Diff of the two buildlogs: -- --- b1/build.log 2023-04-22 09:07:32.323734321 +0000 +++ b2/build.log 2023-04-22 09:15:00.563856064 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Apr 21 21:02:46 -12 2023 -I: pbuilder-time-stamp: 1682154166 +I: Current time: Sat May 25 05:30:35 +14 2024 +I: pbuilder-time-stamp: 1716564635 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-reproducible-base.tgz] I: copying local configuration @@ -16,7 +16,7 @@ I: copying [./ataqv_1.3.0+ds.orig.tar.xz] I: copying [./ataqv_1.3.0+ds-2.debian.tar.xz] I: Extracting source -gpgv: Signature made Thu Sep 29 22:44:49 2022 -12 +gpgv: Signature made Sat Oct 1 00:44:49 2022 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key @@ -34,52 +34,84 @@ dpkg-source: info: applying reproducible_build I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1895/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/16466/tmp/hooks/D01_modify_environment starting +debug: Running on codethink15-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 25 05:30 /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/16466/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/16466/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build' - 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]="15" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.15(1)-release' + BUILDDIR=/build + 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=8' - DISTRIBUTION='bookworm' - HOME='/var/lib/jenkins' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=bookworm + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/var/lib/jenkins + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - 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='1895' - PS1='# ' - PS2='> ' + 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=16466 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.XTajs2K0/pbuilderrc_QIIP --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.XTajs2K0/b1 --logfile b1/build.log ataqv_1.3.0+ds-2.dsc' - SUDO_GID='117' - SUDO_UID='110' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - USERNAME='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.16:3128' + 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.XTajs2K0/pbuilderrc_hL4S --distribution bookworm --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.XTajs2K0/b2 --logfile b2/build.log --extrapackages usrmerge ataqv_1.3.0+ds-2.dsc' + SUDO_GID=117 + SUDO_UID=110 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + USERNAME=root + _='I: set' + http_proxy=http://192.168.101.16:3128 I: uname -a - Linux codethink12-arm64 4.15.0-209-generic #220-Ubuntu SMP Tue Mar 21 19:52:44 UTC 2023 aarch64 GNU/Linux + Linux i-capture-the-hostname 4.15.0-209-generic #220-Ubuntu SMP Tue Mar 21 19:52:44 UTC 2023 aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Apr 20 22:25 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1895/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 22 06:47 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/16466/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -271,7 +303,7 @@ Get: 120 http://deb.debian.org/debian bookworm/main arm64 node-d3-zoom all 1.8.3-4 [20.1 kB] Get: 121 http://deb.debian.org/debian bookworm/main arm64 node-d3 all 5.16.0-10 [219 kB] Get: 122 http://deb.debian.org/debian bookworm/main arm64 node-normalize.css all 8.0.1-5 [12.7 kB] -Fetched 55.1 MB in 2s (26.3 MB/s) +Fetched 55.1 MB in 1s (43.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (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 ... 