable_path(anchor="/usr", relocatable="bin/ccp4io.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/crys3d.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), @@ -71348,7 +71383,6 @@ relocatable_path(anchor="/usr", relocatable="bin/serialtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/wxtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/omptbx.show_build_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_path.py"), - relocatable_path(anchor="/usr", relocatable="bin/wxtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/boost.show_build_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/usr", relocatable="bin/cma_es.show_build_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/usr", relocatable="bin/fable.show_build_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_path.py"), @@ -71370,8 +71404,11 @@ relocatable_path(anchor="/usr", relocatable="bin/boost.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/omptbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/cma_es.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), - relocatable_path(anchor="/usr", relocatable="bin/scitbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), - relocatable_path(anchor="/usr", relocatable="bin/annlib.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), + relocatable_path(anchor="/usr", relocatable="bin/fable.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), + relocatable_path(anchor="/usr", relocatable="bin/scitbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), + relocatable_path(anchor="/usr", relocatable="bin/annlib.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), + relocatable_path(anchor="/usr", relocatable="bin/cbflib.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), + relocatable_path(anchor="/usr", relocatable="bin/rstbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/cbflib.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/ccp4io.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), @@ -71382,8 +71419,6 @@ relocatable_path(anchor="/usr", relocatable="bin/gltbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/spotfinder.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), - relocatable_path(anchor="/usr", relocatable="bin/wxtbx.plan_sad_experiment"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/plan_sad_experiment.py"), - relocatable_path(anchor="/usr", relocatable="bin/mmtbx.pdb_statistics"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/pdb_statistics.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.pdb_editor"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/pdb_editor.py"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.loggraph"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/loggraph.py"), relocatable_path(anchor="/usr", relocatable="bin/wxtbx.inspect_r_free_flags"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/inspect_r_free_flags.py"), @@ -71410,11 +71445,11 @@ relocatable_path(anchor="/usr", relocatable="bin/dxtbx.depends_on"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/depends_on.py"), relocatable_path(anchor="/usr", relocatable="bin/dev.dxtbx.debug_memory"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/dxtbx/src/dxtbx/command_line/debug_memory.py"), relocatable_path(anchor="/usr", relocatable="bin/boost.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), - relocatable_path(anchor="/usr", relocatable="bin/fable.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), + relocatable_path(anchor="/usr", relocatable="bin/annlib.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/omptbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/cma_es.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.cablam"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cablam.py"), - relocatable_path(anchor="/usr", relocatable="bin/molprobity.cablam"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cablam.py"), + relocatable_path(anchor="/usr", relocatable="bin/fable.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), + relocatable_path(anchor="/usr", relocatable="bin/scitbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/phenix.barbed_wire_analysis"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/barbed_wire_analysis.py"), relocatable_path(anchor="/usr", relocatable="bin/molprobity.barbed_wire_analysis"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/barbed_wire_analysis.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.arginine_geometry"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/arginine_geometry.py"), @@ -71445,9 +71480,8 @@ relocatable_path(anchor="/usr", relocatable="bin/cctbx.wxpython"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/wxpython.py"), relocatable_path(anchor="/usr", relocatable="bin/wxtbx.show_file_info"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/show_file_info.py"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.plot_anomalous_scattering"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/plot_anomalous_scattering.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.fest"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/fest.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.fake_f_obs"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/fake_f_obs.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.fab_elbow_angle"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/fab_elbow_angle.py"), + relocatable_path(anchor="/usr", relocatable="bin/wxtbx.plan_sad_experiment"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/plan_sad_experiment.py"), + relocatable_path(anchor="/usr", relocatable="bin/mmtbx.pdb_statistics"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx/command_line/pdb_statistics.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.f000"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/f000.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.extend_sidechains"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/extend_sidechains.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.evalurama"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/evalurama.py"), @@ -71477,8 +71511,8 @@ relocatable_path(anchor="/usr", relocatable="bin/phenix.cablam_validate"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cablam_validate.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.cablam_training"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cablam_training.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.cablam_idealization"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cablam_idealization.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.model_map"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/model_map.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.model_idealization"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/model_idealization.py"), + relocatable_path(anchor="/usr", relocatable="bin/phenix.cablam"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cablam.py"), + relocatable_path(anchor="/usr", relocatable="bin/molprobity.cablam"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/cablam.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.maximum_entropy_map"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/maximum_entropy_map.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.matthews"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/matthews.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.massage_data"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/massage_data.py"), @@ -71508,9 +71542,9 @@ relocatable_path(anchor="/usr", relocatable="bin/mmtbx.find_peaks_holes"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/find_peaks_holes.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.fetch_pdb"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/fetch_pdb.py"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.fetch_pdb"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/fetch_pdb.py"), - relocatable_path(anchor="/usr", relocatable="bin/molprobity.probescore_ligand"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/probescore_ligand.py"), - relocatable_path(anchor="/usr", relocatable="bin/mmtbx.probe2"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/probe2.py"), - relocatable_path(anchor="/usr", relocatable="bin/mmtbx.prepare_pdb_deposition"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/prepare_pdb_deposition.py"), + relocatable_path(anchor="/usr", relocatable="bin/phenix.fest"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/fest.py"), + relocatable_path(anchor="/usr", relocatable="bin/phenix.fake_f_obs"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/fake_f_obs.py"), + relocatable_path(anchor="/usr", relocatable="bin/phenix.fab_elbow_angle"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/fab_elbow_angle.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.polder"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/polder.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.plan_sad_experiment"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/plan_sad_experiment.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.perigee"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/perigee.py"), @@ -71540,21 +71574,19 @@ relocatable_path(anchor="/usr", relocatable="bin/phenix.model_vs_map"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/model_vs_map.py"), relocatable_path(anchor="/usr", relocatable="bin/mmtbx.model_vs_data"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/model_vs_data.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.model_model_distances"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/model_model_distances.py"), + relocatable_path(anchor="/usr", relocatable="bin/phenix.model_map"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/model_map.py"), + relocatable_path(anchor="/usr", relocatable="bin/phenix.model_idealization"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/model_idealization.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.valgrind"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/valgrind.sh"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.wait_for_file"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/wait_for_file.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_python_sys_executable"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_python_sys_executable.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_pythonpath"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_pythonpath.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_repository_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_repository_paths.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_tests"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_tests.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_variable_names"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_variable_names.py"), relocatable_path(anchor="/usr", relocatable="bin/sphinx.build"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/sphinx_build.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.start_binary_bundle"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/start_binary_bundle.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.unpack_in_sources"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/unpack_in_sources.csh"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.start_process"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/start_process.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.tcsh"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/tcsh.sh"), - relocatable_path(anchor="/usr", relocatable="bin/iotbx.french_wilson"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/french_wilson.py"), - relocatable_path(anchor="/usr", relocatable="bin/iotbx.pdb.flip_symmetric_amino_acids"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/flip_symmetric_amino_acids.py"), - relocatable_path(anchor="/usr", relocatable="bin/iotbx.file_reader"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/file_reader.py"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.export_scalepack_unmerged"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/export_scalepack_unmerged.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.explore_metric_symmetry"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/explore_metric_symmetry.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.emma"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/emma.py"), @@ -71616,8 +71648,8 @@ relocatable_path(anchor="/usr", relocatable="bin/mmtbx.select_best_starting_model"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/select_best_starting_model.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.secondary_structure_validation"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/secondary_structure_validation.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.secondary_structure_restraints"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/secondary_structure_restraints.py"), - relocatable_path(anchor="/usr", relocatable="bin/iotbx.phil"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/phil.py"), - relocatable_path(anchor="/usr", relocatable="bin/iotbx.pdb.split_models"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/pdb_split_models.py"), + relocatable_path(anchor="/usr", relocatable="bin/mmtbx.search_pdb_symmetry"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/search_pdb_symmetry.py"), + relocatable_path(anchor="/usr", relocatable="bin/phenix.rotalyze"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/mmtbx/command_line/rotalyze.py"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.pdb.show_connectivity"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/pdb_show_connectivity.py"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.pdb_remediator"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/pdb_remediator.py"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.pdb_labels_diff"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/pdb_labels_diff.py"), @@ -71647,8 +71679,9 @@ relocatable_path(anchor="/usr", relocatable="bin/cctbx.isomorphous_difference_patterson"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/isomorphous_difference_patterson.py"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.get_pubmed_citation"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/get_pubmed_citation.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.french_wilson"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/french_wilson.py"), - relocatable_path(anchor="/usr", relocatable="bin/phenix.HKLviewer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/HKLviewer.py"), - relocatable_path(anchor="/usr", relocatable="bin/cctbx.HKLviewer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/HKLviewer.py"), + relocatable_path(anchor="/usr", relocatable="bin/iotbx.french_wilson"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/french_wilson.py"), + relocatable_path(anchor="/usr", relocatable="bin/iotbx.pdb.flip_symmetric_amino_acids"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/flip_symmetric_amino_acids.py"), + relocatable_path(anchor="/usr", relocatable="bin/iotbx.file_reader"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/file_reader.py"), relocatable_path(anchor="/usr", relocatable="bin/phasertng.HKLviewer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/HKLviewer.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.HKLinfo"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/HKLinfo.py"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.HKLinfo"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/HKLinfo.py"), @@ -71679,8 +71712,8 @@ relocatable_path(anchor="/usr", relocatable="bin/iotbx.r_free_flags_as_cns"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/r_free_flags_as_cns.py"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.r_free_flags_accumulation"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/r_free_flags_accumulation.py"), relocatable_path(anchor="/usr", relocatable="bin/iotbx.poscar_as_xray_structure"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/poscar_as_xray_structure.py"), - relocatable_path(anchor="/usr", relocatable="bin/scitbx.histogram"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/scitbx/command_line/histogram.py"), - relocatable_path(anchor="/usr", relocatable="bin/scitbx.generate_error_h"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/scitbx/command_line/generate_error_h.py"), + relocatable_path(anchor="/usr", relocatable="bin/iotbx.phil"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/phil.py"), + relocatable_path(anchor="/usr", relocatable="bin/iotbx.pdb.split_models"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/iotbx/command_line/pdb_split_models.py"), relocatable_path(anchor="/usr", relocatable="bin/scitbx.apply_tapenade_hints"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/scitbx/command_line/apply_tapenade_hints.py"), relocatable_path(anchor="/usr", relocatable="bin/cbf.dump"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/cbflib_adaptbx/command_line/dump.py"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.xray_structure.show"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/cctbx/command_line/xray_structure.show.py"), @@ -71712,8 +71745,8 @@ relocatable_path(anchor="/usr", relocatable="bin/phenix.data_viewer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/hklview.py"), relocatable_path(anchor="/usr", relocatable="bin/cctbx.data_viewer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/hklview.py"), relocatable_path(anchor="/usr", relocatable="bin/phenix.compare_datasets"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/compare_datasets.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_mac_app"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_mac_app.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_installer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_installer.py"), + relocatable_path(anchor="/usr", relocatable="bin/phenix.HKLviewer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/HKLviewer.py"), + relocatable_path(anchor="/usr", relocatable="bin/cctbx.HKLviewer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/crys3d/command_line/HKLviewer.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_install_script_bat"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_install_script_bat.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_cctbx_bundle_for_installer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_cctbx_bundle_for_installer.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.configure"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/configure.sh"), @@ -71754,7 +71787,8 @@ relocatable_path(anchor="/usr", relocatable="bin/scitbx.unicode_examples"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/scitbx/command_line/unicode_examples.py"), relocatable_path(anchor="/usr", relocatable="bin/scitbx.show_sizes"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/scitbx/command_line/show_sizes.py"), relocatable_path(anchor="/usr", relocatable="bin/scitbx.show_exp_times"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/scitbx/command_line/show_exp_times.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.extract_code_from_txt"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/extract_code_from_txt.py"), + relocatable_path(anchor="/usr", relocatable="bin/scitbx.histogram"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/scitbx/command_line/histogram.py"), + relocatable_path(anchor="/usr", relocatable="bin/scitbx.generate_error_h"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/scitbx/command_line/generate_error_h.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.exec"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/exec.sh"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.epydoc_run"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/epydoc_run.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.env_run"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/env_run.py"), @@ -71764,7 +71798,8 @@ relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_windows_exe"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_windows_exe.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_unzipsfx"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_unzipsfx.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_selfx"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_selfx.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_unused_imports_crude"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_unused_imports_crude.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_mac_app"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_mac_app.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.create_installer"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/create_installer.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_unused_imports"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_unused_imports.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_untested"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_untested.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_under_build"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_under_build.py"), @@ -71773,7 +71808,7 @@ relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_in_repositories"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_in_repositories.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_files"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_files.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_clutter"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_clutter.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.path_utility"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/path_utility.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.extract_code_from_txt"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/extract_code_from_txt.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.parallel_simple"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/parallel_simple.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.nequal"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/nequal.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.make_sphinx_html"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/make_sphinx_html.py"), @@ -71790,47 +71825,50 @@ relocatable_path(anchor="/usr", relocatable="bin/libtbx.help"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/help.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.git_avoid_merges"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/git_avoid_merges.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.gdb"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/gdb.sh"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.sh"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/sh.sh"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_all_on_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_all_on_path.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.find_unused_imports_crude"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/find_unused_imports_crude.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.sge_qstat_counts"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/sge_qstat_counts.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_lib_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_lib_path.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_include_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_include_paths.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_bin_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_bin_path.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_host_and_user"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_host_and_user.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_full_command_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_full_command_path.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.sge_available_slots"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/sge_available_slots.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_environ_usage"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_environ_usage.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.sh"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/sh.sh"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.seconds_since_the_epoch"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/seconds_since_the_epoch.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_host_and_user"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_host_and_user.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.scons"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/scons.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_env"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_env.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_environ_usage"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_environ_usage.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_dist_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_dist_paths.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.scons"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/scons.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_date_and_time"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_date_and_time.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_commands"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_commands.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.run_tests_parallel"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/run_tests_parallel.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_commands"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_commands.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_full_command_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_full_command_path.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_but_no_repr"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_but_no_repr.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.run_pickled_function"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/run_pickled_function.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_build_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_path.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_build_options"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_build_options.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.run_pickled_function"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/run_pickled_function.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.remove_tree"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/remove_tree.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_all_on_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_all_on_path.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.remote_processing"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/remote_processing.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.refresh"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/refresh.sh"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.raise_exception_for_testing"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/raise_exception_for_testing.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.py_compile_all"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/py_compile_all.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.printenv"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/printenv.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_bin_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_bin_path.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.prime_factors_of"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/prime_factors_of.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.phil"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/phil.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.pdflatex"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/pdflatex.sh"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_number_of_processors"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_number_of_processors.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_python_dependencies"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_python_dependencies.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.path_utility"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/path_utility.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_numpy_version"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_numpy_version.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_numeric_version"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_numeric_version.py"), - relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_python_sys_executable"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_python_sys_executable.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_number_of_processors"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_number_of_processors.py"), relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_module_dependencies"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_module_dependencies.py"), - relocatable_path(anchor="/usr", relocatable="bin/rstbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_lib_path"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_lib_path.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_include_paths"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_include_paths.