I: pbuilder: network access will be disabled during build I: Current time: Fri May 3 19:48:31 +14 2024 I: pbuilder-time-stamp: 1714715311 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [bppsuite_2.4.1-7.dsc] I: copying [./bppsuite_2.4.1.orig.tar.gz] I: copying [./bppsuite_2.4.1-7.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Mar 25 17:56:36 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./bppsuite_2.4.1-7.dsc: no acceptable signature found dpkg-source: info: extracting bppsuite in bppsuite-2.4.1 dpkg-source: info: unpacking bppsuite_2.4.1.orig.tar.gz dpkg-source: info: unpacking bppsuite_2.4.1-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling dpkg-source: info: applying hardening I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/30722/tmp/hooks/D01_modify_environment starting debug: Running on virt64c. 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 3 05:48 /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/30722/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/30722/tmp/hooks/D02_print_environment starting I: set 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]="arm-unknown-linux-gnueabihf") 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=armhf DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=arm HOST_ARCH=armhf IFS=' ' INVOCATION_ID=eeb7e3b64bb846b4a2fef9126b685699 LANG=C LANGUAGE=it_CH:it LC_ALL=C MACHTYPE=arm-unknown-linux-gnueabihf MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnueabihf 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=30722 PS4='+ ' 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.9DSLFc2H/pbuilderrc_oPjQ --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.9DSLFc2H/b2 --logfile b2/build.log bppsuite_2.4.1-7.dsc' SUDO_GID=113 SUDO_UID=107 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://10.0.0.15:3142/ I: uname -a Linux i-capture-the-hostname 6.1.0-20-arm64 #1 SMP Debian 6.1.85-1 (2024-04-11) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 1 11:25 /bin -> usr/bin I: user script /srv/workspace/pbuilder/30722/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, texinfo, libbpp-phyl-dev, libbpp-popgen-dev, libeigen3-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19441 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on texinfo; however: Package texinfo is not installed. pbuilder-satisfydepends-dummy depends on libbpp-phyl-dev; however: Package libbpp-phyl-dev is not installed. pbuilder-satisfydepends-dummy depends on libbpp-popgen-dev; however: Package libbpp-popgen-dev is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libbpp-core-dev{a} libbpp-core4t64{a} libbpp-phyl-dev{a} libbpp-phyl12t64{a} libbpp-popgen-dev{a} libbpp-popgen8t64{a} libbpp-seq-dev{a} libbpp-seq12t64{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libeigen3-dev{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libicu72{a} libjsoncpp25{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libpipeline1{a} libpkgconf3{a} libproc2-0{a} libpsl5t64{a} librhash0{a} librtmp1{a} libssh2-1t64{a} libsub-override-perl{a} libtext-unidecode-perl{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml-libxml-perl{a} libxml-namespacesupport-perl{a} libxml-sax-base-perl{a} libxml-sax-perl{a} libxml2{a} m4{a} man-db{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} sensible-utils{a} tex-common{a} texinfo{a} texinfo-lib{a} ucf{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libltdl-dev libmail-sendmail-perl libwww-perl libxml-sax-expat-perl lynx psmisc publicsuffix wget 0 packages upgraded, 73 newly installed, 0 to remove and 0 not upgraded. Need to get 40.4 MB of archives. After unpacking 187 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main armhf libproc2-0 armhf 2:4.0.4-4 [55.7 kB] Get: 2 http://deb.debian.org/debian trixie/main armhf procps armhf 2:4.0.4-4 [864 kB] Get: 3 http://deb.debian.org/debian trixie/main armhf sensible-utils all 0.0.22 [22.4 kB] Get: 4 http://deb.debian.org/debian trixie/main armhf libmagic-mgc armhf 1:5.45-3 [314 kB] Get: 5 http://deb.debian.org/debian trixie/main armhf libmagic1t64 armhf 1:5.45-3 [98.1 kB] Get: 6 http://deb.debian.org/debian trixie/main armhf file armhf 1:5.45-3 [42.0 kB] Get: 7 http://deb.debian.org/debian trixie/main armhf gettext-base armhf 0.21-14+b1 [157 kB] Get: 8 http://deb.debian.org/debian trixie/main armhf libuchardet0 armhf 0.0.8-1+b1 [65.7 kB] Get: 9 http://deb.debian.org/debian trixie/main armhf groff-base armhf 1.23.0-3 [1088 kB] Get: 10 http://deb.debian.org/debian trixie/main armhf bsdextrautils armhf 2.40-8 [85.6 kB] Get: 11 http://deb.debian.org/debian trixie/main armhf libpipeline1 armhf 1.5.7-2 [33.3 kB] Get: 12 http://deb.debian.org/debian trixie/main armhf man-db armhf 2.12.1-1 [1375 kB] Get: 13 http://deb.debian.org/debian trixie/main