19616 files and directories currently installed.) @@ -775,8 +807,17 @@ Writing extended state information... Building tag database... -> Finished parsing the build-deps +Reading package lists... +Building dependency tree... +Reading state information... +usrmerge is already the newest version (35). +0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package -I: Running cd /build/ataqv-1.3.0+ds/ && 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 > ../ataqv_1.3.0+ds-2_source.changes +I: user script /srv/workspace/pbuilder/16466/tmp/hooks/A99_set_merged_usr starting +Re-configuring usrmerge... +I: user script /srv/workspace/pbuilder/16466/tmp/hooks/A99_set_merged_usr finished +hostname: Temporary failure in name resolution +I: Running cd /build/ataqv-1.3.0+ds/ && 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 > ../ataqv_1.3.0+ds-2_source.changes dpkg-buildpackage: info: source package ataqv dpkg-buildpackage: info: source version 1.3.0+ds-2 dpkg-buildpackage: info: source distribution unstable @@ -787,15 +828,15 @@ dh clean dh_auto_clean make -j8 clean -make[1]: Entering directory '/build/ataqv-1.3.0+ds' -make[1]: Leaving directory '/build/ataqv-1.3.0+ds' +make[1]: Map '/build/ataqv-1.3.0+ds' wordt binnengegaan +make[1]: Map '/build/ataqv-1.3.0+ds' wordt verlaten dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure -make[1]: Entering directory '/build/ataqv-1.3.0+ds' +make[1]: Map '/build/ataqv-1.3.0+ds' wordt binnengegaan cp -sf /usr/share/nodejs/d3/dist/d3.min.js src/web/js/d3.min.js cp -sf /usr/share/javascript/jquery-datatables-extensions/JSZip/jszip.min.js src/web/js/jszip.min.js cp -sf /usr/share/javascript/jquery-datatables-extensions/Buttons/css/buttons.dataTables.min.css src/web/css/datatables.buttons.min.css @@ -813,12 +854,12 @@ /usr/share/javascript/jquery-datatables-extensions/Responsive/js/dataTables.responsive.min.js \ src/web/js/ rm -f src/web/js/datatables.min.js -make[1]: Leaving directory '/build/ataqv-1.3.0+ds' +make[1]: Map '/build/ataqv-1.3.0+ds' wordt verlaten debian/rules override_dh_auto_build -make[1]: Entering directory '/build/ataqv-1.3.0+ds' +make[1]: Map '/build/ataqv-1.3.0+ds' wordt binnengegaan dh_auto_build -- all testing/run_ataqv_tests make -j8 "INSTALL=install --strip-program=true" all testing/run_ataqv_tests -make[2]: Entering directory '/build/ataqv-1.3.0+ds' +make[2]: Map '/build/ataqv-1.3.0+ds' wordt binnengegaan g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o build/ataqv.o -c /build/ataqv-1.3.0+ds/src/cpp/ataqv.cpp g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o build/Features.o -c /build/ataqv-1.3.0+ds/src/cpp/Features.cpp g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o build/HTS.o -c /build/ataqv-1.3.0+ds/src/cpp/HTS.cpp @@ -830,16 +871,16 @@ g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/test_features.o -c /build/ataqv-1.3.0+ds/src/cpp/test_features.cpp g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/test_hts.o -c /build/ataqv-1.3.0+ds/src/cpp/test_hts.cpp g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/test_io.o -c /build/ataqv-1.3.0+ds/src/cpp/test_io.cpp -In file included from /build/ataqv-1.3.0+ds/src/cpp/test_hts.cpp:3: -/build/ataqv-1.3.0+ds/src/cpp/test_hts.cpp: In function ‘void ____C_A_T_C_H____T_E_S_T____169()’: -/build/ataqv-1.3.0+ds/src/cpp/test_hts.cpp:200:57: warning: catching polymorphic type ‘class HTSException’ by value [-Wcatch-value=] - 200 | REQUIRE_THROWS_AS(record_to_string(header, record), HTSException); - | ^~~~~~~~~~~~ In file included from /build/ataqv-1.3.0+ds/src/cpp/test_features.cpp:1: /build/ataqv-1.3.0+ds/src/cpp/test_features.cpp: In function ‘void ____C_A_T_C_H____T_E_S_T____167()’: /build/ataqv-1.3.0+ds/src/cpp/test_features.cpp:171:47: warning: catching polymorphic type ‘class std::out_of_range’ by value [-Wcatch-value=] 171 | REQUIRE_THROWS_AS(collection.add(f), std::out_of_range); | ^~~~~~~~~~~~ +In file included from /build/ataqv-1.3.0+ds/src/cpp/test_hts.cpp:3: +/build/ataqv-1.3.0+ds/src/cpp/test_hts.cpp: In function ‘void ____C_A_T_C_H____T_E_S_T____169()’: +/build/ataqv-1.3.0+ds/src/cpp/test_hts.cpp:200:57: warning: catching polymorphic type ‘class HTSException’ by value [-Wcatch-value=] + 200 | REQUIRE_THROWS_AS(record_to_string(header, record), HTSException); + | ^~~~~~~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/test_metrics.o -c /build/ataqv-1.3.0+ds/src/cpp/test_metrics.cpp g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/test_peaks.o -c /build/ataqv-1.3.0+ds/src/cpp/test_peaks.cpp g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/test_utils.o -c /build/ataqv-1.3.0+ds/src/cpp/test_utils.cpp @@ -849,6 +890,7 @@ 181 | REQUIRE_THROWS_AS(rpc.add(peak3), std::out_of_range); | ^~~~~~~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/Features.o -c /build/ataqv-1.3.0+ds/src/cpp/Features.cpp +g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/HTS.o -c /build/ataqv-1.3.0+ds/src/cpp/HTS.cpp In file included from /build/ataqv-1.3.0+ds/src/cpp/test_metrics.cpp:3: /build/ataqv-1.3.0+ds/src/cpp/test_metrics.cpp: In function ‘void ____C_A_T_C_H____T_E_S_T____170()’: /build/ataqv-1.3.0+ds/src/cpp/test_metrics.cpp:173:56: warning: catching polymorphic type ‘class FileException’ by value [-Wcatch-value=] @@ -865,7 +907,6 @@ /build/ataqv-1.3.0+ds/src/cpp/test_metrics.cpp:259:52: warning: catching polymorphic type ‘class FileException’ by value [-Wcatch-value=] 259 | REQUIRE_THROWS_AS(collector.load_alignments(), FileException); | ^~~~~~~~~~~~~ -g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/HTS.o -c /build/ataqv-1.3.0+ds/src/cpp/HTS.cpp g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/IO.o -c /build/ataqv-1.3.0+ds/src/cpp/IO.cpp g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/Metrics.o -c /build/ataqv-1.3.0+ds/src/cpp/Metrics.cpp g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/Peaks.o -c /build/ataqv-1.3.0+ds/src/cpp/Peaks.cpp @@ -1002,11 +1043,11 @@ 277 | j = BasicJsonType{}; | ~~^~~~~~~~~~~~~~~~~ g++ -g -O2 -ffile-prefix-map=/build/ataqv-1.3.0+ds=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++11 -pthread -O3 -g -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Wwrite-strings -Wstrict-overflow -fno-strict-aliasing -fPIC -I/build/ataqv-1.3.0+ds/src/cpp -D LINUX -o testing/run_ataqv_tests testing/run_ataqv_tests.o testing/test_features.o testing/test_hts.o testing/test_io.o testing/test_metrics.o testing/test_peaks.o testing/test_utils.o testing/Features.o testing/HTS.o testing/IO.o testing/Metrics.o testing/Peaks.o testing/Utils.o -Wl,-z,relro -Wl,-z,now -lboost_filesystem -lboost_iostreams -lboost_system -lboost_chrono -lhts -lz -lncurses -lpthread -make[2]: Leaving directory '/build/ataqv-1.3.0+ds' -make[1]: Leaving directory '/build/ataqv-1.3.0+ds' +make[2]: Map '/build/ataqv-1.3.0+ds' wordt verlaten +make[1]: Map '/build/ataqv-1.3.0+ds' wordt verlaten dh_auto_test make -j8 test -make[1]: Entering directory '/build/ataqv-1.3.0+ds' +make[1]: Map '/build/ataqv-1.3.0+ds' wordt binnengegaan [E::sam_format1_append] Corrupted aux data for read SRR891268.122333488 Reading human autosomal references from autosomal_references.gz. Autosomal references for human: @@ -1062,7 +1103,7 @@ chr20 feature count: 694 chr21 feature count: 321 chr22 feature count: 593 -Loaded 24989 TSS in 3.38409 seconds. (7384.25 TSS/second). +Loaded 24989 TSS in 3.4214 seconds. (7303.73 TSS/second). Collecting metrics from test.bam. @@ -1245,7 +1286,7 @@ chr20 peak count: 864 chr21 peak count: 487 chr22 peak count: 662 -Loaded 37276 peaks in 25.6204 seconds. (1454.93 peaks/second). +Loaded 37276 peaks in 26.4642 seconds. (1408.55 peaks/second). Logging problematic reads to SRR891278.problems. @@ -1426,7 +1467,7 @@ chr20 peak count: 864 chr21 peak count: 487 chr22 peak count: 662 -Loaded 37276 peaks in 24.5282 seconds. (1519.72 peaks/second). +Loaded 37276 peaks in 25.8492 seconds. (1442.06 peaks/second). New maximum proper pair fragment length: 42 from [SRR891275.608 1123 chr1 569907 57 42M = 569907 42 CACTAACCATATACCAATGATGGCGCGATGTAACACGAGAAA @@@FFFEFFDHFBHIJIEFHJIGGF:CFGEDF?FFHEG@FGG XA:Z:chrM,+9359,42M,1; MD:Z:42 NM:i:0 AS:i:42 XS:i:37 RG:Z:SRR891275 PG:Z:MarkDuplicates] New maximum proper pair fragment length: 330 from [SRR891278.50 1123 chr1 569913 27 50M = 570193 330 NCATATACCAATGATGGCGCGATGTAACACGAGAAAGCACATACCAAGGC #1=DDFFFHHGHHJJJJIJJJGEGHIGGIIIJJJJIIFGGIJHIIJICHH XA:Z:chrM,+9365,50M,2; MD:Z:0C49 NM:i:1 AS:i:49 XS:i:44 RG:Z:SRR891278 