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.unpack_in_sources"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/unpack_in_sources.csh"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.show_python_dependencies"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/show_python_dependencies.py"), + relocatable_path(anchor="/usr", relocatable="bin/libtbx.wait_for_file"): relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/wait_for_file.py"), + relocatable_path(anchor="/usr", relocatable="bin/wxtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11"), relocatable_path(anchor="/usr", relocatable="bin/serialtbx.python"): relocatable_path(anchor="/usr", relocatable="bin/python3.11")}, 'bin_path': relocatable_path(anchor="/usr", relocatable="bin"), 'boost_version': 108300, - 'build_options': , + 'build_options': , 'build_path': absolute_path("/usr/lib/cctbx/python3.11"), 'command_line_redirections': {}, 'command_version_suffix': None, @@ -71867,30 +71905,30 @@ 'lib_path': relocatable_path(anchor="/usr", relocatable="lib"), 'missing_for_build': set(), 'missing_for_use': set(), - 'missing_optional': {'king', 'reduce', 'docutils', 'cbflib', 'probe'}, - 'module_dict': {'annlib': , - 'boost': , - 'cbflib': , - 'ccp4io': , - 'cctbx': , - 'chiltbx': , - 'cma_es': , - 'crys3d': , - 'dxtbx': , - 'fable': , - 'gltbx': , - 'iotbx': , - 'libtbx': , - 'mmtbx': , - 'omptbx': , - 'rstbx': , - 'scitbx': , - 'serialtbx': , - 'smtbx': , - 'spotfinder': , - 'tbxx': , - 'ucif': , - 'wxtbx': }, + 'missing_optional': {'king', 'reduce', 'cbflib', 'docutils', 'probe'}, + 'module_dict': {'annlib': , + 'boost': , + 'cbflib': , + 'ccp4io': , + 'cctbx': , + 'chiltbx': , + 'cma_es': , + 'crys3d': , + 'dxtbx': , + 'fable': , + 'gltbx': , + 'iotbx': , + 'libtbx': , + 'mmtbx': , + 'omptbx': , + 'rstbx': , + 'scitbx': , + 'serialtbx': , + 'smtbx': , + 'spotfinder': , + 'tbxx': , + 'ucif': , + 'wxtbx': }, 'module_dist_paths': {'annlib': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/annlib"), 'annlib_adaptbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/annlib_adaptbx"), 'boost': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/boost"), @@ -71917,29 +71955,29 @@ 'tbxx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/tbxx"), 'ucif': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/ucif"), 'wxtbx': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/wxtbx")}, - 'module_list': [, - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - , - ], + 'module_list': [, + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + ], 'no_bin_python': True, 'path_utility': relocatable_path(anchor="/usr", relocatable="lib/python3/dist-packages/libtbx/command_line/path_utility.py"), 'python_exe': relocatable_path(anchor="/usr", relocatable="bin/python3.11"), @@ -71994,7 +72032,7 @@ smtbx/refinement/constraints/tests/tst_reparametrisation smtbx/refinement/constraints/tests/tst_special_position -sent 17,035,158 bytes received 568 bytes 34,071,452.00 bytes/sec +sent 17,035,180 bytes received 568 bytes 34,071,496.00 bytes/sec total size is 17,023,336 speedup is 1.00 building file list ... done ./ @@ -72018,29 +72056,30 @@ libsmtbx_refinement_constraints.so.0.0.1 libspotfinder.so.0.0.1 -sent 58,607,732 bytes received 494 bytes 117,216,452.00 bytes/sec +sent 58,607,810 bytes received 494 bytes 39,072,202.67 bytes/sec total size is 58,591,146 speedup is 1.00 building file list ... done -sent 120 bytes received 12 bytes 264.00 bytes/sec -total size is 2,068 speedup is 15.67 +sent 118 bytes received 12 bytes 260.00 bytes/sec +total size is 2,068 speedup is 15.91 building file list ... done boost_adaptbx/ -sent 726 bytes received 19 bytes 496.67 bytes/sec -total size is 72,301 speedup is 97.05 +sent 728 bytes received 19 bytes 1,494.00 bytes/sec +total size is 72,301 speedup is 96.79 building file list ... done -sent 375 bytes received 12 bytes 774.00 bytes/sec -total size is 21,656 speedup is 55.96 +sent 373 bytes received 12 bytes 770.00 bytes/sec +total size is 21,656 speedup is 56.25 building file list ... done -sent 535 bytes received 12 bytes 1,094.00 bytes/sec -total size is 86,683 speedup is 158.47 +sent 555 bytes received 12 bytes 1,134.00 bytes/sec +total size is 86,683 speedup is 152.88 building file list ... done +cctbx/ -sent 6,617 bytes received 12 bytes 13,258.00 bytes/sec -total size is 1,887,271 speedup is 284.70 +sent 6,646 bytes received 19 bytes 13,330.00 bytes/sec +total size is 1,887,271 speedup is 283.16 building file list ... done sent 125 bytes received 12 bytes 274.00 bytes/sec @@ -72051,24 +72090,24 @@ total size is 0 speedup is 0.00 building file list ... done -sent 1,062 bytes received 12 bytes 2,148.00 bytes/sec -total size is 377,522 speedup is 351.51 +sent 1,061 bytes received 12 bytes 2,146.00 bytes/sec +total size is 377,522 speedup is 351.84 building file list ... done ./ -sent 1,144 bytes received 19 bytes 2,326.00 bytes/sec -total size is 200,764 speedup is 172.63 +sent 1,148 bytes received 19 bytes 2,334.00 bytes/sec +total size is 200,764 speedup is 172.03 building file list ... done -sent 310 bytes received 12 bytes 644.00 bytes/sec -total size is 597,954 speedup is 1,857.00 +sent 314 bytes received 12 bytes 652.00 bytes/sec +total size is 597,954 speedup is 1,834.21 building file list ... done sent 1,419 bytes received 12 bytes 2,862.00 bytes/sec total size is 266,716 speedup is 186.38 building file list ... done -sent 466 bytes received 12 bytes 956.00 bytes/sec +sent 489 bytes received 12 bytes 1,002.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done @@ -72088,16 +72127,17 @@ scitbx/array_family/boost_python/ scitbx/array_family/detail/ -sent 7,275 bytes received 32 bytes 14,614.00 bytes/sec -total size is 1,885,050 speedup is 257.98 +sent 7,283 bytes received 32 bytes 14,630.00 bytes/sec +total size is 1,885,050 speedup is 257.70 building file list ... done sent 180 bytes received 12 bytes 384.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done +smtbx/ -sent 1,321 bytes received 12 bytes 2,666.00 bytes/sec -total size is 179,686 speedup is 134.80 +sent 1,342 bytes received 19 bytes 2,722.00 bytes/sec +total size is 179,686 speedup is 132.02 building file list ... done sent 522 bytes received 12 bytes 1,068.00 bytes/sec @@ -72148,35 +72188,35 @@ smtbx/boost_python/ smtbx/boost_python/flex_fwd.h -sent 347,313 bytes received 540 bytes 695,706.00 bytes/sec +sent 347,306 bytes received 540 bytes 695,692.00 bytes/sec total size is 345,070 speedup is 0.99 building file list ... done -sent 256 bytes received 12 bytes 536.00 bytes/sec +sent 248 bytes received 12 bytes 520.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done boost_adaptbx/ boost_adaptbx/command_line/ -sent 519 bytes received 22 bytes 1,082.00 bytes/sec -total size is 6,883 speedup is 12.72 +sent 558 bytes received 55 bytes 1,226.00 bytes/sec +total size is 6,883 speedup is 11.23 building file list ... done cbflib_adaptbx/ cbflib_adaptbx/command_line/ -sent 230 bytes received 22 bytes 504.00 bytes/sec -total size is 1,215 speedup is 4.82 +sent 234 bytes received 28 bytes 524.00 bytes/sec +total size is 1,215 speedup is 4.64 building file list ... done -sent 145 bytes received 12 bytes 314.00 bytes/sec +sent 149 bytes received 12 bytes 107.33 bytes/sec total size is 0 speedup is 0.00 building file list ... done cctbx/ cctbx/command_line/ cctbx/command_line/web.install.csh -sent 2,997 bytes received 41 bytes 6,076.00 bytes/sec -total size is 39,547 speedup is 13.02 +sent 3,078 bytes received 101 bytes 6,358.00 bytes/sec +total size is 39,547 speedup is 12.44 building file list ... done sent 87 bytes received 12 bytes 198.00 bytes/sec @@ -72185,32 +72225,32 @@ crys3d/ crys3d/command_line/ -sent 468 bytes received 22 bytes 980.00 bytes/sec -total size is 31,515 speedup is 64.32 +sent 494 bytes received 52 bytes 1,092.00 bytes/sec +total size is 31,515 speedup is 57.72 building file list ... done dxtbx/ dxtbx/command_line/ -sent 829 bytes received 22 bytes 1,702.00 bytes/sec -total size is 81,902 speedup is 96.24 +sent 881 bytes received 79 bytes 1,920.00 bytes/sec +total size is 81,902 speedup is 85.31 building file list ... done fable/ fable/command_line/ -sent 455 bytes received 22 bytes 954.00 bytes/sec -total size is 15,542 speedup is 32.58 +sent 480 bytes received 43 bytes 1,046.00 bytes/sec +total size is 15,542 speedup is 29.72 building file list ... done gltbx/ gltbx/command_line/ -sent 185 bytes received 22 bytes 414.00 bytes/sec -total size is 606 speedup is 2.93 +sent 195 bytes received 28 bytes 446.00 bytes/sec +total size is 606 speedup is 2.72 building file list ... done iotbx/ iotbx/command_line/ -sent 2,634 bytes received 22 bytes 5,312.00 bytes/sec -total size is 217,626 speedup is 81.94 +sent 2,852 bytes received 244 bytes 6,192.00 bytes/sec +total size is 217,626 speedup is 70.29 building file list ... done libtbx/ libtbx/command_line/ @@ -72231,8 +72271,8 @@ libtbx/command_line/unpack_in_sources.csh libtbx/command_line/valgrind.sh -sent 6,823 bytes received 329 bytes 14,304.00 bytes/sec -total size is 156,446 speedup is 21.87 +sent 7,118 bytes received 605 bytes 15,446.00 bytes/sec +total size is 156,446 speedup is 20.26 building file list ... done mmtbx/ mmtbx/command_line/ @@ -72240,8 +72280,8 @@ mmtbx/regression/command_line/ mmtbx/regression/command_line/tst_find_residue_in_pdb.py -sent 5,245 bytes received 51 bytes 10,592.00 bytes/sec -total size is 805,446 speedup is 152.09 +sent 5,672 bytes received 486 bytes 4,105.33 bytes/sec +total size is 805,446 speedup is 130.80 building file list ... done sent 76 bytes received 12 bytes 176.00 bytes/sec @@ -72250,8 +72290,8 @@ rstbx/ rstbx/command_line/ -sent 755 bytes received 22 bytes 1,554.00 bytes/sec -total size is 11,108 speedup is 14.30 +sent 778 bytes received 49 bytes 1,654.00 bytes/sec +total size is 11,108 speedup is 13.43 building file list ... done scitbx/ scitbx/command_line/ @@ -72262,7 +72302,7 @@ scitbx/command_line/show_sizes.py scitbx/command_line/unicode_examples.py -sent 11,687 bytes received 136 bytes 23,646.00 bytes/sec +sent 11,715 bytes received 136 bytes 23,702.00 bytes/sec total size is 9,958 speedup is 0.84 building file list ... done @@ -72272,14 +72312,14 @@ smtbx/ smtbx/command_line/ -sent 878 bytes received 22 bytes 1,800.00 bytes/sec -total size is 37,436 speedup is 41.60 +sent 910 bytes received 40 bytes 1,900.00 bytes/sec +total size is 37,436 speedup is 39.41 building file list ... done spotfinder/ spotfinder/command_line/ -sent 522 bytes received 22 bytes 1,088.00 bytes/sec -total size is 22,750 speedup is 41.82 +sent 539 bytes received 43 bytes 1,164.00 bytes/sec +total size is 22,750 speedup is 39.09 building file list ... done sent 87 bytes received 12 bytes 198.00 bytes/sec @@ -72288,11 +72328,11 @@ wxtbx/ wxtbx/command_line/ -sent 453 bytes received 22 bytes 950.00 bytes/sec -total size is 16,078 speedup is 33.85 +sent 485 bytes received 58 bytes 1,086.00 bytes/sec +total size is 16,078 speedup is 29.61 building file list ... done -sent 256 bytes received 12 bytes 536.00 bytes/sec +sent 248 bytes received 12 bytes 520.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done boost_adaptbx/graph/ @@ -72325,21 +72365,21 @@ boost_adaptbx/tests/tst_swig_args.py boost_adaptbx/tests/tst_tuple.py -sent 91,618 bytes received 515 bytes 184,266.00 bytes/sec +sent 91,628 bytes received 515 bytes 184,286.00 bytes/sec total size is 89,657 speedup is 0.97 building file list ... done cbflib_adaptbx/detectors/ cbflib_adaptbx/detectors/tst_memory.cpp -sent 1,213 bytes received 34 bytes 2,494.00 bytes/sec +sent 1,211 bytes received 34 bytes 2,490.00 bytes/sec total size is 967 speedup is 0.78 building file list ... done ccp4io_adaptbx/ ccp4io_adaptbx/dev/ ccp4io_adaptbx/dev/tst_fftlib.py -sent 7,594 bytes received 44 bytes 15,276.00 bytes/sec -total size is 9,205 speedup is 1.21 +sent 7,596 bytes received 44 bytes 15,280.00 bytes/sec +total size is 9,205 speedup is 1.20 building file list ... done cctbx/adp_restraints/ cctbx/adptbx/ @@ -72427,21 +72467,21 @@ cctbx/xray/observations/ cctbx/xray/targets/ -sent 435,597 bytes received 879 bytes 872,952.00 bytes/sec -total size is 2,034,432 speedup is 4.66 +sent 435,990 bytes received 1,251 bytes 874,482.00 bytes/sec +total size is 2,034,432 speedup is 4.65 building file list ... done cma_es/ -sent 118 bytes received 19 bytes 274.00 bytes/sec -total size is 3,008 speedup is 21.96 +sent 121 bytes received 22 bytes 286.00 bytes/sec +total size is 3,008 speedup is 21.03 building file list ... done crys3d/regression/ -sent 355 bytes received 15 bytes 740.00 bytes/sec -total size is 41,841 speedup is 113.08 +sent 373 bytes received 33 bytes 812.00 bytes/sec +total size is 41,841 speedup is 103.06 building file list ... done -sent 634 bytes received 12 bytes 1,292.00 bytes/sec +sent 647 bytes received 12 bytes 1,318.00 bytes/sec total size is 0 speedup is 0.00 building file list ... done fable/test/ @@ -72450,12 +72490,12 @@ fable/test/tst_separate_files.py fable/test/tst_show_calls.py -sent 12,829 bytes received 91 bytes 25,840.00 bytes/sec -total size is 151,847 speedup is 11.75 +sent 12,848 bytes received 106 bytes 25,908.00 bytes/sec +total size is 151,847 speedup is 11.72 building file list ... done -sent 210 bytes received 12 bytes 444.00 bytes/sec -total size is 8,108 speedup is 36.52 +sent 226 bytes received 24 bytes 500.00 bytes/sec +total size is 8,108 speedup is 32.43 building file list ... done iotbx/bioinformatics/ iotbx/bioinformatics/test/ @@ -72503,14 +72543,14 @@ iotbx/xds/tests/tst_xparm.py iotbx/xplor/ -sent 264,585 bytes received 499 bytes 530,168.00 bytes/sec -total size is 2,334,818 speedup is 8.81 +sent 264,969 bytes received 883 bytes 531,704.00 bytes/sec +total size is 2,334,818 speedup is 8.78 building file list ... done libtbx/phil/ libtbx/queuing_system_utils/ -sent 1,101 bytes received 18 bytes 2,238.00 bytes/sec -total size is 243,381 speedup is 217.50 +sent 1,199 bytes received 105 bytes 2,608.00 bytes/sec +total size is 243,381 speedup is 186.64 building file list ... done mmtbx/atomic_environment_vectors/ mmtbx/building/ @@ -72599,13 +72639,13 @@ mmtbx/validation/regression/ mmtbx/wwpdb/ -sent 747,706 bytes received 854 bytes 1,497,120.00 bytes/sec -total size is 6,530,029 speedup is 8.72 +sent 748,777 bytes received 1,925 bytes 1,501,404.00 bytes/sec +total size is 6,530,029 speedup is 8.70 building file list ... done omptbx/ -sent 97 bytes received 19 bytes 232.00 bytes/sec -total size is 1,175 speedup is 10.13 +sent 100 bytes received 22 bytes 244.00 bytes/sec +total size is 1,175 speedup is 9.63 building file list ... done rstbx/bpcx/ rstbx/bpcx/detector_model/ @@ -72619,8 +72659,8 @@ rstbx/sublattice_support/ rstbx/viewer/ -sent 1,007 bytes received 45 bytes 2,104.00 bytes/sec -total size is 179,407 speedup is 170.54 +sent 1,049 bytes received 87 bytes 2,272.00 bytes/sec +total size is 179,407 speedup is 157.93 building file list ... done scitbx/array_family/ scitbx/array_family/tst_accessors.cpp @@ -72726,7 +72766,7 @@ scitbx/tests/tst_smoothing.py scitbx/wigner/ -sent 674,740 bytes received 1,349 bytes 1,352,178.00 bytes/sec +sent 674,958 bytes received 1,547 bytes 1,353,010.00 bytes/sec total size is 1,108,176 speedup is 1.64 building file list ... done @@ -72759,7 +72799,7 @@ smtbx/structure_factors/direct/tests/ smtbx/structure_factors/direct/tests/tst_standard_xray.py -sent 130,419 bytes received 231 bytes 261,300.00 bytes/sec +sent 130,450 bytes received 252 bytes 261,404.00 bytes/sec total size is 208,206 speedup is 1.59 building file list ... done spotfinder/core_toolbox/ @@ -73249,7 +73289,7 @@ smtbx/regression/test_data/thpp.hkl smtbx/regression/test_data/thpp.ins -sent 4,303,674 bytes received 8,722 bytes 8,624,792.00 bytes/sec +sent 4,305,781 bytes received 8,722 bytes 8,629,006.00 bytes/sec total size is 4,208,590 speedup is 0.98 make[1]: Leaving directory '/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1' dh_install -O--buildsystem=pybuild @@ -73271,15 +73311,15 @@ install -m0755 -d debian/python3-cctbx/usr/share/doc/python3-cctbx install -p -m0644 debian/copyright debian/python3-cctbx/usr/share/doc/python3-cctbx/copyright dh_installchangelogs -O--buildsystem=pybuild - install -m0755 -d debian/python3-cctbx/usr/share/doc/python3-cctbx - install -p -m0644 debian/.debhelper/generated/python3-cctbx/dh_installchangelogs.dch.trimmed debian/python3-cctbx/usr/share/doc/python3-cctbx/changelog.Debian - install -p -m0644 ./CHANGELOG.rst debian/python3-cctbx/usr/share/doc/python3-cctbx/changelog install -m0755 -d debian/libcctbx0/usr/share/doc/libcctbx0 install -p -m0644 debian/.debhelper/generated/libcctbx0/dh_installchangelogs.dch.trimmed debian/libcctbx0/usr/share/doc/libcctbx0/changelog.Debian install -p -m0644 ./CHANGELOG.rst debian/libcctbx0/usr/share/doc/libcctbx0/changelog install -m0755 -d debian/libcctbx-dev/usr/share/doc/libcctbx-dev install -p -m0644 debian/.debhelper/generated/libcctbx-dev/dh_installchangelogs.dch.trimmed debian/libcctbx-dev/usr/share/doc/libcctbx-dev/changelog.Debian install -p -m0644 ./CHANGELOG.rst debian/libcctbx-dev/usr/share/doc/libcctbx-dev/changelog + install -m0755 -d debian/python3-cctbx/usr/share/doc/python3-cctbx + install -p -m0644 debian/.debhelper/generated/python3-cctbx/dh_installchangelogs.dch.trimmed debian/python3-cctbx/usr/share/doc/python3-cctbx/changelog.Debian + install -p -m0644 ./CHANGELOG.rst debian/python3-cctbx/usr/share/doc/python3-cctbx/changelog dh_python3 -O--buildsystem=pybuild D: dh_python3 dh_python3:179: version: 6.20240422 D: dh_python3 dh_python3:180: argv: ['/usr/bin/dh_python3', '-O--buildsystem=pybuild'] @@ -74167,7 +74207,7 @@ D: dh_python3 tools:101: fix_shebang (debian/python3-cctbx/usr/bin/annlib.show_dist_paths): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:101: fix_shebang (debian/python3-cctbx/usr/bin/annlib.show_build_path): doesn't look like a shebang: #! /bin/sh D: dh_python3 tools:101: fix_shebang (debian/python3-cctbx/usr/bin/annlib.python): doesn't look like a shebang: #! /bin/sh -D: dh_python3 fs:335: package python3-cctbx details = {'requires.txt': {'debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.egg-info/requires.txt'}, 'egg-info': {'debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx-3.17.0.egg-info/PKG-INFO', 'debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.egg-info/PKG-INFO'}, 'dist-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.12'), Version('3.11')}, 'ext_no_version': set()} +D: dh_python3 fs:335: package python3-cctbx details = {'requires.txt': {'debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.egg-info/requires.txt'}, 'egg-info': {'debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx-2023.12.egg-info/PKG-INFO', 'debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx-3.17.0.egg-info/PKG-INFO'}, 'dist-info': set(), 'nsp.txt': set(), 'shebangs': set(), 'public_vers': {Version('3')}, 'private_dirs': {}, 'compile': True, 'ext_vers': {Version('3.11'), Version('3.12')}, 'ext_no_version': set()} D: dh_python3 depends:103: generating dependencies for package python3-cctbx D: dh_python3 pydist:173: trying to find dependency for PIL (python=None) D: dh_python3 pydist:207: dependency: module seems to be installed @@ -74214,7 +74254,7 @@ D: dh_python3 pydist:173: trying to find dependency for wxPython (python=None) D: dh_python3 pydist:207: dependency: module seems to be installed D: dh_python3 pydist:270: dependency: included in build-deps -D: dh_python3 depends:253: D={'python3-h5py (>= 3)', 'python3-numpy', 'python3-six', 'python3-tqdm', 'python3:any', 'python3-nxmx', 'python3-pil', 'python3-pymol', 'python3-procrunner', 'python3 (>= 3.11~)', 'python3-requests', 'python3-scipy', 'python3-wxgtk4.0', 'python3-matplotlib', 'python3-pint', 'python3-mrcfile', 'python3-orderedset', 'python3 (<< 3.13)'}; R=[]; S=[]; E=[], B=[]; RT=[] +D: dh_python3 depends:253: D={'python3-six', 'python3-h5py (>= 3)', 'python3-tqdm', 'python3-pymol', 'python3 (>= 3.11~)', 'python3-wxgtk4.0', 'python3-orderedset', 'python3-pint', 'python3-scipy', 'python3-nxmx', 'python3 (<< 3.13)', 'python3-matplotlib', 'python3-mrcfile', 'python3-procrunner', 'python3-requests', 'python3-pil', 'python3-numpy', 'python3:any'}; R=[]; S=[]; E=[], B=[]; RT=[] dh_installsystemduser -O--buildsystem=pybuild dh_lintian -O--buildsystem=pybuild install -m0755 -d debian/python3-cctbx/usr/share/lintian/overrides @@ -74314,39 +74354,39 @@ make[1]: Leaving directory '/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1' dh_strip_nondeterminism -O--buildsystem=pybuild Using 1709124340 as canonical time - Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx/bioinformatics/test/ncbi_blast.xml.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx/bioinformatics/test/ebi_blast.xml.gz using File::StripNondeterminism::handlers::gzip + Normalizing debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx/bioinformatics/test/ncbi_blast.xml.gz using File::StripNondeterminism::handlers::gzip dh_compress -O--buildsystem=pybuild cd debian/libcctbx0 cd debian/libcctbx-dev cd debian/python3-cctbx chmod a-x usr/share/doc/libcctbx0/changelog usr/share/doc/libcctbx0/changelog.Debian - chmod a-x usr/share/doc/python3-cctbx/changelog usr/share/doc/python3-cctbx/changelog.Debian chmod a-x usr/share/doc/libcctbx-dev/changelog usr/share/doc/libcctbx-dev/changelog.Debian gzip -9nf usr/share/doc/libcctbx0/changelog usr/share/doc/libcctbx0/changelog.Debian gzip -9nf usr/share/doc/libcctbx-dev/changelog usr/share/doc/libcctbx-dev/changelog.Debian - gzip -9nf usr/share/doc/python3-cctbx/changelog usr/share/doc/python3-cctbx/changelog.Debian + chmod a-x usr/share/doc/python3-cctbx/changelog usr/share/doc/python3-cctbx/changelog.Debian cd '/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1' + gzip -9nf usr/share/doc/python3-cctbx/changelog usr/share/doc/python3-cctbx/changelog.Debian cd '/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1' cd '/build/reproducible-path/cctbx-2023.12+ds2+~3.17.0+ds1' dh_fixperms -O--buildsystem=pybuild find debian/python3-cctbx ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s - find debian/libcctbx0 ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libcctbx-dev ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s - find debian/libcctbx0/usr/share/doc -type f -a -true -a ! -regex 'debian/libcctbx0/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libcctbx0 ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libcctbx-dev/usr/share/doc -type f -a -true -a ! -regex 'debian/libcctbx-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/libcctbx0/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 - find debian/python3-cctbx/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-cctbx/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libcctbx0/usr/share/doc -type f -a -true -a ! -regex 'debian/libcctbx0/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libcctbx-dev/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 - find debian/python3-cctbx/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 - find debian/python3-cctbx/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/libcctbx0 -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 - find debian/python3-cctbx -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/python3-cctbx/usr/share/doc -type f -a -true -a ! -regex 'debian/python3-cctbx/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libcctbx0/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libcctbx-dev/usr/include -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/libcctbx0 -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/python3-cctbx/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libcctbx0/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w - find debian/python3-cctbx/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/libcctbx-dev -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libcctbx-dev/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w + find debian/python3-cctbx/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/python3-cctbx -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 + find debian/python3-cctbx/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/python3-cctbx/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild @@ -74359,68 +74399,93 @@ objcopy --compress-debug-sections debian/python3-cctbx/usr/lib/debug/.dwz/aarch64-linux-gnu/python3-cctbx.debug chmod 0644 -- debian/python3-cctbx/usr/lib/debug/.dwz/aarch64-linux-gnu/python3-cctbx.debug dh_strip -a -O--buildsystem=pybuild - install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ee - objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_pdb.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ee/edc0667d8251274c12b0295bcd932ea9f40d0a.debug + install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/79 + objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/79/f3d5430ef811739a98ec0bc0dfffb0697a51e8.debug + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/d2f813b1c1da43d41fcc91b2190abde861aebc.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/d2f813b1c1da43d41fcc91b2190abde861aebc.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-312-aarch64-linux-gnu.so + chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/79/f3d5430ef811739a98ec0bc0dfffb0697a51e8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/d2f813b1c1da43d41fcc91b2190abde861aebc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/79/f3d5430ef811739a98ec0bc0dfffb0697a51e8.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/2f6002b4daa1b891b9a50680fa03c839968ab1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/2f6002b4daa1b891b9a50680fa03c839968ab1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/2f6002b4daa1b891b9a50680fa03c839968ab1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3/6340a8e323a4822f6ad01357b62317c6e082f9.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3/6340a8e323a4822f6ad01357b62317c6e082f9.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3/6340a8e323a4822f6ad01357b62317c6e082f9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ee + objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_pdb.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ee/edc0667d8251274c12b0295bcd932ea9f40d0a.debug + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e/e88eb4ebda524639a3b7fe68c32794c902ffee.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e/e88eb4ebda524639a3b7fe68c32794c902ffee.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e/e88eb4ebda524639a3b7fe68c32794c902ffee.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/c4e10e59f108498fbd9879e5f7b696ce17ab12.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/c4e10e59f108498fbd9879e5f7b696ce17ab12.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/c4e10e59f108498fbd9879e5f7b696ce17ab12.debug debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/ce256149d2de310f22856b190769bcb2ca601d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/ce256149d2de310f22856b190769bcb2ca601d.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/ce256149d2de310f22856b190769bcb2ca601d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3/6340a8e323a4822f6ad01357b62317c6e082f9.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3/6340a8e323a4822f6ad01357b62317c6e082f9.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3/6340a8e323a4822f6ad01357b62317c6e082f9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/ff584509ba6b8608a9fc6e4fe9d89c3897f495.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ee/edc0667d8251274c12b0295bcd932ea9f40d0a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_pdb.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/ee/edc0667d8251274c12b0295bcd932ea9f40d0a.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_pdb.so.0.0.1 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/9d87175fab1d37aa165602d7fc03876a241346.debug install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/f0 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/f0/c1c40c2c4cd227abe68be2368488f20693eeea.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/ff584509ba6b8608a9fc6e4fe9d89c3897f495.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/ff584509ba6b8608a9fc6e4fe9d89c3897f495.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/94949f83447c25014030fd616ce1367e144396.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/f0/c1c40c2c4cd227abe68be2368488f20693eeea.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/f0/c1c40c2c4cd227abe68be2368488f20693eeea.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/94949f83447c25014030fd616ce1367e144396.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/94949f83447c25014030fd616ce1367e144396.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/f6 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libspotfinder.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/f6/3480341f02c09dd18123b84a2b48bbad745557.debug + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/cb2b8b11faf1192fb8be691ceddbabe55d36d8.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/f6/3480341f02c09dd18123b84a2b48bbad745557.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libspotfinder.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/f6/3480341f02c09dd18123b84a2b48bbad745557.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libspotfinder.so.0.0.1 + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/cb2b8b11faf1192fb8be691ceddbabe55d36d8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/cb2b8b11faf1192fb8be691ceddbabe55d36d8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2d + objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2d/dfaeb14b3f5c66f713d87b85aa441040af71fe.debug + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/5ef84a4c408bb107bcf95d838764e82c32890c.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/5ef84a4c408bb107bcf95d838764e82c32890c.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so + chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2d/dfaeb14b3f5c66f713d87b85aa441040af71fe.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/5ef84a4c408bb107bcf95d838764e82c32890c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2d/dfaeb14b3f5c66f713d87b85aa441040af71fe.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/8a objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/librstbx.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/8a/476106322b74553aae4f54ed8e0c54fc1dfd7a.debug + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/8306d8b5713af2d5b885ab9e94c52fe5a8b9b5.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/8a/476106322b74553aae4f54ed8e0c54fc1dfd7a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/librstbx.so.0.0.1 - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/9d87175fab1d37aa165602d7fc03876a241346.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/8a/476106322b74553aae4f54ed8e0c54fc1dfd7a.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/librstbx.so.0.0.1 - install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/79 - objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/79/f3d5430ef811739a98ec0bc0dfffb0697a51e8.debug - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/9d87175fab1d37aa165602d7fc03876a241346.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/d2f813b1c1da43d41fcc91b2190abde861aebc.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/d2f813b1c1da43d41fcc91b2190abde861aebc.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/d2f813b1c1da43d41fcc91b2190abde861aebc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e/e88eb4ebda524639a3b7fe68c32794c902ffee.debug - chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/79/f3d5430ef811739a98ec0bc0dfffb0697a51e8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 - objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/79/f3d5430ef811739a98ec0bc0dfffb0697a51e8.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e/e88eb4ebda524639a3b7fe68c32794c902ffee.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/39 - objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_masks.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/39/a726c3ea5451f925c1c8b5056976273f7c5c75.debug - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3e/e88eb4ebda524639a3b7fe68c32794c902ffee.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/ff584509ba6b8608a9fc6e4fe9d89c3897f495.debug - chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/39/a726c3ea5451f925c1c8b5056976273f7c5c75.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_masks.so.0.0.1 - objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/39/a726c3ea5451f925c1c8b5056976273f7c5c75.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_masks.so.0.0.1 + install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/44 + objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/44/92e40294a9950dbf99fea47e98390d357bfd68.debug + chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/44/92e40294a9950dbf99fea47e98390d357bfd68.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 + objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/44/92e40294a9950dbf99fea47e98390d357bfd68.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_slatec.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12/dab91020e3afb684635c7e3c57c738fad58b4f.