armhf ucf all 3.0043+nmu1 [55.2 kB] Get: 14 http://deb.debian.org/debian trixie/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 15 http://deb.debian.org/debian trixie/main armhf autoconf all 2.71-3 [332 kB] Get: 16 http://deb.debian.org/debian trixie/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 17 http://deb.debian.org/debian trixie/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 18 http://deb.debian.org/debian trixie/main armhf autopoint all 0.21-14 [496 kB] Get: 19 http://deb.debian.org/debian trixie/main armhf libicu72 armhf 72.1-4+b1 [9070 kB] Get: 20 http://deb.debian.org/debian trixie/main armhf libxml2 armhf 2.9.14+dfsg-1.3+b3 [598 kB] Get: 21 http://deb.debian.org/debian trixie/main armhf libarchive13t64 armhf 3.7.2-2 [304 kB] Get: 22 http://deb.debian.org/debian trixie/main armhf libbrotli1 armhf 1.1.0-2+b3 [284 kB] Get: 23 http://deb.debian.org/debian trixie/main armhf libkrb5support0 armhf 1.20.1-6+b1 [30.6 kB] Get: 24 http://deb.debian.org/debian trixie/main armhf libcom-err2 armhf 1.47.0-2.4 [19.5 kB] Get: 25 http://deb.debian.org/debian trixie/main armhf libk5crypto3 armhf 1.20.1-6+b1 [75.5 kB] Get: 26 http://deb.debian.org/debian trixie/main armhf libkeyutils1 armhf 1.6.3-3 [7908 B] Get: 27 http://deb.debian.org/debian trixie/main armhf libkrb5-3 armhf 1.20.1-6+b1 [290 kB] Get: 28 http://deb.debian.org/debian trixie/main armhf libgssapi-krb5-2 armhf 1.20.1-6+b1 [112 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf libnghttp2-14 armhf 1.61.0-1+b1 [64.1 kB] Get: 30 http://deb.debian.org/debian trixie/main armhf libpsl5t64 armhf 0.21.2-1.1 [55.6 kB] Get: 31 http://deb.debian.org/debian trixie/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b4 [53.2 kB] Get: 32 http://deb.debian.org/debian trixie/main armhf libssh2-1t64 armhf 1.11.0-4.1+b2 [198 kB] Get: 33 http://deb.debian.org/debian trixie/main armhf libcurl4t64 armhf 8.7.1-3 [391 kB] Get: 34 http://deb.debian.org/debian trixie/main armhf libexpat1 armhf 2.6.2-1 [83.5 kB] Get: 35 http://deb.debian.org/debian trixie/main armhf libjsoncpp25 armhf 1.9.5-6+b2 [69.9 kB] Get: 36 http://deb.debian.org/debian trixie/main armhf librhash0 armhf 1.4.3-3+b1 [143 kB] Get: 37 http://deb.debian.org/debian trixie/main armhf libuv1t64 armhf 1.48.0-1.1 [134 kB] Get: 38 http://deb.debian.org/debian trixie/main armhf cmake-data all 3.29.2-2 [2167 kB] Get: 39 http://deb.debian.org/debian trixie/main armhf cmake armhf 3.29.2-2 [5215 kB] Get: 40 http://deb.debian.org/debian trixie/main armhf libdebhelper-perl all 13.15.3 [88.0 kB] Get: 41 http://deb.debian.org/debian trixie/main armhf libtool all 2.4.7-7 [517 kB] Get: 42 http://deb.debian.org/debian trixie/main armhf dh-autoreconf all 20 [17.1 kB] Get: 43 http://deb.debian.org/debian trixie/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 44 http://deb.debian.org/debian trixie/main armhf libsub-override-perl all 0.10-1 [10.6 kB] Get: 45 http://deb.debian.org/debian trixie/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 46 http://deb.debian.org/debian trixie/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 47 http://deb.debian.org/debian trixie/main armhf libelf1t64 armhf 0.191-1+b1 [183 kB] Get: 48 http://deb.debian.org/debian trixie/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 49 http://deb.debian.org/debian trixie/main armhf gettext armhf 0.21-14+b1 [1230 kB] Get: 50 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 51 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 52 http://deb.debian.org/debian trixie/main armhf debhelper all 13.15.3 [901 kB] Get: 53 http://deb.debian.org/debian trixie/main armhf libbpp-core4t64 armhf 2.4.1-12 [527 kB] Get: 54 http://deb.debian.org/debian trixie/main armhf libbpp-core-dev armhf 2.4.1-12 [957 kB] Get: 55 http://deb.debian.org/debian trixie/main armhf libbpp-seq12t64 armhf 2.4.1-12 [438 kB] Get: 56 http://deb.debian.org/debian trixie/main armhf libbpp-phyl12t64 armhf 2.4.1-10 [1451 kB] Get: 57 http://deb.debian.org/debian trixie/main armhf libbpp-seq-dev armhf 2.4.1-12 [742 kB] Get: 58 http://deb.debian.org/debian trixie/main armhf libbpp-phyl-dev armhf 2.4.1-10 [3134 kB] Get: 59 http://deb.debian.org/debian trixie/main armhf libbpp-popgen8t64 armhf 2.4.1-10 [203 kB] Get: 60 http://deb.debian.org/debian trixie/main armhf libbpp-popgen-dev armhf 2.4.1-10 [288 kB] Get: 61 http://deb.debian.org/debian trixie/main armhf libpkgconf3 armhf 1.8.1-1+b2 [31.9 kB] Get: 62 http://deb.debian.org/debian trixie/main armhf pkgconf-bin armhf 1.8.1-1+b2 [28.9 kB] Get: 63 http://deb.debian.org/debian trixie/main armhf pkgconf armhf 1.8.1-1+b2 [26.2 kB] Get: 64 http://deb.debian.org/debian trixie/main armhf pkg-config armhf 1.8.1-1+b2 [14.0 kB] Get: 65 http://deb.debian.org/debian trixie/main armhf libeigen3-dev all 3.4.0-4 [1041 kB] Get: 