PG:Z:MarkDuplicates-4FB7F45F] @@ -1464,12 +1505,12 @@ Added TSS coverage for chr2; thread count=1 Added TSS coverage for chr1; thread count=1 All TSS jobs started. Waiting for last ones to complete. -Calculated TSS coverage in 0.284163 seconds. +Calculated TSS coverage in 0.309325 seconds. Calculating TSS metrics... -Calculated TSS metrics in 0.000831408 seconds. +Calculated TSS metrics in 0.00093454 seconds. Calculating TSS metrics... -Calculated TSS metrics in 0.000857688 seconds. -Analyzed 1040 reads in 0.473697 seconds (2195.5 reads/second). +Calculated TSS metrics in 0.001069 seconds. +Analyzed 1040 reads in 0.542483 seconds (1917.11 reads/second). ataqv 1.3.0 @@ -1879,7 +1920,7 @@ chr20 peak count: 864 chr21 peak count: 487 chr22 peak count: 662 -Loaded 37276 peaks in 25.175 seconds. (1480.701 peaks/second). +Loaded 37276 peaks in 26.323 seconds. (1416.081 peaks/second). New maximum proper pair fragment length: 42 from [SRR891275.608 1123 chr1 569907 57 42M = 569907 42 CACTAACCATATACCAATGATGGCGCGATGTAACACGAGAAA @@@FFFEFFDHFBHIJIEFHJIGGF:CFGEDF?FFHEG@FGG XA:Z:chrM,+9359,42M,1; MD:Z:42 NM:i:0 AS:i:42 XS:i:37 RG:Z:SRR891275 PG:Z:MarkDuplicates] New maximum proper pair fragment length: 330 from [SRR891278.50 1123 chr1 569913 27 50M = 570193 330 NCATATACCAATGATGGCGCGATGTAACACGAGAAAGCACATACCAAGGC #1=DDFFFHHGHHJJJJIJJJGEGHIGGIIIJJJJIIFGGIJHIIJICHH XA:Z:chrM,+9365,50M,2; MD:Z:0C49 NM:i:1 AS:i:49 XS:i:44 RG:Z:SRR891278 PG:Z:MarkDuplicates-4FB7F45F] @@ -1888,7 +1929,7 @@ New maximum proper pair fragment length: 609 from [SRR891275.714 99 chr1 79875808 60 50M = 79876367 609 GGCCCAGCCAAGTTGACACATAAAATAAACTTTCACAATATTGCAGGCAG @@@DDDFFFHAH build/$(basename $f); install -m 0755 build/$(basename $f) /build/ataqv-1.3.0+ds/debian/ataqv/usr/bin; done +install -d -m 0755 /build/ataqv-1.3.0+ds/debian/ataqv/usr/share/ataqv/web cp -a src/web/* /build/ataqv-1.3.0+ds/debian/ataqv/usr/share/ataqv/web find /build/ataqv-1.3.0+ds/debian/ataqv/usr/share/ataqv/web -type d -exec chmod 755 {} \; find /build/ataqv-1.3.0+ds/debian/ataqv/usr/share/ataqv/web -type f -exec chmod 644 {} \; -make[2]: Leaving directory '/build/ataqv-1.3.0+ds' -make[1]: Leaving directory '/build/ataqv-1.3.0+ds' +make[2]: Map '/build/ataqv-1.3.0+ds' wordt verlaten +make[1]: Map '/build/ataqv-1.3.0+ds' wordt verlaten dh_install dh_installdocs dh_installchangelogs dh_installexamples debian/rules override_dh_installman -make[1]: Entering directory '/build/ataqv-1.3.0+ds' +make[1]: Map '/build/ataqv-1.3.0+ds' wordt binnengegaan help2man --no-info --name="QC metrics for ATAC-seq data" build/ataqv > debian/ataqv.1 help2man --no-info --name="Turns ataqv results into a web app" src/scripts/mkarv > debian/mkarv.1 help2man --no-info --name="serve an instance of the ataqv web results viewer" --version-string 1.3.0+ds src/scripts/srvarv > debian/srvarv.1 dh_installman -make[1]: Leaving directory '/build/ataqv-1.3.0+ds' +make[1]: Map '/build/ataqv-1.3.0+ds' wordt verlaten dh_perl dh_link dh_strip_nondeterminism @@ -2070,8 +2111,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'ataqv-dbgsym' in '../ataqv-dbgsym_1.3.0+ds-2_arm64.deb'. -dpkg-deb: building package 'ataqv' in '../ataqv_1.3.0+ds-2_arm64.deb'. +dpkg-deb: pakket 'ataqv' wordt gebouwd in '../ataqv_1.3.0+ds-2_arm64.deb'. +dpkg-deb: pakket 'ataqv-dbgsym' wordt gebouwd in '../ataqv-dbgsym_1.3.0+ds-2_arm64.deb'. dpkg-genbuildinfo --build=binary -O../ataqv_1.3.0+ds-2_arm64.buildinfo dpkg-genchanges --build=binary -O../ataqv_1.3.0+ds-2_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -2079,12 +2120,14 @@ 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/16466/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/16466/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/1895 and its subdirectories -I: Current time: Fri Apr 21 21:07:26 -12 2023 -I: pbuilder-time-stamp: 1682154446 +I: removing directory /srv/workspace/pbuilder/16466 and its subdirectories +I: Current time: Sat May 25 05:37:57 +14 2024 +I: pbuilder-time-stamp: 1716565077