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/12/dab91020e3afb684635c7e3c57c738fad58b4f.debug @@ -74431,31 +74496,16 @@ chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/83/513d96d7aea8c01f97687546db9e463b69a0c7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_minpack.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/83/513d96d7aea8c01f97687546db9e463b69a0c7.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_minpack.so.0.0.1 - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/ff584509ba6b8608a9fc6e4fe9d89c3897f495.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/44 - objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/44/92e40294a9950dbf99fea47e98390d357bfd68.debug - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/ff584509ba6b8608a9fc6e4fe9d89c3897f495.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-311-aarch64-linux-gnu.so - chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/44/92e40294a9950dbf99fea47e98390d357bfd68.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 - objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/44/92e40294a9950dbf99fea47e98390d357bfd68.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 - install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2d - objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2d/dfaeb14b3f5c66f713d87b85aa441040af71fe.debug - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/ce256149d2de310f22856b190769bcb2ca601d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/ce256149d2de310f22856b190769bcb2ca601d.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/ce256149d2de310f22856b190769bcb2ca601d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/94949f83447c25014030fd616ce1367e144396.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/94949f83447c25014030fd616ce1367e144396.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/94949f83447c25014030fd616ce1367e144396.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/985b6b6707505f4b8b48fc6f949e28d41e8710.debug - chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2d/dfaeb14b3f5c66f713d87b85aa441040af71fe.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 - objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/2d/dfaeb14b3f5c66f713d87b85aa441040af71fe.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/8306d8b5713af2d5b885ab9e94c52fe5a8b9b5.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/39 + objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_masks.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/39/a726c3ea5451f925c1c8b5056976273f7c5c75.debug + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/8306d8b5713af2d5b885ab9e94c52fe5a8b9b5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/9d87175fab1d37aa165602d7fc03876a241346.debug + chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/39/a726c3ea5451f925c1c8b5056976273f7c5c75.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_masks.so.0.0.1 + objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/39/a726c3ea5451f925c1c8b5056976273f7c5c75.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_masks.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fb objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fb/c3a6cd30940ae82a055300858d8fefb1ff842d.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fb/c3a6cd30940ae82a055300858d8fefb1ff842d.debug @@ -74471,36 +74521,31 @@ chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/58/f798a17562649b4b370b1ca438d2878ff1ee1f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_tls.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/58/f798a17562649b4b370b1ca438d2878ff1ee1f.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_tls.so.0.0.1 - install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d7 - objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d7/55e9994fa583d77eabe2c925ec42b3a05ff5ff.debug - chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d7/55e9994fa583d77eabe2c925ec42b3a05ff5ff.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 - objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d7/55e9994fa583d77eabe2c925ec42b3a05ff5ff.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/de objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_xplor.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/de/a30b0d3ee86213f90cf62904d0941959205a46.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/de/a30b0d3ee86213f90cf62904d0941959205a46.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_xplor.so.0.0.1 - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/985b6b6707505f4b8b48fc6f949e28d41e8710.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/de/a30b0d3ee86213f90cf62904d0941959205a46.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_xplor.so.0.0.1 + install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d7 + objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d7/55e9994fa583d77eabe2c925ec42b3a05ff5ff.debug + chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d7/55e9994fa583d77eabe2c925ec42b3a05ff5ff.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 + objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/d7/55e9994fa583d77eabe2c925ec42b3a05ff5ff.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/15 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libdxtbxspotfinder.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/15/2bc7d6542d4ff78d7a0951f5c9b2a5fb6746b5.debug - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/985b6b6707505f4b8b48fc6f949e28d41e8710.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-311-aarch64-linux-gnu.so chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/15/2bc7d6542d4ff78d7a0951f5c9b2a5fb6746b5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libdxtbxspotfinder.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/15/2bc7d6542d4ff78d7a0951f5c9b2a5fb6746b5.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libdxtbxspotfinder.so.0.0.1 - install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fe - objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcbf-private.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fe/e0ee306c0109c1b6f8fd1d06f57468a5f66eb1.debug - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/cb2b8b11faf1192fb8be691ceddbabe55d36d8.debug - chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fe/e0ee306c0109c1b6f8fd1d06f57468a5f66eb1.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcbf-private.so.0.0.1 - objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fe/e0ee306c0109c1b6f8fd1d06f57468a5f66eb1.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcbf-private.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/81 objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libann_adaptor.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/81/bb950f8c4f38f4db0904947ddbc33c6c0d2e1a.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/81/bb950f8c4f38f4db0904947ddbc33c6c0d2e1a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libann_adaptor.so.0.0.1 objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/81/bb950f8c4f38f4db0904947ddbc33c6c0d2e1a.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libann_adaptor.so.0.0.1 + install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fe + objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcbf-private.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fe/e0ee306c0109c1b6f8fd1d06f57468a5f66eb1.debug + chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fe/e0ee306c0109c1b6f8fd1d06f57468a5f66eb1.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcbf-private.so.0.0.1 + objcopy --add-gnu-debuglink debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/fe/e0ee306c0109c1b6f8fd1d06f57468a5f66eb1.debug debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcbf-private.so.0.0.1 install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/8c objcopy --only-keep-debug --compress-debug-sections debian/libcctbx0/usr/lib/aarch64-linux-gnu/libccp4io.so.0.0.1 debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/8c/591ae929c81032389b9902e610c36e7205e30b.debug chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/usr/lib/debug/.build-id/8c/591ae929c81032389b9902e610c36e7205e30b.debug @@ -74513,44 +74558,29 @@ install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/usr/share/doc ln -s libcctbx0 debian/.debhelper/libcctbx0/dbgsym-root/usr/share/doc/libcctbx0-dbgsym install -m0755 -d debian/.debhelper/libcctbx0 - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/cb2b8b11faf1192fb8be691ceddbabe55d36d8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/cb2b8b11faf1192fb8be691ceddbabe55d36d8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/5ef84a4c408bb107bcf95d838764e82c32890c.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/5ef84a4c408bb107bcf95d838764e82c32890c.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/5ef84a4c408bb107bcf95d838764e82c32890c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/8306d8b5713af2d5b885ab9e94c52fe5a8b9b5.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/8306d8b5713af2d5b885ab9e94c52fe5a8b9b5.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/8306d8b5713af2d5b885ab9e94c52fe5a8b9b5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-312-aarch64-linux-gnu.so + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/9d87175fab1d37aa165602d7fc03876a241346.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/9d87175fab1d37aa165602d7fc03876a241346.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/985b6b6707505f4b8b48fc6f949e28d41e8710.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/985b6b6707505f4b8b48fc6f949e28d41e8710.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/985b6b6707505f4b8b48fc6f949e28d41e8710.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e9/cab21c58b2fbb50c56c2548a9d72e9bfe50413.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e9/cab21c58b2fbb50c56c2548a9d72e9bfe50413.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e9/cab21c58b2fbb50c56c2548a9d72e9bfe50413.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/eca9960a3cd2574df8e29418f9dd41472377c8.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/eca9960a3cd2574df8e29418f9dd41472377c8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/eca9960a3cd2574df8e29418f9dd41472377c8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/848921651f13ec9971fa1d3277bc204771c98b.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/848921651f13ec9971fa1d3277bc204771c98b.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/848921651f13ec9971fa1d3277bc204771c98b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e4 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e4/57567378d351d274c9c9b74237c1dfc8bdc7b3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e4/57567378d351d274c9c9b74237c1dfc8bdc7b3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e4/57567378d351d274c9c9b74237c1dfc8bdc7b3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/5c81a7bb111e879460a54efb89a65dda3bd966.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/5c81a7bb111e879460a54efb89a65dda3bd966.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/5c81a7bb111e879460a54efb89a65dda3bd966.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/eca9960a3cd2574df8e29418f9dd41472377c8.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/eca9960a3cd2574df8e29418f9dd41472377c8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/eca9960a3cd2574df8e29418f9dd41472377c8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/e3c25615ebb36421d5c5046c5ea09f8300cd63.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/e3c25615ebb36421d5c5046c5ea09f8300cd63.debug @@ -74561,31 +74591,56 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/3775b1af500f9cf6500c3e8cc789fd49d0c13d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/3775b1af500f9cf6500c3e8cc789fd49d0c13d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/a649a38b8e40e2d42866355c9af85726559cdb.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/a649a38b8e40e2d42866355c9af85726559cdb.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/a649a38b8e40e2d42866355c9af85726559cdb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/5c81a7bb111e879460a54efb89a65dda3bd966.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/5c81a7bb111e879460a54efb89a65dda3bd966.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/5c81a7bb111e879460a54efb89a65dda3bd966.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/848921651f13ec9971fa1d3277bc204771c98b.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/848921651f13ec9971fa1d3277bc204771c98b.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/848921651f13ec9971fa1d3277bc204771c98b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e/1c8c8f594cfe2d60ef6dd3d85f0b2bfa34b0bd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e/1c8c8f594cfe2d60ef6dd3d85f0b2bfa34b0bd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e/1c8c8f594cfe2d60ef6dd3d85f0b2bfa34b0bd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/a649a38b8e40e2d42866355c9af85726559cdb.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/a649a38b8e40e2d42866355c9af85726559cdb.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/a649a38b8e40e2d42866355c9af85726559cdb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/9d8b2729687d55589fe39851f9115d8748a00c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/9d8b2729687d55589fe39851f9115d8748a00c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/9d8b2729687d55589fe39851f9115d8748a00c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/506b9b1e7a93d2189f6d8648e37e8762a87aa2.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/506b9b1e7a93d2189f6d8648e37e8762a87aa2.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/506b9b1e7a93d2189f6d8648e37e8762a87aa2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/faab12d3555aa9d290635230c13490f18f4716.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/faab12d3555aa9d290635230c13490f18f4716.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/faab12d3555aa9d290635230c13490f18f4716.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/576d4767513c886e17010f2e910f7f675951a2.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/576d4767513c886e17010f2e910f7f675951a2.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/576d4767513c886e17010f2e910f7f675951a2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/506b9b1e7a93d2189f6d8648e37e8762a87aa2.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/506b9b1e7a93d2189f6d8648e37e8762a87aa2.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/96/506b9b1e7a93d2189f6d8648e37e8762a87aa2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/5e280265ae0dc0aec367e2257e59ec32f53b66.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/5e280265ae0dc0aec367e2257e59ec32f53b66.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/5e280265ae0dc0aec367e2257e59ec32f53b66.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/bd9ffd00120feae7073d9f39dc157709eae672.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/bd9ffd00120feae7073d9f39dc157709eae672.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/bd9ffd00120feae7073d9f39dc157709eae672.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/6e248b36410f5fe49cd02bb1f8ddeba825e358.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/6e248b36410f5fe49cd02bb1f8ddeba825e358.debug @@ -74596,36 +74651,26 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/712e4cbc92e20e4c041caa19c960d19c540e33.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/712e4cbc92e20e4c041caa19c960d19c540e33.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/bd9ffd00120feae7073d9f39dc157709eae672.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/bd9ffd00120feae7073d9f39dc157709eae672.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/bd9ffd00120feae7073d9f39dc157709eae672.debug debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/5e280265ae0dc0aec367e2257e59ec32f53b66.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/5e280265ae0dc0aec367e2257e59ec32f53b66.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e0/5e280265ae0dc0aec367e2257e59ec32f53b66.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/44759a59a39b125762237943ced454c2785c07.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/44759a59a39b125762237943ced454c2785c07.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/44759a59a39b125762237943ced454c2785c07.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/5d7acaa1e280d9ab2401b931f840e5b824914f.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/5d7acaa1e280d9ab2401b931f840e5b824914f.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/5d7acaa1e280d9ab2401b931f840e5b824914f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/576d4767513c886e17010f2e910f7f675951a2.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/576d4767513c886e17010f2e910f7f675951a2.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/576d4767513c886e17010f2e910f7f675951a2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-311-aarch64-linux-gnu.so + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/0fb51bd749ad4957a326c6885d93dd12f26192.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/0fb51bd749ad4957a326c6885d93dd12f26192.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/0fb51bd749ad4957a326c6885d93dd12f26192.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/5fd049a6a7713b4d4249bb0adfe29c45792e2b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/5fd049a6a7713b4d4249bb0adfe29c45792e2b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/5fd049a6a7713b4d4249bb0adfe29c45792e2b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/0fb51bd749ad4957a326c6885d93dd12f26192.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/0fb51bd749ad4957a326c6885d93dd12f26192.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/0fb51bd749ad4957a326c6885d93dd12f26192.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/44759a59a39b125762237943ced454c2785c07.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/44759a59a39b125762237943ced454c2785c07.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/44759a59a39b125762237943ced454c2785c07.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/65b0c6fd155cd9f1c84739d8fd6ada7f51b57e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6b/65b0c6fd155cd9f1c84739d8fd6ada7f51b57e.debug @@ -74651,21 +74696,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/d62233a6f921bb51495660d3dfde1ef2e77c92.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/d62233a6f921bb51495660d3dfde1ef2e77c92.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/64310bd5f0b087231e52e7d47e266e484882a5.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/64310bd5f0b087231e52e7d47e266e484882a5.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/64310bd5f0b087231e52e7d47e266e484882a5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/5d7acaa1e280d9ab2401b931f840e5b824914f.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/5d7acaa1e280d9ab2401b931f840e5b824914f.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b2/5d7acaa1e280d9ab2401b931f840e5b824914f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d/c8dbba32d2288727b7db1b89322159ae6b4c62.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d/c8dbba32d2288727b7db1b89322159ae6b4c62.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2d/c8dbba32d2288727b7db1b89322159ae6b4c62.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/64310bd5f0b087231e52e7d47e266e484882a5.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/64310bd5f0b087231e52e7d47e266e484882a5.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/64310bd5f0b087231e52e7d47e266e484882a5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/f2314b0ca313216b875969327645e6e883da57.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/f2314b0ca313216b875969327645e6e883da57.debug @@ -74681,16 +74721,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/e482de438880c94876a3935282474564d28f7e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/e482de438880c94876a3935282474564d28f7e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/849efac773899f961025b4a386d02484f7ff26.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/849efac773899f961025b4a386d02484f7ff26.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/849efac773899f961025b4a386d02484f7ff26.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/8d16b5e5fb3698f712d1111b4803a5f05261a0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/8d16b5e5fb3698f712d1111b4803a5f05261a0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/8d16b5e5fb3698f712d1111b4803a5f05261a0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/849efac773899f961025b4a386d02484f7ff26.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/849efac773899f961025b4a386d02484f7ff26.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/849efac773899f961025b4a386d02484f7ff26.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/ca9492cd0daecd8301dc67624bfe3f15e80051.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/ca9492cd0daecd8301dc67624bfe3f15e80051.debug @@ -74711,31 +74751,26 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/1b9551fca77580f98c5e2d48523df1a677d296.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ff/1b9551fca77580f98c5e2d48523df1a677d296.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/6095bfc4c27eb0b78434beb1aba4430dff2d40.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/6095bfc4c27eb0b78434beb1aba4430dff2d40.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/6095bfc4c27eb0b78434beb1aba4430dff2d40.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/09bc6b8453de1004279435e60b19f66b5f3341.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/09bc6b8453de1004279435e60b19f66b5f3341.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/09bc6b8453de1004279435e60b19f66b5f3341.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/b60deab407872f43bc9807f0de6fcfcb06e4ed.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/b60deab407872f43bc9807f0de6fcfcb06e4ed.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/b60deab407872f43bc9807f0de6fcfcb06e4ed.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/44e6ce2631d3918bd5ba6223c5b7e8abaa48b4.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/44e6ce2631d3918bd5ba6223c5b7e8abaa48b4.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/44e6ce2631d3918bd5ba6223c5b7e8abaa48b4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/33e8ab79eaf4556033b440f332f53eb1dfe654.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/33e8ab79eaf4556033b440f332f53eb1dfe654.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/33e8ab79eaf4556033b440f332f53eb1dfe654.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/6095bfc4c27eb0b78434beb1aba4430dff2d40.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/6095bfc4c27eb0b78434beb1aba4430dff2d40.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/6095bfc4c27eb0b78434beb1aba4430dff2d40.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/b60deab407872f43bc9807f0de6fcfcb06e4ed.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/b60deab407872f43bc9807f0de6fcfcb06e4ed.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/b60deab407872f43bc9807f0de6fcfcb06e4ed.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/91607366f4077bcd9ec885eb2a822704bdf544.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/91607366f4077bcd9ec885eb2a822704bdf544.debug @@ -74746,6 +74781,11 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/565fe92ca3931c3040498a76482e9d8ff30087.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/565fe92ca3931c3040498a76482e9d8ff30087.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/33e8ab79eaf4556033b440f332f53eb1dfe654.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/33e8ab79eaf4556033b440f332f53eb1dfe654.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/33e8ab79eaf4556033b440f332f53eb1dfe654.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/e70de13f9cee3f932fead1834baffd77cb3ffd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/93/e70de13f9cee3f932fead1834baffd77cb3ffd.debug @@ -74761,11 +74801,6 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/648c33208459eeee76eeef3054fd45415f777c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/648c33208459eeee76eeef3054fd45415f777c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7/43efbbd4f2ba6162a9037e46d122170a6d4fbd.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7/43efbbd4f2ba6162a9037e46d122170a6d4fbd.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7/43efbbd4f2ba6162a9037e46d122170a6d4fbd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/53c6f23a1c3a11d8c78c936ad2baab766d23f9.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/53c6f23a1c3a11d8c78c936ad2baab766d23f9.debug @@ -74776,26 +74811,31 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/3ac3ed24e9ae09739558111e5c9480fb3611fb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/3ac3ed24e9ae09739558111e5c9480fb3611fb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/4da73f87536368345644a68bdf33e44c29105f.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/4da73f87536368345644a68bdf33e44c29105f.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/4da73f87536368345644a68bdf33e44c29105f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7/43efbbd4f2ba6162a9037e46d122170a6d4fbd.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7/43efbbd4f2ba6162a9037e46d122170a6d4fbd.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7/43efbbd4f2ba6162a9037e46d122170a6d4fbd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76/5703a63623e62e4a6063cd610141acf9c6a856.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76/5703a63623e62e4a6063cd610141acf9c6a856.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/76/5703a63623e62e4a6063cd610141acf9c6a856.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/81680ab681721c9ed78a058ab99984191f6137.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/81680ab681721c9ed78a058ab99984191f6137.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/81680ab681721c9ed78a058ab99984191f6137.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/1d75858689ecd344e69dd8c446f7c58e1c5def.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/1d75858689ecd344e69dd8c446f7c58e1c5def.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/1d75858689ecd344e69dd8c446f7c58e1c5def.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/4da73f87536368345644a68bdf33e44c29105f.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/4da73f87536368345644a68bdf33e44c29105f.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/4da73f87536368345644a68bdf33e44c29105f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/81680ab681721c9ed78a058ab99984191f6137.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/81680ab681721c9ed78a058ab99984191f6137.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/81680ab681721c9ed78a058ab99984191f6137.debug debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/7b191474431cb17e676b7476ded872ce47f72a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/7b191474431cb17e676b7476ded872ce47f72a.debug @@ -74826,26 +74866,26 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/12/d966f40fcbb29761815f241218124d2545ef0f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/12/d966f40fcbb29761815f241218124d2545ef0f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/ac044a6cdb36ac74fa8499e4de9e21e0e28959.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/ac044a6cdb36ac74fa8499e4de9e21e0e28959.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/ac044a6cdb36ac74fa8499e4de9e21e0e28959.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e/f6c3c3a6a22c2713442e60a82f01c2adc9cdad.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e/f6c3c3a6a22c2713442e60a82f01c2adc9cdad.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9e/f6c3c3a6a22c2713442e60a82f01c2adc9cdad.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7038d83e54d00cbb08f4951da91f8df26af95f.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7038d83e54d00cbb08f4951da91f8df26af95f.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7038d83e54d00cbb08f4951da91f8df26af95f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/89 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/89/4bd8ce459afc34f403580d21b7686599210981.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/89/4bd8ce459afc34f403580d21b7686599210981.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/89/4bd8ce459afc34f403580d21b7686599210981.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/ac044a6cdb36ac74fa8499e4de9e21e0e28959.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/ac044a6cdb36ac74fa8499e4de9e21e0e28959.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/ac044a6cdb36ac74fa8499e4de9e21e0e28959.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7038d83e54d00cbb08f4951da91f8df26af95f.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7038d83e54d00cbb08f4951da91f8df26af95f.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7038d83e54d00cbb08f4951da91f8df26af95f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6/2c2155e671785d163dae1eab42e6cb09e569b1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f6/2c2155e671785d163dae1eab42e6cb09e569b1.debug @@ -74861,31 +74901,26 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/272951fc472c03267863ba5b92ac38ea7cd2c3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a0/272951fc472c03267863ba5b92ac38ea7cd2c3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/cefc32bc95f05864a5d7699a6179927af5bce8.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/cefc32bc95f05864a5d7699a6179927af5bce8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/cefc32bc95f05864a5d7699a6179927af5bce8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/f8daecc2804a329c0eab71309b193bc98bc7aa.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/f8daecc2804a329c0eab71309b193bc98bc7aa.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/f8daecc2804a329c0eab71309b193bc98bc7aa.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/5121400d2a6fe36b9e785b1de21673df95602e.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/5121400d2a6fe36b9e785b1de21673df95602e.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/5121400d2a6fe36b9e785b1de21673df95602e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/cefc32bc95f05864a5d7699a6179927af5bce8.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/cefc32bc95f05864a5d7699a6179927af5bce8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/cefc32bc95f05864a5d7699a6179927af5bce8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e5/b899a1dabfd16f8cec974beed0fb3363dd7fb4.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e5/b899a1dabfd16f8cec974beed0fb3363dd7fb4.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e5/b899a1dabfd16f8cec974beed0fb3363dd7fb4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/c5a15ee377f0d24ea740426e7b06e8308917c0.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/c5a15ee377f0d24ea740426e7b06e8308917c0.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/c5a15ee377f0d24ea740426e7b06e8308917c0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/5121400d2a6fe36b9e785b1de21673df95602e.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/5121400d2a6fe36b9e785b1de21673df95602e.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/5121400d2a6fe36b9e785b1de21673df95602e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/e784753ee3e36dc767ff02e4224a43902753a6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/e784753ee3e36dc767ff02e4224a43902753a6.debug @@ -74896,31 +74931,26 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/16/1dd5276ddad40faaf42c576ff24085ae863b67.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/16/1dd5276ddad40faaf42c576ff24085ae863b67.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/d92d6ad964ac4acbd7cd61da0452e169becc4e.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/d92d6ad964ac4acbd7cd61da0452e169becc4e.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/d92d6ad964ac4acbd7cd61da0452e169becc4e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/3241418aa6ccc8b83fb80a9bc3a37e0972dbd9.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/3241418aa6ccc8b83fb80a9bc3a37e0972dbd9.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/3241418aa6ccc8b83fb80a9bc3a37e0972dbd9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/e1045cc6ab6b9c7ee33b6a7eb0c3464b6dd31c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/e1045cc6ab6b9c7ee33b6a7eb0c3464b6dd31c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/e1045cc6ab6b9c7ee33b6a7eb0c3464b6dd31c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/75e2d69f3ebe3560031f38112f82edc3df09e4.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/75e2d69f3ebe3560031f38112f82edc3df09e4.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/75e2d69f3ebe3560031f38112f82edc3df09e4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/62504ee2585f0dcebc69b162f5a55a67c95d2c.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/62504ee2585f0dcebc69b162f5a55a67c95d2c.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/62504ee2585f0dcebc69b162f5a55a67c95d2c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/3241418aa6ccc8b83fb80a9bc3a37e0972dbd9.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/3241418aa6ccc8b83fb80a9bc3a37e0972dbd9.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/3241418aa6ccc8b83fb80a9bc3a37e0972dbd9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/c5a15ee377f0d24ea740426e7b06e8308917c0.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/c5a15ee377f0d24ea740426e7b06e8308917c0.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fc/c5a15ee377f0d24ea740426e7b06e8308917c0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/d92d6ad964ac4acbd7cd61da0452e169becc4e.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/d92d6ad964ac4acbd7cd61da0452e169becc4e.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/d92d6ad964ac4acbd7cd61da0452e169becc4e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/ad939ac97d73e3dd838c4d8c43cd96c4edea7f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/ad939ac97d73e3dd838c4d8c43cd96c4edea7f.debug @@ -74931,6 +74961,11 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/2e991246d92451166d3ad7be141a1c4602225a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/2e991246d92451166d3ad7be141a1c4602225a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/62504ee2585f0dcebc69b162f5a55a67c95d2c.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/62504ee2585f0dcebc69b162f5a55a67c95d2c.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ab/62504ee2585f0dcebc69b162f5a55a67c95d2c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/3a89bec00a8f8686f857458cb47ba6a35bdcbd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/3a89bec00a8f8686f857458cb47ba6a35bdcbd.debug @@ -74946,51 +74981,66 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/47/3673d5079bca4e789cc7ff32c84069c4835edb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/47/3673d5079bca4e789cc7ff32c84069c4835edb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/579e52ee2d2724a934ca6ca01447505a793e7f.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/579e52ee2d2724a934ca6ca01447505a793e7f.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/579e52ee2d2724a934ca6ca01447505a793e7f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4547e57bd84ff9c625bb8a921980ce301c168.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4547e57bd84ff9c625bb8a921980ce301c168.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4547e57bd84ff9c625bb8a921980ce301c168.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/75e2d69f3ebe3560031f38112f82edc3df09e4.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/75e2d69f3ebe3560031f38112f82edc3df09e4.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/88/75e2d69f3ebe3560031f38112f82edc3df09e4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7a/bf088e15ee92d64eea61f9caebddb881610175.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7a/bf088e15ee92d64eea61f9caebddb881610175.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7a/bf088e15ee92d64eea61f9caebddb881610175.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c0f01c0d9a93f9bc519decb4371e062cd57c0c.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c0f01c0d9a93f9bc519decb4371e062cd57c0c.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c0f01c0d9a93f9bc519decb4371e062cd57c0c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4547e57bd84ff9c625bb8a921980ce301c168.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4547e57bd84ff9c625bb8a921980ce301c168.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4547e57bd84ff9c625bb8a921980ce301c168.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/c79a385f23b19d05aef7644d1fdbdef173c7b8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/c79a385f23b19d05aef7644d1fdbdef173c7b8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/55/c79a385f23b19d05aef7644d1fdbdef173c7b8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/70fa7b310f0e3f37e1d57e92a975f87e8d70f3.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/70fa7b310f0e3f37e1d57e92a975f87e8d70f3.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/70fa7b310f0e3f37e1d57e92a975f87e8d70f3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/579e52ee2d2724a934ca6ca01447505a793e7f.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/579e52ee2d2724a934ca6ca01447505a793e7f.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/579e52ee2d2724a934ca6ca01447505a793e7f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/d13b06f574df5383cd6ea39a85db4e6504ef39.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/d13b06f574df5383cd6ea39a85db4e6504ef39.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/d13b06f574df5383cd6ea39a85db4e6504ef39.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/b79c79df8982dc32cc35458d5a41979dcbd990.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/b79c79df8982dc32cc35458d5a41979dcbd990.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/b79c79df8982dc32cc35458d5a41979dcbd990.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/70fa7b310f0e3f37e1d57e92a975f87e8d70f3.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/70fa7b310f0e3f37e1d57e92a975f87e8d70f3.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/70fa7b310f0e3f37e1d57e92a975f87e8d70f3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c0f01c0d9a93f9bc519decb4371e062cd57c0c.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c0f01c0d9a93f9bc519decb4371e062cd57c0c.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/c0f01c0d9a93f9bc519decb4371e062cd57c0c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/2403ede7c3dc313a303a8948f90905bf2d5249.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/2403ede7c3dc313a303a8948f90905bf2d5249.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/2403ede7c3dc313a303a8948f90905bf2d5249.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/6fbd45aa0ea1b45e50c938dd2e9529a71163eb.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/6fbd45aa0ea1b45e50c938dd2e9529a71163eb.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/6fbd45aa0ea1b45e50c938dd2e9529a71163eb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/b79c79df8982dc32cc35458d5a41979dcbd990.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/b79c79df8982dc32cc35458d5a41979dcbd990.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/b79c79df8982dc32cc35458d5a41979dcbd990.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/a2445bdc69c8087e181eb2bade02ef96a65ef8.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/a2445bdc69c8087e181eb2bade02ef96a65ef8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/a2445bdc69c8087e181eb2bade02ef96a65ef8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/aaac768049bc57f6f0dff54d40cd7acdb31380.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fe/aaac768049bc57f6f0dff54d40cd7acdb31380.debug @@ -75001,16 +75051,6 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/169655fdb09202c7159c4eebfef4c063168597.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ed/169655fdb09202c7159c4eebfef4c063168597.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/a2445bdc69c8087e181eb2bade02ef96a65ef8.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/a2445bdc69c8087e181eb2bade02ef96a65ef8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/a2445bdc69c8087e181eb2bade02ef96a65ef8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/6fbd45aa0ea1b45e50c938dd2e9529a71163eb.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/6fbd45aa0ea1b45e50c938dd2e9529a71163eb.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/6fbd45aa0ea1b45e50c938dd2e9529a71163eb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/bcd13c29222173ab75cb6e702df102da8e7a71.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7c/bcd13c29222173ab75cb6e702df102da8e7a71.debug @@ -75036,16 +75076,21 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43/bde158b4a98cd19b9d5810a456b430ac3e4497.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/43/bde158b4a98cd19b9d5810a456b430ac3e4497.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/b554900df8bd31415c1ee0ebbec5b9114de8fc.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/b554900df8bd31415c1ee0ebbec5b9114de8fc.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/b554900df8bd31415c1ee0ebbec5b9114de8fc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/2fab109d38db2225ef6843fefcd9cb30a39f17.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/2fab109d38db2225ef6843fefcd9cb30a39f17.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/2fab109d38db2225ef6843fefcd9cb30a39f17.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/b554900df8bd31415c1ee0ebbec5b9114de8fc.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/b554900df8bd31415c1ee0ebbec5b9114de8fc.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0f/b554900df8bd31415c1ee0ebbec5b9114de8fc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/e0c6edec932b2f0ebe8b6646c3891833590f79.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/e0c6edec932b2f0ebe8b6646c3891833590f79.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/e0c6edec932b2f0ebe8b6646c3891833590f79.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f7/d7b9cb879c633689e4be9f79c2485208aef355.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f7/d7b9cb879c633689e4be9f79c2485208aef355.debug @@ -75056,31 +75101,21 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/31/1caff70cfa118681a7a74d8b3d034d30bfe265.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/31/1caff70cfa118681a7a74d8b3d034d30bfe265.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c5 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c5/5facbe7e3c5132db6e008a6ff8126087d6abe9.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c5/5facbe7e3c5132db6e008a6ff8126087d6abe9.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c5/5facbe7e3c5132db6e008a6ff8126087d6abe9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/e0c6edec932b2f0ebe8b6646c3891833590f79.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/e0c6edec932b2f0ebe8b6646c3891833590f79.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/e0c6edec932b2f0ebe8b6646c3891833590f79.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/8418e8b9ca9082d64c957bebf0ec1a44da07f4.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/8418e8b9ca9082d64c957bebf0ec1a44da07f4.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c1/8418e8b9ca9082d64c957bebf0ec1a44da07f4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c5 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c5/5facbe7e3c5132db6e008a6ff8126087d6abe9.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c5/5facbe7e3c5132db6e008a6ff8126087d6abe9.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c5/5facbe7e3c5132db6e008a6ff8126087d6abe9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d/a1d3da010b1191cd11cced5a6f809817d68a9d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d/a1d3da010b1191cd11cced5a6f809817d68a9d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d/a1d3da010b1191cd11cced5a6f809817d68a9d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/13db5c285f10768ad134a966c9020899fef37c.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/13db5c285f10768ad134a966c9020899fef37c.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/13db5c285f10768ad134a966c9020899fef37c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/3d53a18fc69c57c1a347541bc3f2241fc27747.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/90/3d53a18fc69c57c1a347541bc3f2241fc27747.debug @@ -75091,6 +75126,11 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/2541bc9f35bdc3075bcf1e376ba06522a3bc8f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/2541bc9f35bdc3075bcf1e376ba06522a3bc8f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/13db5c285f10768ad134a966c9020899fef37c.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/13db5c285f10768ad134a966c9020899fef37c.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/10/13db5c285f10768ad134a966c9020899fef37c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40/adc3e6b3b64a0ceb3cc1b04f2a8432a2738104.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40/adc3e6b3b64a0ceb3cc1b04f2a8432a2738104.debug @@ -75101,26 +75141,26 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/73/da44324b9e539c8a10b4536105dd65d1086eef.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/73/da44324b9e539c8a10b4536105dd65d1086eef.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/19 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/19/37440a3f079276268f1f8530202123cbcee62d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/19/37440a3f079276268f1f8530202123cbcee62d.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/19/37440a3f079276268f1f8530202123cbcee62d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/f707eda0b488595c3e7c65c966ce2c783c7520.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/f707eda0b488595c3e7c65c966ce2c783c7520.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/f707eda0b488595c3e7c65c966ce2c783c7520.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1c/71753d0239b97594a959afab5f96babef4aff3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1c/71753d0239b97594a959afab5f96babef4aff3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1c/71753d0239b97594a959afab5f96babef4aff3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/19 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/19/37440a3f079276268f1f8530202123cbcee62d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/19/37440a3f079276268f1f8530202123cbcee62d.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/19/37440a3f079276268f1f8530202123cbcee62d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/73 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/73/8e820a123a35650615be79fbee1ed814e94581.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/73/8e820a123a35650615be79fbee1ed814e94581.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/73/8e820a123a35650615be79fbee1ed814e94581.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/f707eda0b488595c3e7c65c966ce2c783c7520.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/f707eda0b488595c3e7c65c966ce2c783c7520.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/f707eda0b488595c3e7c65c966ce2c783c7520.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e2 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e2/024741235db665362ff9abe60d5854e51fedac.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e2/024741235db665362ff9abe60d5854e51fedac.debug @@ -75131,6 +75171,11 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/f528f1979f98d6f11b9c9588c110f9522085b3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/f528f1979f98d6f11b9c9588c110f9522085b3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8f3ab65cee15e8457aafb061e1b19ab1e11088.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8f3ab65cee15e8457aafb061e1b19ab1e11088.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8f3ab65cee15e8457aafb061e1b19ab1e11088.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/a5797505a2f978c3949bb7fa92c94de4ec81a2.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/a5797505a2f978c3949bb7fa92c94de4ec81a2.debug @@ -75141,26 +75186,41 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/a7ecb0825d183ac97e3c50c7e0bd4e645aa61d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5b/a7ecb0825d183ac97e3c50c7e0bd4e645aa61d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8f3ab65cee15e8457aafb061e1b19ab1e11088.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8f3ab65cee15e8457aafb061e1b19ab1e11088.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8f3ab65cee15e8457aafb061e1b19ab1e11088.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/71fd2b68391860d47541061b0bd1637adddd06.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/71fd2b68391860d47541061b0bd1637adddd06.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/71fd2b68391860d47541061b0bd1637adddd06.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/4aa1817dd61a1529945f62f5273379e1355c91.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/4aa1817dd61a1529945f62f5273379e1355c91.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/4aa1817dd61a1529945f62f5273379e1355c91.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/13253dddb9813874218c9c2d7e7bb704f7e12d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/13253dddb9813874218c9c2d7e7bb704f7e12d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/54/13253dddb9813874218c9c2d7e7bb704f7e12d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/71fd2b68391860d47541061b0bd1637adddd06.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/71fd2b68391860d47541061b0bd1637adddd06.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/86/71fd2b68391860d47541061b0bd1637adddd06.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b/c8a9e3dfd1956914c15d978cdfc4e3e2ef8e7d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b/c8a9e3dfd1956914c15d978cdfc4e3e2ef8e7d.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b/c8a9e3dfd1956914c15d978cdfc4e3e2ef8e7d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/61bbf99964aaa22b55506f944be4ec1cac284f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/61bbf99964aaa22b55506f944be4ec1cac284f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/61bbf99964aaa22b55506f944be4ec1cac284f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/99ce601f1ec4016c2c721cb5141d7720d392c1.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/99ce601f1ec4016c2c721cb5141d7720d392c1.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/99ce601f1ec4016c2c721cb5141d7720d392c1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/4f75e5933319b9732a862e65a1cb156ff53daa.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/4f75e5933319b9732a862e65a1cb156ff53daa.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/4f75e5933319b9732a862e65a1cb156ff53daa.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/cc8738a535502ec1687a6d20f7b183f5ab77ee.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/cc8738a535502ec1687a6d20f7b183f5ab77ee.debug @@ -75171,26 +75231,6 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/632c73a0f6bffadbb05d5f97385378cc0e51b7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/632c73a0f6bffadbb05d5f97385378cc0e51b7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b/c8a9e3dfd1956914c15d978cdfc4e3e2ef8e7d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b/c8a9e3dfd1956914c15d978cdfc4e3e2ef8e7d.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1b/c8a9e3dfd1956914c15d978cdfc4e3e2ef8e7d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/4aa1817dd61a1529945f62f5273379e1355c91.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/4aa1817dd61a1529945f62f5273379e1355c91.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/4aa1817dd61a1529945f62f5273379e1355c91.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/4f75e5933319b9732a862e65a1cb156ff53daa.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/4f75e5933319b9732a862e65a1cb156ff53daa.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/4f75e5933319b9732a862e65a1cb156ff53daa.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/99ce601f1ec4016c2c721cb5141d7720d392c1.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/99ce601f1ec4016c2c721cb5141d7720d392c1.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d8/99ce601f1ec4016c2c721cb5141d7720d392c1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a9/1118ddeded2bc9aa13fedb5a280801f6e8378e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a9/1118ddeded2bc9aa13fedb5a280801f6e8378e.debug @@ -75201,126 +75241,131 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/27dcc15120c14ed49cf0b76d0ad0ef7b0da34e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/27dcc15120c14ed49cf0b76d0ad0ef7b0da34e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/191569bd40ec755ee64e9bfa49e3f4bd3654c0.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/191569bd40ec755ee64e9bfa49e3f4bd3654c0.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/191569bd40ec755ee64e9bfa49e3f4bd3654c0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/cc5d856fe17660df936d3e70336bb1a534da5f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/cc5d856fe17660df936d3e70336bb1a534da5f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/cc5d856fe17660df936d3e70336bb1a534da5f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/191569bd40ec755ee64e9bfa49e3f4bd3654c0.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/191569bd40ec755ee64e9bfa49e3f4bd3654c0.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/191569bd40ec755ee64e9bfa49e3f4bd3654c0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/c4dff8b6a2e04fa98aa6ca8935d85e433d06a9.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/c4dff8b6a2e04fa98aa6ca8935d85e433d06a9.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/c4dff8b6a2e04fa98aa6ca8935d85e433d06a9.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/03e78449ec4f42a04ba0b4b10e4f715cd70678.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/03e78449ec4f42a04ba0b4b10e4f715cd70678.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/03e78449ec4f42a04ba0b4b10e4f715cd70678.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/7fd4bb7c3391f588c23093c74424cf45820c73.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/7fd4bb7c3391f588c23093c74424cf45820c73.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f2/7fd4bb7c3391f588c23093c74424cf45820c73.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/e510994c4a7f8e9b7c9c93a7e8989ffc488fe2.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/e510994c4a7f8e9b7c9c93a7e8989ffc488fe2.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/e510994c4a7f8e9b7c9c93a7e8989ffc488fe2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/2ad04b4f995631fe6306ed8ad588a6403998e5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/2ad04b4f995631fe6306ed8ad588a6403998e5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f9/2ad04b4f995631fe6306ed8ad588a6403998e5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/03e78449ec4f42a04ba0b4b10e4f715cd70678.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/03e78449ec4f42a04ba0b4b10e4f715cd70678.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/03e78449ec4f42a04ba0b4b10e4f715cd70678.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-311-aarch64-linux-gnu.so + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/e510994c4a7f8e9b7c9c93a7e8989ffc488fe2.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/e510994c4a7f8e9b7c9c93a7e8989ffc488fe2.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/e510994c4a7f8e9b7c9c93a7e8989ffc488fe2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/789adfb0080414e634c57348c912429696a8d3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/789adfb0080414e634c57348c912429696a8d3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/789adfb0080414e634c57348c912429696a8d3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7e5937ae71e67a85d92e2e824df149fe9bb427.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7e5937ae71e67a85d92e2e824df149fe9bb427.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7e5937ae71e67a85d92e2e824df149fe9bb427.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/82082a5e14c594138c24bb8891bb41bf677357.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/82082a5e14c594138c24bb8891bb41bf677357.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/82082a5e14c594138c24bb8891bb41bf677357.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/4ff7a02dd77689f928d91e475b54c178fc2b18.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/4ff7a02dd77689f928d91e475b54c178fc2b18.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/4ff7a02dd77689f928d91e475b54c178fc2b18.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2/d3fa0f40d353674a1de128ca19cdc6a536ccaa.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2/d3fa0f40d353674a1de128ca19cdc6a536ccaa.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2/d3fa0f40d353674a1de128ca19cdc6a536ccaa.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/7781c468a50563b0c915abf95ea0a1543ae540.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/7781c468a50563b0c915abf95ea0a1543ae540.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/7781c468a50563b0c915abf95ea0a1543ae540.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7e5937ae71e67a85d92e2e824df149fe9bb427.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7e5937ae71e67a85d92e2e824df149fe9bb427.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/7e5937ae71e67a85d92e2e824df149fe9bb427.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/a48b4093218bd3c1b056542d7645bac12495df.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/a48b4093218bd3c1b056542d7645bac12495df.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/74/a48b4093218bd3c1b056542d7645bac12495df.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/4f750c9dccead9a4170c6ef8d73e30de7050ff.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/4f750c9dccead9a4170c6ef8d73e30de7050ff.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/4f750c9dccead9a4170c6ef8d73e30de7050ff.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2/d3fa0f40d353674a1de128ca19cdc6a536ccaa.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2/d3fa0f40d353674a1de128ca19cdc6a536ccaa.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d2/d3fa0f40d353674a1de128ca19cdc6a536ccaa.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/931e16f23e6b82692e094e1700c43d29b65da8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/931e16f23e6b82692e094e1700c43d29b65da8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/931e16f23e6b82692e094e1700c43d29b65da8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/7781c468a50563b0c915abf95ea0a1543ae540.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/7781c468a50563b0c915abf95ea0a1543ae540.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/7781c468a50563b0c915abf95ea0a1543ae540.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/4f750c9dccead9a4170c6ef8d73e30de7050ff.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/4f750c9dccead9a4170c6ef8d73e30de7050ff.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/4f750c9dccead9a4170c6ef8d73e30de7050ff.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/4ca17da47b0f2696b8d6f5894a8444f170a80a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/4ca17da47b0f2696b8d6f5894a8444f170a80a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/4ca17da47b0f2696b8d6f5894a8444f170a80a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/82082a5e14c594138c24bb8891bb41bf677357.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/82082a5e14c594138c24bb8891bb41bf677357.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/82082a5e14c594138c24bb8891bb41bf677357.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/06c16ec303c4a1004104529eca5949c30b7739.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/06c16ec303c4a1004104529eca5949c30b7739.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/06c16ec303c4a1004104529eca5949c30b7739.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/459e9876bc6297cf4e6eeb56b2ed72a6fa3867.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/459e9876bc6297cf4e6eeb56b2ed72a6fa3867.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/44/459e9876bc6297cf4e6eeb56b2ed72a6fa3867.debug debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/06c16ec303c4a1004104529eca5949c30b7739.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/06c16ec303c4a1004104529eca5949c30b7739.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/15/06c16ec303c4a1004104529eca5949c30b7739.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/d6f8227a4464b9a75e520fd9b323aede2f7040.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/d6f8227a4464b9a75e520fd9b323aede2f7040.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/85/d6f8227a4464b9a75e520fd9b323aede2f7040.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/89a4eafa5ef9e8bbc3297587337c1a1bc2bbe8.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/89a4eafa5ef9e8bbc3297587337c1a1bc2bbe8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/89a4eafa5ef9e8bbc3297587337c1a1bc2bbe8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/1bd2e21e1ec114d0fd52726cfbf18914114275.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/1bd2e21e1ec114d0fd52726cfbf18914114275.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/1bd2e21e1ec114d0fd52726cfbf18914114275.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/1e170f16604694e945e96cbc77bee1b25f2658.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/1e170f16604694e945e96cbc77bee1b25f2658.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/1e170f16604694e945e96cbc77bee1b25f2658.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/5f6c7c2a05de016fbbde8f8f39ba4cc3680c73.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/5f6c7c2a05de016fbbde8f8f39ba4cc3680c73.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/5f6c7c2a05de016fbbde8f8f39ba4cc3680c73.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/140c75307202738ddb6ca03072fa92944aeed0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/140c75307202738ddb6ca03072fa92944aeed0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/140c75307202738ddb6ca03072fa92944aeed0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/89a4eafa5ef9e8bbc3297587337c1a1bc2bbe8.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/89a4eafa5ef9e8bbc3297587337c1a1bc2bbe8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9a/89a4eafa5ef9e8bbc3297587337c1a1bc2bbe8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/1e170f16604694e945e96cbc77bee1b25f2658.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/1e170f16604694e945e96cbc77bee1b25f2658.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/58/1e170f16604694e945e96cbc77bee1b25f2658.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/0fa57b7e4023e3a423aa9e3787c4039df6a244.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/29/0fa57b7e4023e3a423aa9e3787c4039df6a244.debug @@ -75331,66 +75376,61 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/ac4da08704d9aa606a80e46faa11fe6d44debb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/ac4da08704d9aa606a80e46faa11fe6d44debb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c4 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c4/f04ba92cc3b583d0789cb0a7316e8e23a9e531.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c4/f04ba92cc3b583d0789cb0a7316e8e23a9e531.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c4/f04ba92cc3b583d0789cb0a7316e8e23a9e531.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ac objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ac/71e1405119f12745ab11e382803d4fe1e9578b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ac/71e1405119f12745ab11e382803d4fe1e9578b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ac/71e1405119f12745ab11e382803d4fe1e9578b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/551c1f4ffecb2b89a40e4aa7a0ed0d772e74bc.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/551c1f4ffecb2b89a40e4aa7a0ed0d772e74bc.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/551c1f4ffecb2b89a40e4aa7a0ed0d772e74bc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/5f6c7c2a05de016fbbde8f8f39ba4cc3680c73.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/5f6c7c2a05de016fbbde8f8f39ba4cc3680c73.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/5f6c7c2a05de016fbbde8f8f39ba4cc3680c73.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e9 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e9/ba48b22c9e8587061ba39faeb13a07dbc45856.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e9/ba48b22c9e8587061ba39faeb13a07dbc45856.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e9/ba48b22c9e8587061ba39faeb13a07dbc45856.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c4 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c4/f04ba92cc3b583d0789cb0a7316e8e23a9e531.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c4/f04ba92cc3b583d0789cb0a7316e8e23a9e531.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c4/f04ba92cc3b583d0789cb0a7316e8e23a9e531.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/551c1f4ffecb2b89a40e4aa7a0ed0d772e74bc.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/551c1f4ffecb2b89a40e4aa7a0ed0d772e74bc.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/551c1f4ffecb2b89a40e4aa7a0ed0d772e74bc.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/adc7dd423eb4273e0ff637aa8557ee2a2de7a0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/adc7dd423eb4273e0ff637aa8557ee2a2de7a0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/adc7dd423eb4273e0ff637aa8557ee2a2de7a0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/1541e9ea89b6515eceb390027edd86a3e2b33f.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/1541e9ea89b6515eceb390027edd86a3e2b33f.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/1541e9ea89b6515eceb390027edd86a3e2b33f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/59ce268ec7c0fd4f6ad869aac37464791cb7f8.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/59ce268ec7c0fd4f6ad869aac37464791cb7f8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/59ce268ec7c0fd4f6ad869aac37464791cb7f8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de/97ead5239afe2097cf4c6a46bc4a29155bd7e7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de/97ead5239afe2097cf4c6a46bc4a29155bd7e7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/de/97ead5239afe2097cf4c6a46bc4a29155bd7e7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/1541e9ea89b6515eceb390027edd86a3e2b33f.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/1541e9ea89b6515eceb390027edd86a3e2b33f.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/1541e9ea89b6515eceb390027edd86a3e2b33f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/3b1a4fdddd36f202b2d7948c154db4a44b2a5c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/3b1a4fdddd36f202b2d7948c154db4a44b2a5c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/3b1a4fdddd36f202b2d7948c154db4a44b2a5c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/fe6444bf949d8a73432e64165c23b3d1e10cc4.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/fe6444bf949d8a73432e64165c23b3d1e10cc4.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/fe6444bf949d8a73432e64165c23b3d1e10cc4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/59ce268ec7c0fd4f6ad869aac37464791cb7f8.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/59ce268ec7c0fd4f6ad869aac37464791cb7f8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/95/59ce268ec7c0fd4f6ad869aac37464791cb7f8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/3b1963081602bb9d34095b54e0a710bd5b02ff.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/3b1963081602bb9d34095b54e0a710bd5b02ff.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/3b1963081602bb9d34095b54e0a710bd5b02ff.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/fe6444bf949d8a73432e64165c23b3d1e10cc4.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/fe6444bf949d8a73432e64165c23b3d1e10cc4.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/fe6444bf949d8a73432e64165c23b3d1e10cc4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38/2573a85f33996b378da2edb8d95b306a328a42.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38/2573a85f33996b378da2edb8d95b306a328a42.debug @@ -75421,106 +75461,116 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/c12ce85e0c615395f1bcc44f75b66b55e34788.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/c12ce85e0c615395f1bcc44f75b66b55e34788.debug debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/e11453e3fa1bbaf733e6578de88f705e1271c5.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/e11453e3fa1bbaf733e6578de88f705e1271c5.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/e11453e3fa1bbaf733e6578de88f705e1271c5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/7f1c111f25c7bc8d1260bd819c37ce14454311.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/7f1c111f25c7bc8d1260bd819c37ce14454311.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/7f1c111f25c7bc8d1260bd819c37ce14454311.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/b64fda32412b3cf85ce07d0e26cdb703435bc5.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/b64fda32412b3cf85ce07d0e26cdb703435bc5.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/b64fda32412b3cf85ce07d0e26cdb703435bc5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/e11453e3fa1bbaf733e6578de88f705e1271c5.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/e11453e3fa1bbaf733e6578de88f705e1271c5.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/e11453e3fa1bbaf733e6578de88f705e1271c5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/b2b666bc8df26b00fb202ed8fd2a95ef59b844.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/b2b666bc8df26b00fb202ed8fd2a95ef59b844.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/b2b666bc8df26b00fb202ed8fd2a95ef59b844.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/e4fa52ea7abe2ec4ff275c9f50200d2487b9a8.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/e4fa52ea7abe2ec4ff275c9f50200d2487b9a8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/e4fa52ea7abe2ec4ff275c9f50200d2487b9a8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/07de2baf5328669c332d612dcc5c312441586a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/07de2baf5328669c332d612dcc5c312441586a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/07de2baf5328669c332d612dcc5c312441586a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/b64fda32412b3cf85ce07d0e26cdb703435bc5.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/b64fda32412b3cf85ce07d0e26cdb703435bc5.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/b64fda32412b3cf85ce07d0e26cdb703435bc5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/124e0f3a34a65ea7280fa75065e34bdf878285.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/124e0f3a34a65ea7280fa75065e34bdf878285.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/02/124e0f3a34a65ea7280fa75065e34bdf878285.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33/d601071ce6ef438f714743926a077e553979cb.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33/d601071ce6ef438f714743926a077e553979cb.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33/d601071ce6ef438f714743926a077e553979cb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/360f1ad007e710a5c4adc8bc538d54effaa5f5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/360f1ad007e710a5c4adc8bc538d54effaa5f5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/360f1ad007e710a5c4adc8bc538d54effaa5f5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/e4fa52ea7abe2ec4ff275c9f50200d2487b9a8.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/e4fa52ea7abe2ec4ff275c9f50200d2487b9a8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/e4fa52ea7abe2ec4ff275c9f50200d2487b9a8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/b63fbd346b5674ccade6193b1403da40ae0e75.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/b63fbd346b5674ccade6193b1403da40ae0e75.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/b63fbd346b5674ccade6193b1403da40ae0e75.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7/2908e85834f13f416e6dfafe8f74223009b6f0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7/2908e85834f13f416e6dfafe8f74223009b6f0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b7/2908e85834f13f416e6dfafe8f74223009b6f0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33/d601071ce6ef438f714743926a077e553979cb.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33/d601071ce6ef438f714743926a077e553979cb.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/33/d601071ce6ef438f714743926a077e553979cb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/686fb145d487a59548a5aca6ce7b760eaebdef.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/686fb145d487a59548a5aca6ce7b760eaebdef.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/686fb145d487a59548a5aca6ce7b760eaebdef.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/d4dc3990d07d35b27155cd934e9f2df193a88b.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/d4dc3990d07d35b27155cd934e9f2df193a88b.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/d4dc3990d07d35b27155cd934e9f2df193a88b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a8/20434f4ef90d9533860ab60921dba2bf9c042f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a8/20434f4ef90d9533860ab60921dba2bf9c042f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a8/20434f4ef90d9533860ab60921dba2bf9c042f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/686fb145d487a59548a5aca6ce7b760eaebdef.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/686fb145d487a59548a5aca6ce7b760eaebdef.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cf/686fb145d487a59548a5aca6ce7b760eaebdef.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/02c9aadfbccebaac2eb257f7cd9742f72902b2.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/02c9aadfbccebaac2eb257f7cd9742f72902b2.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/77/02c9aadfbccebaac2eb257f7cd9742f72902b2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/e421fadadfd20d50af0bdec0652ac15d82ecb6.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/e421fadadfd20d50af0bdec0652ac15d82ecb6.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/e421fadadfd20d50af0bdec0652ac15d82ecb6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/69b4595b23b5efd19711daadc846ff3cf917a3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/69b4595b23b5efd19711daadc846ff3cf917a3.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/69b4595b23b5efd19711daadc846ff3cf917a3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40/70ba39e150180b53d61d295cde18b961bd4da8.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40/70ba39e150180b53d61d295cde18b961bd4da8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40/70ba39e150180b53d61d295cde18b961bd4da8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/d4dc3990d07d35b27155cd934e9f2df193a88b.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/d4dc3990d07d35b27155cd934e9f2df193a88b.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/d4dc3990d07d35b27155cd934e9f2df193a88b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/b63fbd346b5674ccade6193b1403da40ae0e75.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/b63fbd346b5674ccade6193b1403da40ae0e75.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/98/b63fbd346b5674ccade6193b1403da40ae0e75.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/c64084e5ccde70d0cac080576b287a83d32291.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/c64084e5ccde70d0cac080576b287a83d32291.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/c64084e5ccde70d0cac080576b287a83d32291.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/aa793a3ed3ca6d6e63d11f563761157b300467.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/aa793a3ed3ca6d6e63d11f563761157b300467.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a1/aa793a3ed3ca6d6e63d11f563761157b300467.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/e421fadadfd20d50af0bdec0652ac15d82ecb6.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/e421fadadfd20d50af0bdec0652ac15d82ecb6.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/59/e421fadadfd20d50af0bdec0652ac15d82ecb6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/c64084e5ccde70d0cac080576b287a83d32291.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/c64084e5ccde70d0cac080576b287a83d32291.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/c64084e5ccde70d0cac080576b287a83d32291.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40/70ba39e150180b53d61d295cde18b961bd4da8.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40/70ba39e150180b53d61d295cde18b961bd4da8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/40/70ba39e150180b53d61d295cde18b961bd4da8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/75ce1c5bb3246bbf8ee81168fcbd62f5d7128e.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/75ce1c5bb3246bbf8ee81168fcbd62f5d7128e.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/75ce1c5bb3246bbf8ee81168fcbd62f5d7128e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/afd1252eaeac461684ea5f78254f8dcd140093.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/afd1252eaeac461684ea5f78254f8dcd140093.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/afd1252eaeac461684ea5f78254f8dcd140093.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1/1b71044d4c92802afcffeeed0d0e0b37dd92cd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d1/1b71044d4c92802afcffeeed0d0e0b37dd92cd.debug @@ -75531,16 +75581,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/629d61a75e1ba238ca37ce4317854a4e06abb6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ba/629d61a75e1ba238ca37ce4317854a4e06abb6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/afd1252eaeac461684ea5f78254f8dcd140093.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/afd1252eaeac461684ea5f78254f8dcd140093.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/afd1252eaeac461684ea5f78254f8dcd140093.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/75ce1c5bb3246bbf8ee81168fcbd62f5d7128e.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/75ce1c5bb3246bbf8ee81168fcbd62f5d7128e.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/75ce1c5bb3246bbf8ee81168fcbd62f5d7128e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/c824c50c1ef3708296e6eb8edb08d962c2eac3.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/c824c50c1ef3708296e6eb8edb08d962c2eac3.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/c824c50c1ef3708296e6eb8edb08d962c2eac3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/60b4d5e88d08395b14565c637ca9a4c3e5448d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/60b4d5e88d08395b14565c637ca9a4c3e5448d.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/60b4d5e88d08395b14565c637ca9a4c3e5448d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/3b64077e126e6f788111cf158a14d6258b156f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/3b64077e126e6f788111cf158a14d6258b156f.debug @@ -75551,16 +75601,6 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/af/4618262833694f83d124d383c8a9aa69d7dd85.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/af/4618262833694f83d124d383c8a9aa69d7dd85.debug debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/60b4d5e88d08395b14565c637ca9a4c3e5448d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/60b4d5e88d08395b14565c637ca9a4c3e5448d.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cd/60b4d5e88d08395b14565c637ca9a4c3e5448d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/c824c50c1ef3708296e6eb8edb08d962c2eac3.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/c824c50c1ef3708296e6eb8edb08d962c2eac3.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/c824c50c1ef3708296e6eb8edb08d962c2eac3.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/8987625f6cedbd65702a7160252ca1d66dc971.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/41/8987625f6cedbd65702a7160252ca1d66dc971.debug @@ -75586,81 +75626,71 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/2bf2eb1cb2668e42de3e185ac9ff3f9393a14d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e1/2bf2eb1cb2668e42de3e185ac9ff3f9393a14d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/6fcc6933590ca2eb57d7cc8b75738c1eaca4f2.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/6fcc6933590ca2eb57d7cc8b75738c1eaca4f2.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/6fcc6933590ca2eb57d7cc8b75738c1eaca4f2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/04f6d77be8aa79aca7c2bfb3c4de48656749a2.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/04f6d77be8aa79aca7c2bfb3c4de48656749a2.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/04f6d77be8aa79aca7c2bfb3c4de48656749a2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/6fcc6933590ca2eb57d7cc8b75738c1eaca4f2.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/6fcc6933590ca2eb57d7cc8b75738c1eaca4f2.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/52/6fcc6933590ca2eb57d7cc8b75738c1eaca4f2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ac objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ac/ff89d2363ee21e301f40dc026bc34f07e3fb77.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ac/ff89d2363ee21e301f40dc026bc34f07e3fb77.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ac/ff89d2363ee21e301f40dc026bc34f07e3fb77.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/ba65374a5094676a8bfd915235ecca42a9580c.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/ba65374a5094676a8bfd915235ecca42a9580c.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/ba65374a5094676a8bfd915235ecca42a9580c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/9d6efbaba0d6112094437ced25d2778a432358.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/9d6efbaba0d6112094437ced25d2778a432358.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/9d6efbaba0d6112094437ced25d2778a432358.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/a710cce94287f75563722eccc7a7f3c20241d5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/a710cce94287f75563722eccc7a7f3c20241d5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/eb/a710cce94287f75563722eccc7a7f3c20241d5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/9d6efbaba0d6112094437ced25d2778a432358.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/9d6efbaba0d6112094437ced25d2778a432358.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/46/9d6efbaba0d6112094437ced25d2778a432358.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/1b20d52d810904788672b675440390a7454758.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/1b20d52d810904788672b675440390a7454758.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/1b20d52d810904788672b675440390a7454758.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/ba65374a5094676a8bfd915235ecca42a9580c.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/ba65374a5094676a8bfd915235ecca42a9580c.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1f/ba65374a5094676a8bfd915235ecca42a9580c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/0549730135401cc49b551304ae5db353ea83a5.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/0549730135401cc49b551304ae5db353ea83a5.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/0549730135401cc49b551304ae5db353ea83a5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/36da5c3ed62b3c4365e1a78be1e07a0786ca08.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/36da5c3ed62b3c4365e1a78be1e07a0786ca08.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/36da5c3ed62b3c4365e1a78be1e07a0786ca08.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/6b4561a30e29b6974ab30ab84952c95303a677.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/6b4561a30e29b6974ab30ab84952c95303a677.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/79/6b4561a30e29b6974ab30ab84952c95303a677.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/215cb9c81cb8ce9118353122b9025cfe2d4fa8.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/215cb9c81cb8ce9118353122b9025cfe2d4fa8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/215cb9c81cb8ce9118353122b9025cfe2d4fa8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97/dc96bdb940f8361bb57c3ce8da11ebbae9ba39.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97/dc96bdb940f8361bb57c3ce8da11ebbae9ba39.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/97/dc96bdb940f8361bb57c3ce8da11ebbae9ba39.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/1b20d52d810904788672b675440390a7454758.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/1b20d52d810904788672b675440390a7454758.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6f/1b20d52d810904788672b675440390a7454758.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/649b9a84036b330e4e52988be52224165b53a1.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/649b9a84036b330e4e52988be52224165b53a1.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/649b9a84036b330e4e52988be52224165b53a1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/37cec89082259db376a03e800647ec04c91f59.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/37cec89082259db376a03e800647ec04c91f59.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/37cec89082259db376a03e800647ec04c91f59.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/215cb9c81cb8ce9118353122b9025cfe2d4fa8.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/215cb9c81cb8ce9118353122b9025cfe2d4fa8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/84/215cb9c81cb8ce9118353122b9025cfe2d4fa8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/6a7acf2a418f7fca4f925552a0dd22b24c06ab.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/6a7acf2a418f7fca4f925552a0dd22b24c06ab.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/6a7acf2a418f7fca4f925552a0dd22b24c06ab.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/649b9a84036b330e4e52988be52224165b53a1.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/649b9a84036b330e4e52988be52224165b53a1.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ea/649b9a84036b330e4e52988be52224165b53a1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/32cdd437adb204ec9d355bd9e764d1712b270f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8a/32cdd437adb204ec9d355bd9e764d1712b270f.debug @@ -75671,31 +75701,41 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/9a1a04beb14bfb937fc4b17d60f2b1245c7be6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0a/9a1a04beb14bfb937fc4b17d60f2b1245c7be6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/6a7acf2a418f7fca4f925552a0dd22b24c06ab.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/6a7acf2a418f7fca4f925552a0dd22b24c06ab.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/6a7acf2a418f7fca4f925552a0dd22b24c06ab.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/36da5c3ed62b3c4365e1a78be1e07a0786ca08.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/36da5c3ed62b3c4365e1a78be1e07a0786ca08.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bb/36da5c3ed62b3c4365e1a78be1e07a0786ca08.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/e716ee286170077526a8552146807e8ab92f1e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/e716ee286170077526a8552146807e8ab92f1e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dc/e716ee286170077526a8552146807e8ab92f1e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/0f1e08fa0bd7cdef6978c6867c84e2befe4f34.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/0f1e08fa0bd7cdef6978c6867c84e2befe4f34.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/0f1e08fa0bd7cdef6978c6867c84e2befe4f34.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/ba843782084ce478372e588c61ac46bcb5b8de.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/ba843782084ce478372e588c61ac46bcb5b8de.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/ba843782084ce478372e588c61ac46bcb5b8de.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/38eb44f93c8b7854a737bec672fd92c96e949d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/38eb44f93c8b7854a737bec672fd92c96e949d.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/38eb44f93c8b7854a737bec672fd92c96e949d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/704129619b05bcbb4e485c6d36cc4f7255b0c8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/704129619b05bcbb4e485c6d36cc4f7255b0c8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ec/704129619b05bcbb4e485c6d36cc4f7255b0c8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/0f1e08fa0bd7cdef6978c6867c84e2befe4f34.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/0f1e08fa0bd7cdef6978c6867c84e2befe4f34.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8c/0f1e08fa0bd7cdef6978c6867c84e2befe4f34.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/38eb44f93c8b7854a737bec672fd92c96e949d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/38eb44f93c8b7854a737bec672fd92c96e949d.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b8/38eb44f93c8b7854a737bec672fd92c96e949d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/474224095808dba10ac153f0849c6ab716b983.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3c/474224095808dba10ac153f0849c6ab716b983.debug @@ -75726,41 +75766,46 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99/12f47aaa60e7b7147802d016ff5922e83af91a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99/12f47aaa60e7b7147802d016ff5922e83af91a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/3853a3ea35987d5471c5550fc0b9f99dc475b2.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/3853a3ea35987d5471c5550fc0b9f99dc475b2.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/3853a3ea35987d5471c5550fc0b9f99dc475b2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/2f738e9af3fc13f90ee3db50919a84ba8d52b8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/2f738e9af3fc13f90ee3db50919a84ba8d52b8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/2f738e9af3fc13f90ee3db50919a84ba8d52b8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/37fcfe68b5b991711bca94aafc5a52f0631823.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/37fcfe68b5b991711bca94aafc5a52f0631823.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/37fcfe68b5b991711bca94aafc5a52f0631823.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/c6db6797ea48d8f4dc08a6c71ddde8e589a7b0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/c6db6797ea48d8f4dc08a6c71ddde8e589a7b0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/c6db6797ea48d8f4dc08a6c71ddde8e589a7b0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/37fcfe68b5b991711bca94aafc5a52f0631823.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/37fcfe68b5b991711bca94aafc5a52f0631823.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/37fcfe68b5b991711bca94aafc5a52f0631823.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/f604de05e7fe2e19accaffe3fb4d05990ecdd8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/f604de05e7fe2e19accaffe3fb4d05990ecdd8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/f604de05e7fe2e19accaffe3fb4d05990ecdd8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/35 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/35/1fbffcb3ac0d9b48b9ecab8f54a08468f10149.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/35/1fbffcb3ac0d9b48b9ecab8f54a08468f10149.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/35/1fbffcb3ac0d9b48b9ecab8f54a08468f10149.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/fe5d8cfef440aaf6dfb1267be0dd19cbea445e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/fe5d8cfef440aaf6dfb1267be0dd19cbea445e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/fe5d8cfef440aaf6dfb1267be0dd19cbea445e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/3853a3ea35987d5471c5550fc0b9f99dc475b2.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/3853a3ea35987d5471c5550fc0b9f99dc475b2.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/3853a3ea35987d5471c5550fc0b9f99dc475b2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/35 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/35/1fbffcb3ac0d9b48b9ecab8f54a08468f10149.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/35/1fbffcb3ac0d9b48b9ecab8f54a08468f10149.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/35/1fbffcb3ac0d9b48b9ecab8f54a08468f10149.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27/6b5927b4429c08790f15d98023450b246b0d97.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27/6b5927b4429c08790f15d98023450b246b0d97.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27/6b5927b4429c08790f15d98023450b246b0d97.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/861a4500048389952c8d7c6ad0ae48ff848a6e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/861a4500048389952c8d7c6ad0ae48ff848a6e.debug @@ -75776,11 +75821,6 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/a405028e2804b2dc19ceb1530d09e13863722b.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/05/a405028e2804b2dc19ceb1530d09e13863722b.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27/6b5927b4429c08790f15d98023450b246b0d97.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27/6b5927b4429c08790f15d98023450b246b0d97.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/27/6b5927b4429c08790f15d98023450b246b0d97.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/cd01fa269b80f788e9952079cc28909675fe5d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/cd01fa269b80f788e9952079cc28909675fe5d.debug @@ -75791,16 +75831,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/0e3d1ff9766409d6b9013c37a8aee7b931b85f.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/08/0e3d1ff9766409d6b9013c37a8aee7b931b85f.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/5b2aa300b36b4e2a76b4062ee3cf75cf7b709a.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/5b2aa300b36b4e2a76b4062ee3cf75cf7b709a.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/5b2aa300b36b4e2a76b4062ee3cf75cf7b709a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/44c5d39e1cce1519906636bf64ec4eb280f8c0.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/44c5d39e1cce1519906636bf64ec4eb280f8c0.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/66/44c5d39e1cce1519906636bf64ec4eb280f8c0.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/5b2aa300b36b4e2a76b4062ee3cf75cf7b709a.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/5b2aa300b36b4e2a76b4062ee3cf75cf7b709a.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/28/5b2aa300b36b4e2a76b4062ee3cf75cf7b709a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/7efd9f90d3c658bb9c2928561623f54590666c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/7efd9f90d3c658bb9c2928561623f54590666c.debug @@ -75811,31 +75851,31 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cc/0d5faf37e7927c13ca4196d0adf708195b2085.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/cc/0d5faf37e7927c13ca4196d0adf708195b2085.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/e36d8ac09156d31e2f4ad3ce44aa9db1278d9e.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/e36d8ac09156d31e2f4ad3ce44aa9db1278d9e.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/e36d8ac09156d31e2f4ad3ce44aa9db1278d9e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/c0791bb7dfec93d85e378ed747709af094edd8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/c0791bb7dfec93d85e378ed747709af094edd8.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/17/c0791bb7dfec93d85e378ed747709af094edd8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/e36d8ac09156d31e2f4ad3ce44aa9db1278d9e.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/e36d8ac09156d31e2f4ad3ce44aa9db1278d9e.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/71/e36d8ac09156d31e2f4ad3ce44aa9db1278d9e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/0db71d6231afa286e31870a722a34ed7a540e1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/0db71d6231afa286e31870a722a34ed7a540e1.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9f/0db71d6231afa286e31870a722a34ed7a540e1.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/fd8bc1d47879fc52eb8303858dc3e01c3f14cd.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/fd8bc1d47879fc52eb8303858dc3e01c3f14cd.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/fd8bc1d47879fc52eb8303858dc3e01c3f14cd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/b8e7fba5eb16deba9ff7cf7903e5fe9705d151.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/b8e7fba5eb16deba9ff7cf7903e5fe9705d151.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/45/b8e7fba5eb16deba9ff7cf7903e5fe9705d151.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/fd8bc1d47879fc52eb8303858dc3e01c3f14cd.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/fd8bc1d47879fc52eb8303858dc3e01c3f14cd.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/fd/fd8bc1d47879fc52eb8303858dc3e01c3f14cd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/9c0ac6e4be734a31cc43dd412490b1b2b2d59d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/9c0ac6e4be734a31cc43dd412490b1b2b2d59d.debug @@ -75876,26 +75916,26 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/203d560da38b9295debafe88f4affed2fad95d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/203d560da38b9295debafe88f4affed2fad95d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/ec3c0a5c9f5eba3aaf2f4a033bbd463986d4e6.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/ec3c0a5c9f5eba3aaf2f4a033bbd463986d4e6.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/ec3c0a5c9f5eba3aaf2f4a033bbd463986d4e6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/69 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/69/f061cc8ac6bd4f2c1e5a73a7b692d5278990dd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/69/f061cc8ac6bd4f2c1e5a73a7b692d5278990dd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/69/f061cc8ac6bd4f2c1e5a73a7b692d5278990dd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/6c8703f4ea454f4dcedd0a1ea8ac953b6855c5.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/6c8703f4ea454f4dcedd0a1ea8ac953b6855c5.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/6c8703f4ea454f4dcedd0a1ea8ac953b6855c5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/ec3c0a5c9f5eba3aaf2f4a033bbd463986d4e6.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/ec3c0a5c9f5eba3aaf2f4a033bbd463986d4e6.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8f/ec3c0a5c9f5eba3aaf2f4a033bbd463986d4e6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/1a3591c86d160719cbb9efa5bab03666301ab6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/1a3591c86d160719cbb9efa5bab03666301ab6.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9d/1a3591c86d160719cbb9efa5bab03666301ab6.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/6c8703f4ea454f4dcedd0a1ea8ac953b6855c5.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/6c8703f4ea454f4dcedd0a1ea8ac953b6855c5.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/6c8703f4ea454f4dcedd0a1ea8ac953b6855c5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/20aebf57f44a2e38fb4ed66e0b243440d09751.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1a/20aebf57f44a2e38fb4ed66e0b243440d09751.debug @@ -75906,6 +75946,11 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/ae3ee9f9ade52e08bebeb4eb2a4933c7232dc2.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9c/ae3ee9f9ade52e08bebeb4eb2a4933c7232dc2.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/97f02f698a307c79d5d63d09c0f2fa492c9a47.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/97f02f698a307c79d5d63d09c0f2fa492c9a47.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/97f02f698a307c79d5d63d09c0f2fa492c9a47.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7a/e5ee9ac0e2d4a4bc2848f0281b66063217970c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7a/e5ee9ac0e2d4a4bc2848f0281b66063217970c.debug @@ -75916,26 +75961,21 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/0fcb9e4a4dcd6b14176a6af3df24825b7434e7.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4b/0fcb9e4a4dcd6b14176a6af3df24825b7434e7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/97f02f698a307c79d5d63d09c0f2fa492c9a47.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/97f02f698a307c79d5d63d09c0f2fa492c9a47.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b6/97f02f698a307c79d5d63d09c0f2fa492c9a47.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53/9325c78acaf4148a0e66317623fcdc4dd1bd5d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53/9325c78acaf4148a0e66317623fcdc4dd1bd5d.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/53/9325c78acaf4148a0e66317623fcdc4dd1bd5d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/51e6ad1aae69456c5798ac63615a5d4bb74127.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/51e6ad1aae69456c5798ac63615a5d4bb74127.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/51e6ad1aae69456c5798ac63615a5d4bb74127.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/ef1354a5fd4f64b398cfd7a2ddb07566a7dc23.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/ef1354a5fd4f64b398cfd7a2ddb07566a7dc23.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f8/ef1354a5fd4f64b398cfd7a2ddb07566a7dc23.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/51e6ad1aae69456c5798ac63615a5d4bb74127.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/51e6ad1aae69456c5798ac63615a5d4bb74127.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/51e6ad1aae69456c5798ac63615a5d4bb74127.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5f/bb531dc76b0d5d1370aaa0c6bd99c400b4e3cc.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5f/bb531dc76b0d5d1370aaa0c6bd99c400b4e3cc.debug @@ -75971,51 +76011,51 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/c67822af2bce268dc6823d63b48565358191b4.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a5/c67822af2bce268dc6823d63b48565358191b4.debug debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/693b89f5436c9e6d8e97f948f171cfc4f31493.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/693b89f5436c9e6d8e97f948f171cfc4f31493.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/693b89f5436c9e6d8e97f948f171cfc4f31493.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/d99cffa1aa6bcc1c4bf86d68d14fb77d4f8e2e.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/d99cffa1aa6bcc1c4bf86d68d14fb77d4f8e2e.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ef/d99cffa1aa6bcc1c4bf86d68d14fb77d4f8e2e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/e92cafefc30b553fb897c10ba618b6349f220d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/e92cafefc30b553fb897c10ba618b6349f220d.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/e92cafefc30b553fb897c10ba618b6349f220d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/693b89f5436c9e6d8e97f948f171cfc4f31493.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/693b89f5436c9e6d8e97f948f171cfc4f31493.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/693b89f5436c9e6d8e97f948f171cfc4f31493.debug debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/01fda553f46750878ff03ef761fd33f3332276.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/01fda553f46750878ff03ef761fd33f3332276.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/64/01fda553f46750878ff03ef761fd33f3332276.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/9df783c6a99aee12b201c05b79af4ca1a66c9a.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/9df783c6a99aee12b201c05b79af4ca1a66c9a.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/9df783c6a99aee12b201c05b79af4ca1a66c9a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/7962d99a1448b5246b668c166daeb4f0ada87e.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/7962d99a1448b5246b668c166daeb4f0ada87e.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/7962d99a1448b5246b668c166daeb4f0ada87e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/e92cafefc30b553fb897c10ba618b6349f220d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/e92cafefc30b553fb897c10ba618b6349f220d.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7e/e92cafefc30b553fb897c10ba618b6349f220d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/cd93a2e1853f91f949b62259e72f1b395d0749.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/cd93a2e1853f91f949b62259e72f1b395d0749.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/cd93a2e1853f91f949b62259e72f1b395d0749.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/7962d99a1448b5246b668c166daeb4f0ada87e.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/7962d99a1448b5246b668c166daeb4f0ada87e.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/11/7962d99a1448b5246b668c166daeb4f0ada87e.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/9df783c6a99aee12b201c05b79af4ca1a66c9a.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/9df783c6a99aee12b201c05b79af4ca1a66c9a.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6a/9df783c6a99aee12b201c05b79af4ca1a66c9a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/27a0afaf13a6856f1924497d3bb5d1591d1b7c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/27a0afaf13a6856f1924497d3bb5d1591d1b7c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d5/27a0afaf13a6856f1924497d3bb5d1591d1b7c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/5cf9872e28f9211fa46d14512a0c1113348163.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/5cf9872e28f9211fa46d14512a0c1113348163.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/5cf9872e28f9211fa46d14512a0c1113348163.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/4b62fea7f88d4472a5450f0471f91042e298ea.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/4b62fea7f88d4472a5450f0471f91042e298ea.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/4b62fea7f88d4472a5450f0471f91042e298ea.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/b4ef1954a5f0f0793d0440f677e5566393994d.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/56/b4ef1954a5f0f0793d0440f677e5566393994d.debug @@ -76026,41 +76066,41 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bc/4e9636a40fa5bbc2d9bacd289954e7999d04cb.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bc/4e9636a40fa5bbc2d9bacd289954e7999d04cb.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/5cf9872e28f9211fa46d14512a0c1113348163.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/5cf9872e28f9211fa46d14512a0c1113348163.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/5cf9872e28f9211fa46d14512a0c1113348163.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/8229d24ee6c6a2f093c6ff786384d4260db352.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/8229d24ee6c6a2f093c6ff786384d4260db352.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/8229d24ee6c6a2f093c6ff786384d4260db352.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/4b62fea7f88d4472a5450f0471f91042e298ea.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/4b62fea7f88d4472a5450f0471f91042e298ea.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a6/4b62fea7f88d4472a5450f0471f91042e298ea.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/4d80633ea7cebeef6c4e6730aaae0ab4f716c5.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/4d80633ea7cebeef6c4e6730aaae0ab4f716c5.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/4d80633ea7cebeef6c4e6730aaae0ab4f716c5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/047e32b3037def45e2ebbf6b583076042f6cba.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/047e32b3037def45e2ebbf6b583076042f6cba.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/a7/047e32b3037def45e2ebbf6b583076042f6cba.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/77a19e33147be73319fedd6fed83077b032081.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/77a19e33147be73319fedd6fed83077b032081.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/77a19e33147be73319fedd6fed83077b032081.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d/f025027266338126781e739ce7dcf9956bae01.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d/f025027266338126781e739ce7dcf9956bae01.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d/f025027266338126781e739ce7dcf9956bae01.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/f076d625373909358d000a14e8946997496692.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/f076d625373909358d000a14e8946997496692.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/f076d625373909358d000a14e8946997496692.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d/f025027266338126781e739ce7dcf9956bae01.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d/f025027266338126781e739ce7dcf9956bae01.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/7d/f025027266338126781e739ce7dcf9956bae01.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/4d80633ea7cebeef6c4e6730aaae0ab4f716c5.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/4d80633ea7cebeef6c4e6730aaae0ab4f716c5.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/24/4d80633ea7cebeef6c4e6730aaae0ab4f716c5.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/77a19e33147be73319fedd6fed83077b032081.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/77a19e33147be73319fedd6fed83077b032081.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/77a19e33147be73319fedd6fed83077b032081.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/f9df092df6c185e864784bf5a8232d9977d1fb.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/61/f9df092df6c185e864784bf5a8232d9977d1fb.debug @@ -76071,36 +76111,36 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/7c8dc02142002054525afd3b4e4f2e73d67c9a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e3/7c8dc02142002054525afd3b4e4f2e73d67c9a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/a726524c3be555c3822c532deb8840f7aa4aca.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/a726524c3be555c3822c532deb8840f7aa4aca.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/a726524c3be555c3822c532deb8840f7aa4aca.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/ffd7e4126b713ae2a340bc379a2c4b9022fcbd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/ffd7e4126b713ae2a340bc379a2c4b9022fcbd.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/60/ffd7e4126b713ae2a340bc379a2c4b9022fcbd.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/098a248fb91a0574282dbe72aae0672cc60e9d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/098a248fb91a0574282dbe72aae0672cc60e9d.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/098a248fb91a0574282dbe72aae0672cc60e9d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad/0d99dc3fe3e13a8f4e2a8dd4c8bdb4a8158613.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad/0d99dc3fe3e13a8f4e2a8dd4c8bdb4a8158613.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ad/0d99dc3fe3e13a8f4e2a8dd4c8bdb4a8158613.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/e9160be933f98b8ddb82dc81152dad0055b238.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/e9160be933f98b8ddb82dc81152dad0055b238.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/e9160be933f98b8ddb82dc81152dad0055b238.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/a726524c3be555c3822c532deb8840f7aa4aca.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/a726524c3be555c3822c532deb8840f7aa4aca.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/78/a726524c3be555c3822c532deb8840f7aa4aca.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/098a248fb91a0574282dbe72aae0672cc60e9d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/098a248fb91a0574282dbe72aae0672cc60e9d.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/25/098a248fb91a0574282dbe72aae0672cc60e9d.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/f31c547746d8b63e21079d68cbd141d8407b0c.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/f31c547746d8b63e21079d68cbd141d8407b0c.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/f31c547746d8b63e21079d68cbd141d8407b0c.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/e9160be933f98b8ddb82dc81152dad0055b238.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/e9160be933f98b8ddb82dc81152dad0055b238.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3b/e9160be933f98b8ddb82dc81152dad0055b238.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/fb880035620fac43d45d3ce88b449bb1e7c447.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/0b/fb880035620fac43d45d3ce88b449bb1e7c447.debug @@ -76111,51 +76151,46 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/5d8b2a1d663395494165863bba33e6f0dc186a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2c/5d8b2a1d663395494165863bba33e6f0dc186a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/b910e1d2e182587ddc6b925208b99ca08b915a.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/b910e1d2e182587ddc6b925208b99ca08b915a.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-312-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/b910e1d2e182587ddc6b925208b99ca08b915a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-312-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3f objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3f/f09b818e84f903315ee08aeda2d82faa7fac23.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3f/f09b818e84f903315ee08aeda2d82faa7fac23.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-311-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3f/f09b818e84f903315ee08aeda2d82faa7fac23.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/58d61e6851d0eff3e9cc40b24e4ae172b4ccda.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/58d61e6851d0eff3e9cc40b24e4ae172b4ccda.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/58d61e6851d0eff3e9cc40b24e4ae172b4ccda.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/6d50ad2948898e6401f4aa4bb2bd8c4ff6513a.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/6d50ad2948898e6401f4aa4bb2bd8c4ff6513a.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/dd/6d50ad2948898e6401f4aa4bb2bd8c4ff6513a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/b910e1d2e182587ddc6b925208b99ca08b915a.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/b910e1d2e182587ddc6b925208b99ca08b915a.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-312-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/b910e1d2e182587ddc6b925208b99ca08b915a.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-312-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/58d61e6851d0eff3e9cc40b24e4ae172b4ccda.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/58d61e6851d0eff3e9cc40b24e4ae172b4ccda.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/6e/58d61e6851d0eff3e9cc40b24e4ae172b4ccda.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50/6ec183d3e19a69b07c66d316525bf9f47a8924.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50/6ec183d3e19a69b07c66d316525bf9f47a8924.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/50/6ec183d3e19a69b07c66d316525bf9f47a8924.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/27b44f55ddf476a1273aceb53e3d77484df4c7.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/27b44f55ddf476a1273aceb53e3d77484df4c7.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/27b44f55ddf476a1273aceb53e3d77484df4c7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-311-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b/f07f3c5af677b81d3083120ff4a5634f4e71a8.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b/f07f3c5af677b81d3083120ff4a5634f4e71a8.debug - strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-311-aarch64-linux-gnu.so - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b/f07f3c5af677b81d3083120ff4a5634f4e71a8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-312-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/f3f3a2ddda7e03085c86865e7da0434d774045.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/f3f3a2ddda7e03085c86865e7da0434d774045.debug strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-312-aarch64-linux-gnu.so objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/1e/f3f3a2ddda7e03085c86865e7da0434d774045.debug debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-312-aarch64-linux-gnu.so - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_reparametrisation debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8d21a836bcea11d0e000a63aa829d5dd5f7d9d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8d21a836bcea11d0e000a63aa829d5dd5f7d9d.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_reparametrisation - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8d21a836bcea11d0e000a63aa829d5dd5f7d9d.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_reparametrisation + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b/f07f3c5af677b81d3083120ff4a5634f4e71a8.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b/f07f3c5af677b81d3083120ff4a5634f4e71a8.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8b/f07f3c5af677b81d3083120ff4a5634f4e71a8.debug debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-311-aarch64-linux-gnu.so + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-311-aarch64-linux-gnu.so debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/27b44f55ddf476a1273aceb53e3d77484df4c7.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/27b44f55ddf476a1273aceb53e3d77484df4c7.debug + strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-311-aarch64-linux-gnu.so + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c0/27b44f55ddf476a1273aceb53e3d77484df4c7.debug debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-311-aarch64-linux-gnu.so install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e4 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_special_position debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e4/b8a63729fa39b5221fe3d302c2a98ae06d9c0f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/e4/b8a63729fa39b5221fe3d302c2a98ae06d9c0f.debug @@ -76166,31 +76201,36 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/bdcd92583d5a8a6a10e8ae5c1e13b692a4b0b1.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/aa/bdcd92583d5a8a6a10e8ae5c1e13b692a4b0b1.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_reparametrisation debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8d21a836bcea11d0e000a63aa829d5dd5f7d9d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8d21a836bcea11d0e000a63aa829d5dd5f7d9d.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_reparametrisation + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/94/8d21a836bcea11d0e000a63aa829d5dd5f7d9d.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_reparametrisation install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/serialization/tst_base_256 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/7553e74c0a11d9c251d5e0b884ee43c8819703.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/7553e74c0a11d9c251d5e0b884ee43c8819703.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/serialization/tst_base_256 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/9b/7553e74c0a11d9c251d5e0b884ee43c8819703.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/serialization/tst_base_256 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_householder debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/2de649f5ac7c6f45c3064595f28e4d172c535d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/2de649f5ac7c6f45c3064595f28e4d172c535d.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_householder - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/2de649f5ac7c6f45c3064595f28e4d172c535d.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_householder install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_svd debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/8f51bad6372e2330c7c5714b29df09db821647.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/8f51bad6372e2330c7c5714b29df09db821647.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_svd objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/8f51bad6372e2330c7c5714b29df09db821647.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_svd - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_givens debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6/4449906b1a6765395fd8405e46e514f9fc66f5.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6/4449906b1a6765395fd8405e46e514f9fc66f5.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_givens - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6/4449906b1a6765395fd8405e46e514f9fc66f5.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_givens install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_cholesky debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/d2111479986c8c93535482a5dc49c8381d81af.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/d2111479986c8c93535482a5dc49c8381d81af.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_cholesky objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/d2111479986c8c93535482a5dc49c8381d81af.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_cholesky + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_householder debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/2de649f5ac7c6f45c3064595f28e4d172c535d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/2de649f5ac7c6f45c3064595f28e4d172c535d.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_householder + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c9/2de649f5ac7c6f45c3064595f28e4d172c535d.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_householder + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_givens debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6/4449906b1a6765395fd8405e46e514f9fc66f5.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6/4449906b1a6765395fd8405e46e514f9fc66f5.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_givens + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c6/4449906b1a6765395fd8405e46e514f9fc66f5.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_givens install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/math/tests/tst debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/f4bf8231c19e54a710cef326d2bd9a276e8901.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/81/f4bf8231c19e54a710cef326d2bd9a276e8901.debug @@ -76221,36 +76261,36 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/8d8c4b43b754d4ee999857c5ba07394be9be41.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_unsigned_float_arithmetic objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/26/8d8c4b43b754d4ee999857c5ba07394be9be41.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_unsigned_float_arithmetic - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b9 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_ref_matrix_facet debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b9/0fe4e93c78e5a67ab5d4df14a01d75647b9460.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b9/0fe4e93c78e5a67ab5d4df14a01d75647b9460.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_ref_matrix_facet - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b9/0fe4e93c78e5a67ab5d4df14a01d75647b9460.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_ref_matrix_facet - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_optional_copy debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/51c532b809df921c071be5a7b06bf80182c2ca.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/51c532b809df921c071be5a7b06bf80182c2ca.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_optional_copy - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/51c532b809df921c071be5a7b06bf80182c2ca.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_optional_copy install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_4 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/a5a8e0d892c9fd43f7d90ab9b390e9aa97f196.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/a5a8e0d892c9fd43f7d90ab9b390e9aa97f196.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_4 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5a/a5a8e0d892c9fd43f7d90ab9b390e9aa97f196.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_4 + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b9 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_ref_matrix_facet debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b9/0fe4e93c78e5a67ab5d4df14a01d75647b9460.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b9/0fe4e93c78e5a67ab5d4df14a01d75647b9460.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_ref_matrix_facet + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b9/0fe4e93c78e5a67ab5d4df14a01d75647b9460.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_ref_matrix_facet install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_rectangular_full_packed debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3d/1509d6a98bdcbf9792108a14684bb4c67f5e9b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3d/1509d6a98bdcbf9792108a14684bb4c67f5e9b.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_rectangular_full_packed objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/3d/1509d6a98bdcbf9792108a14684bb4c67f5e9b.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_rectangular_full_packed - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_5 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/b01e6746909999b97255e0c8a511a0696abb55.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/b01e6746909999b97255e0c8a511a0696abb55.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_5 - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/b01e6746909999b97255e0c8a511a0696abb55.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_5 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_mat3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/3ae90d98e9aba1fc9bffbafdb822e1f5060bc8.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/3ae90d98e9aba1fc9bffbafdb822e1f5060bc8.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_mat3 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/75/3ae90d98e9aba1fc9bffbafdb822e1f5060bc8.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_mat3 + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_optional_copy debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/51c532b809df921c071be5a7b06bf80182c2ca.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/51c532b809df921c071be5a7b06bf80182c2ca.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_optional_copy + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ae/51c532b809df921c071be5a7b06bf80182c2ca.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_optional_copy + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_5 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/b01e6746909999b97255e0c8a511a0696abb55.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/b01e6746909999b97255e0c8a511a0696abb55.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_5 + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/2f/b01e6746909999b97255e0c8a511a0696abb55.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_5 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5d/1189acd5f098cd621e37364734f7057873cbed.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5d/1189acd5f098cd621e37364734f7057873cbed.debug @@ -76261,16 +76301,16 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/07/da64a6364593f2758d7bfa08c7d1d9384a63ed.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_2 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/07/da64a6364593f2758d7bfa08c7d1d9384a63ed.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_2 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_accessors debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/7d2435cba98f58a8a9737d544f102ef82d970d.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/7d2435cba98f58a8a9737d544f102ef82d970d.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_accessors - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/7d2435cba98f58a8a9737d544f102ef82d970d.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_accessors install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_1 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/20a60eed4928214539ce0af14deb2d00af7d2b.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/20a60eed4928214539ce0af14deb2d00af7d2b.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_1 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/20a60eed4928214539ce0af14deb2d00af7d2b.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_1 + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_accessors debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/7d2435cba98f58a8a9737d544f102ef82d970d.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/7d2435cba98f58a8a9737d544f102ef82d970d.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_accessors + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f3/7d2435cba98f58a8a9737d544f102ef82d970d.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_accessors install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.11/iotbx/pdb/hybrid_36_fem debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3/7cee86ffc0e5a37646411189e02ffbfaeb84b7.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d3/7cee86ffc0e5a37646411189e02ffbfaeb84b7.debug @@ -76281,11 +76321,6 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/4523ff30b9c7cfb8250fcec698b63602b13436.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.11/boost_adaptbx/tests/tst_optional_copy objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/18/4523ff30b9c7cfb8250fcec698b63602b13436.debug debian/python3-cctbx/usr/lib/cctbx/python3.11/boost_adaptbx/tests/tst_optional_copy - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/4181b462a8bd16b95528ff7a0ffe8eda5a6e55.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/4181b462a8bd16b95528ff7a0ffe8eda5a6e55.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/4181b462a8bd16b95528ff7a0ffe8eda5a6e55.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/68 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_special_position debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/68/2addbad02186c6c9c853f0689888ee7e7247df.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/68/2addbad02186c6c9c853f0689888ee7e7247df.debug @@ -76296,21 +76331,26 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/b2692021b437e63c6055b3263fd79207379db0.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_reparametrisation objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/09/b2692021b437e63c6055b3263fd79207379db0.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_reparametrisation + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/4181b462a8bd16b95528ff7a0ffe8eda5a6e55.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/4181b462a8bd16b95528ff7a0ffe8eda5a6e55.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b1/4181b462a8bd16b95528ff7a0ffe8eda5a6e55.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/87 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/serialization/tst_base_256 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/87/73f5b6a932ed13adc9843f4605d8d84a63da24.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/87/73f5b6a932ed13adc9843f4605d8d84a63da24.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/serialization/tst_base_256 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/87/73f5b6a932ed13adc9843f4605d8d84a63da24.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/serialization/tst_base_256 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_householder debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/7aa3b4f4ec98411cffe9bca76cee8ac01fb5f9.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/7aa3b4f4ec98411cffe9bca76cee8ac01fb5f9.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_householder - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/7aa3b4f4ec98411cffe9bca76cee8ac01fb5f9.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_householder install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/80 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_svd debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/80/0c949b110e5ff0ece6d04c9c46d298f1f0abc9.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/80/0c949b110e5ff0ece6d04c9c46d298f1f0abc9.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_svd objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/80/0c949b110e5ff0ece6d04c9c46d298f1f0abc9.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_svd + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_householder debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/7aa3b4f4ec98411cffe9bca76cee8ac01fb5f9.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/7aa3b4f4ec98411cffe9bca76cee8ac01fb5f9.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_householder + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/06/7aa3b4f4ec98411cffe9bca76cee8ac01fb5f9.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_householder install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_cholesky debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/0d77ec861881b67dc00a9ee3a09b915281815f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/b5/0d77ec861881b67dc00a9ee3a09b915281815f.debug @@ -76341,51 +76381,46 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/dad6dcfb1adb209392556a692dae0d23a6c93a.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_vec3 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ce/dad6dcfb1adb209392556a692dae0d23a6c93a.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_vec3 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_sym_mat3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4ef7cc51ed2977f9608744902d285e19f9262.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4ef7cc51ed2977f9608744902d285e19f9262.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_sym_mat3 - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4ef7cc51ed2977f9608744902d285e19f9262.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_sym_mat3 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_4 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/72d16a02a73f7caaaa997b40f3f65a0f2eadcb.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/72d16a02a73f7caaaa997b40f3f65a0f2eadcb.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_4 - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/72d16a02a73f7caaaa997b40f3f65a0f2eadcb.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_4 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_ref_matrix_facet debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/8c87f8d3a41a6676f551f492414402666b9fd5.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/8c87f8d3a41a6676f551f492414402666b9fd5.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_ref_matrix_facet - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/8c87f8d3a41a6676f551f492414402666b9fd5.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_ref_matrix_facet - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_rectangular_full_packed debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/9b6dda81ea29d025aa3d40fd1ed5c3e6cf7503.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/9b6dda81ea29d025aa3d40fd1ed5c3e6cf7503.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_rectangular_full_packed - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/9b6dda81ea29d025aa3d40fd1ed5c3e6cf7503.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_rectangular_full_packed install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_unsigned_float_arithmetic debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/55d921fce5b3a9ab172c81d88cd11987099fb6.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/55d921fce5b3a9ab172c81d88cd11987099fb6.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_unsigned_float_arithmetic objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/67/55d921fce5b3a9ab172c81d88cd11987099fb6.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_unsigned_float_arithmetic + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_rectangular_full_packed debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/9b6dda81ea29d025aa3d40fd1ed5c3e6cf7503.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/9b6dda81ea29d025aa3d40fd1ed5c3e6cf7503.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_rectangular_full_packed + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/36/9b6dda81ea29d025aa3d40fd1ed5c3e6cf7503.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_rectangular_full_packed + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_ref_matrix_facet debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/8c87f8d3a41a6676f551f492414402666b9fd5.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/8c87f8d3a41a6676f551f492414402666b9fd5.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_ref_matrix_facet + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/bf/8c87f8d3a41a6676f551f492414402666b9fd5.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_ref_matrix_facet + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_sym_mat3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4ef7cc51ed2977f9608744902d285e19f9262.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4ef7cc51ed2977f9608744902d285e19f9262.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_sym_mat3 + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/37/e4ef7cc51ed2977f9608744902d285e19f9262.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_sym_mat3 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_optional_copy debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/c7961dce1a6eadb358c02ac94d4d52be6abdfd.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/c7961dce1a6eadb358c02ac94d4d52be6abdfd.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_optional_copy objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/ee/c7961dce1a6eadb358c02ac94d4d52be6abdfd.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_optional_copy - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_mat3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/c4bd5de28df3c6223c27343f86acc53842de80.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/c4bd5de28df3c6223c27343f86acc53842de80.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_mat3 - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/c4bd5de28df3c6223c27343f86acc53842de80.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_mat3 + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_4 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/72d16a02a73f7caaaa997b40f3f65a0f2eadcb.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/72d16a02a73f7caaaa997b40f3f65a0f2eadcb.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_4 + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/d7/72d16a02a73f7caaaa997b40f3f65a0f2eadcb.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_4 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_5 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/dc1b4936844c693cef3860a51cbc580f5e9c29.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/dc1b4936844c693cef3860a51cbc580f5e9c29.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_5 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/22/dc1b4936844c693cef3860a51cbc580f5e9c29.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_5 - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/c558fcb6110835905e08f39beb53046678218a.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/c558fcb6110835905e08f39beb53046678218a.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_3 - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/c558fcb6110835905e08f39beb53046678218a.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_3 + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_mat3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/c4bd5de28df3c6223c27343f86acc53842de80.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/c4bd5de28df3c6223c27343f86acc53842de80.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_mat3 + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f4/c4bd5de28df3c6223c27343f86acc53842de80.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_mat3 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_1 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/b26b3e07756bacac8492a1cf02f0b5e02e3153.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/04/b26b3e07756bacac8492a1cf02f0b5e02e3153.debug @@ -76396,6 +76431,11 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99/7640f7de33ca4bd9f806218a505cb6c95d66f3.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_2 objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/99/7640f7de33ca4bd9f806218a505cb6c95d66f3.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_2 + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_3 debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/c558fcb6110835905e08f39beb53046678218a.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/c558fcb6110835905e08f39beb53046678218a.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_3 + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/01/c558fcb6110835905e08f39beb53046678218a.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_3 install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_accessors debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/128f05c3c0691ce56345f0b07749c548f7cc15.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8d/128f05c3c0691ce56345f0b07749c548f7cc15.debug @@ -76411,41 +76451,41 @@ chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/df/aec47e50f36b9688e361e5620a7d435ed667b9.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/lib/cctbx/python3.12/boost_adaptbx/tests/tst_optional_copy objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/df/aec47e50f36b9688e361e5620a7d435ed667b9.debug debian/python3-cctbx/usr/lib/cctbx/python3.12/boost_adaptbx/tests/tst_optional_copy - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx_blobs debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1/a1c6c861f775c0913b002c603c09ab1746e7cd.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1/a1c6c861f775c0913b002c603c09ab1746e7cd.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx_blobs - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1/a1c6c861f775c0913b002c603c09ab1746e7cd.debug debian/python3-cctbx/usr/bin/cctbx_blobs install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.find_distances debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/4617ea0e8f7e9c3688e6c5d2fcfc34c1b2eadf.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/4617ea0e8f7e9c3688e6c5d2fcfc34c1b2eadf.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.find_distances objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/8e/4617ea0e8f7e9c3688e6c5d2fcfc34c1b2eadf.debug debian/python3-cctbx/usr/bin/cctbx.find_distances + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx_blobs debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1/a1c6c861f775c0913b002c603c09ab1746e7cd.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1/a1c6c861f775c0913b002c603c09ab1746e7cd.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx_blobs + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f1/a1c6c861f775c0913b002c603c09ab1746e7cd.debug debian/python3-cctbx/usr/bin/cctbx_blobs install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/8660e6da7fef08035e6e29072d7491e6e5e6f3.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/8660e6da7fef08035e6e29072d7491e6e5e6f3.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/92/8660e6da7fef08035e6e29072d7491e6e5e6f3.debug debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/febaeadc713717b68aab9d190f14a842862c5b.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/febaeadc713717b68aab9d190f14a842862c5b.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/febaeadc713717b68aab9d190f14a842862c5b.debug debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38/63d9453af71ea5f57c10fd7589e46e129ad8aa.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38/63d9453af71ea5f57c10fd7589e46e129ad8aa.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/38/63d9453af71ea5f57c10fd7589e46e129ad8aa.debug debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups - install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c7 - objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.getting_started debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c7/b74c1727e45b6456b791da1387d102f4041c38.debug - chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c7/b74c1727e45b6456b791da1387d102f4041c38.debug - strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.getting_started - objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c7/b74c1727e45b6456b791da1387d102f4041c38.debug debian/python3-cctbx/usr/bin/cctbx.getting_started + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/febaeadc713717b68aab9d190f14a842862c5b.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/febaeadc713717b68aab9d190f14a842862c5b.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/5c/febaeadc713717b68aab9d190f14a842862c5b.debug debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/9be05539b4466e6869f98db392e4230feab1f1.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/9be05539b4466e6869f98db392e4230feab1f1.debug strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/4a/9be05539b4466e6869f98db392e4230feab1f1.debug debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib + install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c7 + objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cctbx.getting_started debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c7/b74c1727e45b6456b791da1387d102f4041c38.debug + chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c7/b74c1727e45b6456b791da1387d102f4041c38.debug + strip --remove-section=.comment --remove-section=.note debian/python3-cctbx/usr/bin/cctbx.getting_started + objcopy --add-gnu-debuglink debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/c7/b74c1727e45b6456b791da1387d102f4041c38.debug debian/python3-cctbx/usr/bin/cctbx.getting_started install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0 objcopy --only-keep-debug --compress-debug-sections debian/python3-cctbx/usr/bin/cbflib.tst_memory debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/8c143a90a0459b6cdafad20228fc42bf87742f.debug chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/usr/lib/debug/.build-id/f0/8c143a90a0459b6cdafad20228fc42bf87742f.debug @@ -76486,694 +76526,694 @@ rm -f debian/python3-cctbx/DEBIAN/shlibs dh_shlibdeps -a -O--buildsystem=pybuild install -m0755 -d debian/libcctbx0/DEBIAN - dpkg-shlibdeps -Tdebian/libcctbx0.substvars debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_pdb.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/librstbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_masks.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_slatec.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_minpack.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libomptbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_tls.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_xplor.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libdxtbxspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcbf-private.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libann_adaptor.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libccp4io.so.0.0.1 - install -m0755 -d debian/python3-cctbx/DEBIAN - dpkg-shlibdeps -Tdebian/python3-cctbx.substvars debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_reparametrisation debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_special_position debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/serialization/tst_base_256 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_householder debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_svd debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_givens debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_cholesky debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/math/tests/tst debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/lbfgs/tst_lbfgs debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/error/tst_error debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_vec3 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_sym_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_unsigned_float_arithmetic debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_ref_matrix_facet debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_4 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_rectangular_full_packed debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_5 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_3 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_2 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_accessors debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_1 debian/python3-cctbx/usr/lib/cctbx/python3.11/iotbx/pdb/hybrid_36_fem debian/python3-cctbx/usr/lib/cctbx/python3.11/boost_adaptbx/tests/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_special_position debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_reparametrisation debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/serialization/tst_base_256 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_householder debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_svd debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_cholesky debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_givens debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/math/tests/tst debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/lbfgs/tst_lbfgs debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/error/tst_error debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_vec3 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_sym_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_4 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_ref_matrix_facet debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_rectangular_full_packed debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_unsigned_float_arithmetic debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_5 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_3 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_1 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_2 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_accessors debian/python3-cctbx/usr/lib/cctbx/python3.12/iotbx/pdb/hybrid_36_fem debian/python3-cctbx/usr/lib/cctbx/python3.12/boost_adaptbx/tests/tst_optional_copy debian/python3-cctbx/usr/bin/cctbx_blobs debian/python3-cctbx/usr/bin/cctbx.find_distances debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups debian/python3-cctbx/usr/bin/cctbx.getting_started debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib debian/python3-cctbx/usr/bin/cbflib.tst_memory -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) + dpkg-shlibdeps -Tdebian/libcctbx0.substvars debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_pdb.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libsmtbx_refinement_constraints.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcctbx_sgtbx_asu.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/librstbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_slatec.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_minpack.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_masks.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libasymmetric_map.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libomptbx.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libmmtbx_tls.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_xplor.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libiotbx_mtz.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libdxtbxspotfinder.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libann_adaptor.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libcbf-private.so.0.0.1 debian/libcctbx0/usr/lib/aarch64-linux-gnu/libccp4io.so.0.0.1 +dpkg-shlibdeps: warning: symbol _Py_Dealloc used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyRange_Type used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: symbol PyExc_RuntimeError used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: symbol PyObject_CallFunction used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: symbol PyObject_IsTrue used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: symbol PyImport_ImportModule used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyExc_IndexError used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol PyErr_SetString used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries dpkg-shlibdeps: warning: symbol _Py_NoneStruct used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: symbol _Py_Dealloc used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: symbol PyObject_CallFunction used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries +dpkg-shlibdeps: warning: symbol PyObject_IsTrue used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries +dpkg-shlibdeps: warning: symbol PyImport_ImportModule used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries +dpkg-shlibdeps: warning: symbol PyExc_RuntimeError used by debian/libcctbx0/usr/lib/aarch64-linux-gnu/libscitbx_boost_python.so.0.0.1 found in none of the libraries + install -m0755 -d debian/python3-cctbx/DEBIAN + dpkg-shlibdeps -Tdebian/python3-cctbx.substvars debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-312-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-311-aarch64-linux-gnu.so debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_special_position debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/python3-cctbx/usr/lib/cctbx/python3.11/smtbx/refinement/constraints/tests/tst_reparametrisation debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/serialization/tst_base_256 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_svd debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_cholesky debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_householder debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/matrix/tests/tst_givens debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/math/tests/tst debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/lbfgs/tst_lbfgs debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/error/tst_error debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_vec3 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_sym_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_unsigned_float_arithmetic debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_4 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_ref_matrix_facet debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_rectangular_full_packed debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_5 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_3 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_2 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_af_1 debian/python3-cctbx/usr/lib/cctbx/python3.11/scitbx/array_family/tst_accessors debian/python3-cctbx/usr/lib/cctbx/python3.11/iotbx/pdb/hybrid_36_fem debian/python3-cctbx/usr/lib/cctbx/python3.11/boost_adaptbx/tests/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_special_position debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_reparametrisation debian/python3-cctbx/usr/lib/cctbx/python3.12/smtbx/refinement/constraints/tests/tst_geometrical_hydrogens debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/serialization/tst_base_256 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_svd debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_householder debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_cholesky debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/matrix/tests/tst_givens debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/math/tests/tst debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/lbfgs/tst_lbfgs debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/error/tst_error debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_vec3 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_unsigned_float_arithmetic debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_rectangular_full_packed debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_ref_matrix_facet debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_sym_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_optional_copy debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_4 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_5 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_mat3 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_1 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_2 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_af_3 debian/python3-cctbx/usr/lib/cctbx/python3.12/scitbx/array_family/tst_accessors debian/python3-cctbx/usr/lib/cctbx/python3.12/iotbx/pdb/hybrid_36_fem debian/python3-cctbx/usr/lib/cctbx/python3.12/boost_adaptbx/tests/tst_optional_copy debian/python3-cctbx/usr/bin/cctbx.find_distances debian/python3-cctbx/usr/bin/cctbx_blobs debian/python3-cctbx/usr/bin/cctbx.sym_equiv_sites debian/python3-cctbx/usr/bin/cctbx.sys_abs_equiv_space_groups debian/python3-cctbx/usr/bin/cctbx.lattice_symmetry debian/python3-cctbx/usr/bin/cctbx.convert_ccp4_symop_lib debian/python3-cctbx/usr/bin/cctbx.getting_started debian/python3-cctbx/usr/bin/cbflib.tst_memory +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it's probably a plugin +dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_GetLength: it's probably a plugin +dpkg-shlibdeps: warning: 49 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_CallFunction: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyCapsule_GetPointer: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it's probably a plugin +dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it's probably a plugin +dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 33 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Next: it's probably a plugin +dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyMem_Calloc: it's probably a plugin +dpkg-shlibdeps: warning: 122 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_GetIter: it's probably a plugin dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it's probably a plugin -dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyComplex_Type: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_GetIter: it's probably a plugin -dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PySlice_Type: it's probably a plugin -dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin -dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin +dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin +dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_ZeroDivisionError: it's probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsTrue: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it's probably a plugin +dpkg-shlibdeps: warning: 31 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin +dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyRange_Type: it's probably a plugin +dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Append: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _PyBytes_Resize: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it's probably a plugin dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin -dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 49 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_AsLong: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin -dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 22 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin +dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_scalepack_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_New: it's probably a plugin -dpkg-shlibdeps: warning: 124 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyComplex_Type: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it's probably a plugin -dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_AsLong: it's probably a plugin -dpkg-shlibdeps: warning: 31 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it's probably a plugin -dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBytes_AsString: it's probably a plugin -dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBytes_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyImport_AddModule: it's probably a plugin +dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_GetItem: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin -dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_shared_types_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin -dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin -dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_statistics_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it's probably a plugin +dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin -dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 26 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it's probably a plugin -dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Next: it's probably a plugin dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PySlice_Type: it's probably a plugin -dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin -dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 26 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_RuntimeError: it's probably a plugin -dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin -dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_glmtbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_SetItem: it's probably a plugin +dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 33 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin +dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PySlice_Type: it's probably a plugin -dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 22 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_GetItem: it's probably a plugin -dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it's probably a plugin -dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_CallFunction: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBytes_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cbflib_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_den_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_rigid_body_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_probe_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin +dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_crystal_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_util_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_GetIter: it's probably a plugin +dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cma_es_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin +dpkg-shlibdeps: warning: 49 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyWeakref_NewRef: it's probably a plugin -dpkg-shlibdeps: warning: 122 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin -dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_asa_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyImport_AddModule: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dssp_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsTrue: it's probably a plugin -dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it's probably a plugin -dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_hydrogens_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBytes_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it's probably a plugin +dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it's probably a plugin +dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBytes_AsStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyComplex_Type: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin -dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_dynamics_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_fftpack_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_RuntimeError: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_single_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_covariance_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reduce_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin -dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_asu_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PySlice_Type: it's probably a plugin -dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_RuntimeError: it's probably a plugin -dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_detectors_bruker_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_imageset_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it's probably a plugin -dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_masks_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _PyBytes_Resize: it's probably a plugin -dpkg-shlibdeps: warning: 33 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_wavelengths_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_henke_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Free: it's probably a plugin +dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_french_wilson_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_indexing_api_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_rational_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it's probably a plugin +dpkg-shlibdeps: warning: 26 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_gl_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBytes_AsString: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_attenuation_coefficient_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin +dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyRange_Type: it's probably a plugin +dpkg-shlibdeps: warning: 19 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_max_lik_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Check: it's probably a plugin -dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_tiny_pse_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyComplex_Type: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_neutron_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyIter_Next: it's probably a plugin -dpkg-shlibdeps: warning: 31 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_optional_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_connected_component_algorithm_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_clash_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyImport_AddModule: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin +dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_suffixtree_shared_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin -dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBytes_AsString: it's probably a plugin -dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_hierarchy_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _PyBytes_Resize: it's probably a plugin -dpkg-shlibdeps: warning: 33 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/annlib_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_bcr_bcr_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_map_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_optimise_amplitudes_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adptbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_GetIter: it's probably a plugin +dpkg-shlibdeps: warning: 18 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_dmtbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyRange_Type: it's probably a plugin +dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_HasAttrString: it's probably a plugin -dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_asymmetric_map_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_sgtbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin -dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/regression_test_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyRange_Type: it's probably a plugin -dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_merging_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin -dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_hough_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_graph_structure_comparison_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_cubicle_neighbors_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bpcx_detector_model_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/omptbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_emma_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 15 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_integration_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simulation_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_hybrid_times_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_least_squares_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_wildcard_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/ccp4io_adaptbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rsr_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Type: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_bandpass_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_iso_surface_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_xray_scattering_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_New: it's probably a plugin -dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_Type: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_bulk_solvent_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_stl_map_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_dxtbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_diffraction_fastbragg_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_math_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyComplex_Type: it's probably a plugin +dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_image_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_random_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_shared_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_GetIter: it's probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_sparse_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 23 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_fp_fdp_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyComplex_FromDoubles: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_vector_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Occurred: it's probably a plugin -dpkg-shlibdeps: warning: 20 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_distltbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_format_nexus_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_cif_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_CallFunction: it's probably a plugin -dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_mosaic_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_secondary_structure_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_shelx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyComplex_Type: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_f_model_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it's probably a plugin dpkg-shlibdeps: warning: 16 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_covalent_radii_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_metric_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_stl_set_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 17 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it's probably a plugin +dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/std_pair_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_flumpy.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_GetAttrString: it's probably a plugin +dpkg-shlibdeps: warning: 124 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_graphics_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_linalg_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin -dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin -dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_masking_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_maximum_clique_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_CallFunction: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ncs_cartesian_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_observations_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_r3_utils_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_wigner_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_viewer_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin -dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_maptbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_chemical_elements_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_New: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgs_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_scaling_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_miller_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_Type: it's probably a plugin -dpkg-shlibdeps: warning: 26 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_min_cut_max_flow_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_quadrics_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_masks_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_python_meta_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin -dpkg-shlibdeps: warning: 25 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_mtz_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 21 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_alignment_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_cablam_align_utils_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/determine_unit_cell_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_Type: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lstbx_normal_equations_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_minpack_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin -dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_array_family_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_boost_thread_test_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin -dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_tuple_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyTuple_New: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin -dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_AsUTF8: it's probably a plugin -dpkg-shlibdeps: warning: 49 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_ramachandran_restraints_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_IsInstance: it's probably a plugin -dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_icsd_radii_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_math_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_indexing_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_fonts_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_refinement_constraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_RuntimeError: it's probably a plugin +dpkg-shlibdeps: warning: 30 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_structure_factors_direct_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin dpkg-shlibdeps: warning: 8 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_orientation_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_symmetry_search_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 4 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it's probably a plugin -dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dtrek_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_clustering_algorithm_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Type: it's probably a plugin -dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_translation_search_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_validation_ramachandran_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 6 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_breadth_first_search_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_dsn6_map_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_Append: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_rotamer_fit_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 10 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_xplor_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_IndexError: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_anharmonic_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_reference_coordinate_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_Clear: it's probably a plugin +dpkg-shlibdeps: warning: 22 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_uctbx_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_symmetry_constraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin dpkg-shlibdeps: warning: 5 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/gltbx_glu_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyList_SetItem: it's probably a plugin -dpkg-shlibdeps: warning: 11 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_sphere_surface_sampling_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyDict_Next: it's probably a plugin +dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_eltbx_sasaki_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyExc_StopIteration: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_graph_utility_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/scitbx_lbfgsb_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all) -dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_building_loop_closure_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_tls_decompose_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyUnicode_FromStringAndSize: it's probably a plugin +dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/smtbx_ab_initio_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_NoneStruct: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_pdb_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_Type: it's probably a plugin +dpkg-shlibdeps: warning: 13 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/fable_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 12 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/rstbx_simage_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/dxtbx_model_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromUnsignedLong: it's probably a plugin +dpkg-shlibdeps: warning: 31 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_geometry_primitive_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyFloat_FromDouble: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/boost_adaptbx_python_streambuf_test_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 3 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/iotbx_ccp4_map_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyErr_SetString: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_geometry_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 29 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_multipolar_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol _Py_Dealloc: it's probably a plugin +dpkg-shlibdeps: warning: 1 similar warning has been skipped (use -v to see it) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/spotfinder_array_family_flex_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyLong_FromLong: it's probably a plugin +dpkg-shlibdeps: warning: 24 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_xray_ext.cpython-311-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyBool_Type: it's probably a plugin +dpkg-shlibdeps: warning: 28 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/cctbx_adp_restraints_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 22 other similar warnings have been skipped (use -v to see them all) +dpkg-shlibdeps: warning: debian/python3-cctbx/usr/lib/python3/dist-packages/mmtbx_pair_interaction_ext.cpython-312-aarch64-linux-gnu.so contains an unresolvable reference to symbol PyObject_Size: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--buildsystem=pybuild install -m0755 -d debian/libcctbx0/DEBIAN install -p -m0644 debian/.debhelper/generated/libcctbx0/triggers debian/libcctbx0/DEBIAN/triggers @@ -77190,10 +77230,6 @@ mv debian/libcctbx-dev.substvars.new debian/libcctbx-dev.substvars mv debian/python3-cctbx.substvars.new debian/python3-cctbx.substvars dh_gencontrol -O--buildsystem=pybuild - install -m0755 -d debian/libcctbx-dev/DEBIAN - echo misc:Depends= >> debian/libcctbx-dev.substvars - echo misc:Pre-Depends= >> debian/libcctbx-dev.substvars - dpkg-gencontrol -plibcctbx-dev -ldebian/changelog -Tdebian/libcctbx-dev.substvars -cdebian/control -Pdebian/libcctbx-dev install -m0755 -d debian/libcctbx0/DEBIAN echo misc:Depends= >> debian/libcctbx0.substvars echo misc:Pre-Depends= >> debian/libcctbx0.substvars @@ -77204,26 +77240,30 @@ echo misc:Pre-Depends= >> debian/python3-cctbx.substvars install -m0755 -d debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN dpkg-gencontrol -ppython3-cctbx -ldebian/changelog -Tdebian/python3-cctbx.substvars -cdebian/control -Pdebian/.debhelper/python3-cctbx/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=python3-cctbx-dbgsym "-DDepends=python3-cctbx (= \${binary:Version})" 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dd1d75858689ecd344e69dd8c446f7c58e1c5def dd6d50ad2948898e6401f4aa4bb2bd8c4ff6513a de97ead5239afe2097cf4c6a46bc4a29155bd7e7 dedeb5d15e7cc9244968794aecf5ac26f1e29c2e dfaec47e50f36b9688e361e5620a7d435ed667b9 e03775b1af500f9cf6500c3e8cc789fd49d0c13d e05e280265ae0dc0aec367e2257e59ec32f53b66 e0712e4cbc92e20e4c041caa19c960d19c540e33 e0848921651f13ec9971fa1d3277bc204771c98b e12bf2eb1cb2668e42de3e185ac9ff3f9393a14d e15fd049a6a7713b4d4249bb0adfe29c45792e2b e2024741235db665362ff9abe60d5854e51fedac e304f6d77be8aa79aca7c2bfb3c4de48656749a2 e33b1a4fdddd36f202b2d7948c154db4a44b2a5c e37c8dc02142002054525afd3b4e4f2e73d67c9a e3e482de438880c94876a3935282474564d28f7e e457567378d351d274c9c9b74237c1dfc8bdc7b3 e4b8a63729fa39b5221fe3d302c2a98ae06d9c0f e5b899a1dabfd16f8cec974beed0fb3363dd7fb4 e71947dc5a74d8630b411642df9a3ce554963f59 e7ece58a40fae8e74b5f3a03df0ee6e1425d31ab e9ba48b22c9e8587061ba39faeb13a07dbc45856 e9c73e906bb8dbd9d1359da08d5f9c6cd057a9a2 e9cab21c58b2fbb50c56c2548a9d72e9bfe50413 ea5c81a7bb111e879460a54efb89a65dda3bd966 ea649b9a84036b330e4e52988be52224165b53a1 ea931e16f23e6b82692e094e1700c43d29b65da8 eba710cce94287f75563722eccc7a7f3c20241d5 ebc64084e5ccde70d0cac080576b287a83d32291 ebf8daecc2804a329c0eab71309b193bc98bc7aa ec0fb51bd749ad4957a326c6885d93dd12f26192 ec576d4767513c886e17010f2e910f7f675951a2 ec704129619b05bcbb4e485c6d36cc4f7255b0c8 ed169655fdb09202c7159c4eebfef4c063168597 ed2e991246d92451166d3ad7be141a1c4602225a edc4e10e59f108498fbd9879e5f7b696ce17ab12 ee1bd2e21e1ec114d0fd52726cfbf18914114275 eec4dff8b6a2e04fa98aa6ca8935d85e433d06a9 eec7961dce1a6eadb358c02ac94d4d52be6abdfd ef2f6002b4daa1b891b9a50680fa03c839968ab1 ef69b4595b23b5efd19711daadc846ff3cf917a3 ef7b191474431cb17e676b7476ded872ce47f72a efadc7dd423eb4273e0ff637aa8557ee2a2de7a0 efb60deab407872f43bc9807f0de6fcfcb06e4ed efd99cffa1aa6bcc1c4bf86d68d14fb77d4f8e2e f08229d24ee6c6a2f093c6ff786384d4260db352 f08c143a90a0459b6cdafad20228fc42bf87742f f1a1c6c861f775c0913b002c603c09ab1746e7cd f27fd4bb7c3391f588c23093c74424cf45820c73 f34f75e5933319b9732a862e65a1cb156ff53daa f37d2435cba98f58a8a9737d544f102ef82d970d f44f750c9dccead9a4170c6ef8d73e30de7050ff f48f51bad6372e2330c7c5714b29df09db821647 f4c4bd5de28df3c6223c27343f86acc53842de80 f62c2155e671785d163dae1eab42e6cb09e569b1 f7d7b9cb879c633689e4be9f79c2485208aef355 f8e4fa52ea7abe2ec4ff275c9f50200d2487b9a8 f8ef1354a5fd4f64b398cfd7a2ddb07566a7dc23 f92ad04b4f995631fe6306ed8ad588a6403998e5 fcc5a15ee377f0d24ea740426e7b06e8308917c0 fd33e8ab79eaf4556033b440f332f53eb1dfe654 fdfd8bc1d47879fc52eb8303858dc3e01c3f14cd feaaac768049bc57f6f0dff54d40cd7acdb31380 ff1b9551fca77580f98c5e2d48523df1a677d296" -DSection=debug -UMulti-Arch -UReplaces -UBreaks -dpkg-gencontrol: warning: package libcctbx-dev: substitution variable ${python3:Depends} unused, but is defined - chmod 0644 -- debian/libcctbx-dev/DEBIAN/control + install -m0755 -d debian/libcctbx-dev/DEBIAN + echo misc:Depends= >> debian/libcctbx-dev.substvars + echo misc:Pre-Depends= >> debian/libcctbx-dev.substvars + dpkg-gencontrol -plibcctbx-dev -ldebian/changelog -Tdebian/libcctbx-dev.substvars -cdebian/control -Pdebian/libcctbx-dev dpkg-gencontrol: warning: package libcctbx0: substitution variable ${python3:Depends} unused, but is defined chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/DEBIAN/control dpkg-gencontrol -plibcctbx0 -ldebian/changelog -Tdebian/libcctbx0.substvars -cdebian/control -Pdebian/libcctbx0 +dpkg-gencontrol: warning: package libcctbx-dev: substitution variable ${python3:Depends} unused, but is defined + chmod 0644 -- debian/libcctbx-dev/DEBIAN/control chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN/control dpkg-gencontrol -ppython3-cctbx -ldebian/changelog -Tdebian/python3-cctbx.substvars -cdebian/control -Pdebian/python3-cctbx - chmod 0644 -- debian/python3-cctbx/DEBIAN/control dpkg-gencontrol: warning: package libcctbx0: substitution variable ${python3:Depends} unused, but is defined chmod 0644 -- debian/libcctbx0/DEBIAN/control + chmod 0644 -- debian/python3-cctbx/DEBIAN/control dh_md5sums -O--buildsystem=pybuild - install -m0755 -d debian/libcctbx-dev/DEBIAN - install -m0755 -d debian/libcctbx0/DEBIAN install -m0755 -d debian/python3-cctbx/DEBIAN + install -m0755 -d debian/libcctbx0/DEBIAN + install -m0755 -d debian/libcctbx-dev/DEBIAN cd debian/libcctbx0 >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/libcctbx-dev >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/python3-cctbx >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums - chmod 0644 -- debian/libcctbx-dev/DEBIAN/md5sums chmod 0644 -- debian/libcctbx0/DEBIAN/md5sums install -m0755 -d debian/.debhelper/libcctbx0/dbgsym-root/DEBIAN + chmod 0644 -- debian/libcctbx-dev/DEBIAN/md5sums cd debian/.debhelper/libcctbx0/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/libcctbx0/dbgsym-root/DEBIAN/md5sums chmod 0644 -- debian/python3-cctbx/DEBIAN/md5sums @@ -77231,15 +77271,15 @@ cd debian/.debhelper/python3-cctbx/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/python3-cctbx/dbgsym-root/DEBIAN/md5sums dh_builddeb -O--buildsystem=pybuild - dpkg-deb --root-owner-group --build debian/libcctbx0 .. + dpkg-deb --root-owner-group --build debian/.debhelper/python3-cctbx/dbgsym-root .. + dpkg-deb --root-owner-group --build debian/python3-cctbx .. dpkg-deb --root-owner-group --build debian/.debhelper/libcctbx0/dbgsym-root .. + dpkg-deb --root-owner-group --build debian/libcctbx0 .. dpkg-deb --root-owner-group --build debian/libcctbx-dev .. - dpkg-deb --root-owner-group --build debian/python3-cctbx .. - dpkg-deb --root-owner-group --build debian/.debhelper/python3-cctbx/dbgsym-root .. +dpkg-deb: building package 'python3-cctbx' in '../python3-cctbx_2023.12+ds2+~3.17.0+ds1-4_arm64.deb'. dpkg-deb: building package 'libcctbx0' in '../libcctbx0_2023.12+ds2+~3.17.0+ds1-4_arm64.deb'. dpkg-deb: building package 'libcctbx0-dbgsym' in '../libcctbx0-dbgsym_2023.12+ds2+~3.17.0+ds1-4_arm64.deb'. dpkg-deb: building package 'libcctbx-dev' in '../libcctbx-dev_2023.12+ds2+~3.17.0+ds1-4_arm64.deb'. -dpkg-deb: building package 'python3-cctbx' in '../python3-cctbx_2023.12+ds2+~3.17.0+ds1-4_arm64.deb'. dpkg-deb: building package 'python3-cctbx-dbgsym' in '../python3-cctbx-dbgsym_2023.12+ds2+~3.17.0+ds1-4_arm64.deb'. dpkg-genbuildinfo --build=binary -O../cctbx_2023.12+ds2+~3.17.0+ds1-4_arm64.buildinfo dpkg-genchanges --build=binary -O../cctbx_2023.12+ds2+~3.17.0+ds1-4_arm64.changes @@ -77248,12 +77288,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/2788930/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2788930/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/2418927 and its subdirectories -I: Current time: Thu Jun 26 10:50:53 -12 2025 -I: pbuilder-time-stamp: 1750978253 +I: removing directory /srv/workspace/pbuilder/2788930 and its subdirectories +I: Current time: Sat May 25 07:30:24 +14 2024 +I: pbuilder-time-stamp: 1716571824