66 http://deb.debian.org/debian trixie/main armhf libtext-unidecode-perl all 1.30-3 [101 kB] Get: 67 http://deb.debian.org/debian trixie/main armhf libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get: 68 http://deb.debian.org/debian trixie/main armhf libxml-sax-base-perl all 1.09-3 [20.6 kB] Get: 69 http://deb.debian.org/debian trixie/main armhf libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get: 70 http://deb.debian.org/debian trixie/main armhf libxml-libxml-perl armhf 2.0207+dfsg+really+2.0134-1+b4 [297 kB] Get: 71 http://deb.debian.org/debian trixie/main armhf tex-common all 6.18 [32.5 kB] Get: 72 http://deb.debian.org/debian trixie/main armhf texinfo-lib armhf 7.1-3+b2 [205 kB] Get: 73 http://deb.debian.org/debian trixie/main armhf texinfo all 7.1-3 [1748 kB] Fetched 40.4 MB in 1s (35.7 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libproc2-0:armhf. (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 ... 19441 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.4-4_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.4-4) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.4-4_armhf.deb ... Unpacking procps (2:4.0.4-4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../03-libmagic-mgc_1%3a5.45-3_armhf.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:armhf. Preparing to unpack .../04-libmagic1t64_1%3a5.45-3_armhf.deb ... Unpacking libmagic1t64:armhf (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../05-file_1%3a5.45-3_armhf.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../06-gettext-base_0.21-14+b1_armhf.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../07-libuchardet0_0.0.8-1+b1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../08-groff-base_1.23.0-3_armhf.deb ... Unpacking groff-base (1.23.0-3) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../09-bsdextrautils_2.40-8_armhf.deb ... Unpacking bsdextrautils (2.40-8) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../10-libpipeline1_1.5.7-2_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../11-man-db_2.12.1-1_armhf.deb ... Unpacking man-db (2.12.1-1) ... Selecting previously unselected package ucf. Preparing to unpack .../12-ucf_3.0043+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0043+nmu1) ... Selecting previously unselected package m4. Preparing to unpack .../13-m4_1.4.19-4_armhf.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../14-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../15-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../16-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../17-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libicu72:armhf. Preparing to unpack .../18-libicu72_72.1-4+b1_armhf.deb ... Unpacking libicu72:armhf (72.1-4+b1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../19-libxml2_2.9.14+dfsg-1.3+b3_armhf.deb ... Unpacking libxml2:armhf (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package libarchive13t64:armhf. Preparing to unpack .../20-libarchive13t64_3.7.2-2_armhf.deb ... Unpacking libarchive13t64:armhf (3.7.2-2) ... Selecting previously unselected package libbrotli1:armhf. Preparing to unpack .../21-libbrotli1_1.1.0-2+b3_armhf.deb ... Unpacking libbrotli1:armhf (1.1.0-2+b3) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../22-libkrb5support0_1.20.1-6+b1_armhf.deb ... Unpacking libkrb5support0:armhf (1.20.1-6+b1) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../23-libcom-err2_1.47.0-2.4_armhf.deb ... Unpacking libcom-err2:armhf (1.47.0-2.4) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../24-libk5crypto3_1.20.1-6+b1_armhf.deb ... Unpacking libk5crypto3:armhf (1.20.1-6+b1) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../25-libkeyutils1_1.6.3-3_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.3-3) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../26-libkrb5-3_1.20.1-6+b1_armhf.deb ... Unpacking libkrb5-3:armhf (1.20.1-6+b1) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../27-libgssapi-krb5-2_1.20.1-6+b1_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (1.20.1-6+b1) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../28-libnghttp2-14_1.61.0-1+b1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.61.0-1+b1) ... Selecting previously unselected package libpsl5t64:armhf. Preparing to unpack .../29-libpsl5t64_0.21.2-1.1_armhf.deb ... Unpacking libpsl5t64:armhf (0.21.2-1.1) ... Selecting previously unselected package librtmp1:armhf. Preparing to unpack .../30-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_armhf.deb ... Unpacking librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:armhf. Preparing to unpack .../31-libssh2-1t64_1.11.0-4.1+b2_armhf.deb ... Unpacking libssh2-1t64:armhf (1.11.0-4.1+b2) ... Selecting previously unselected package libcurl4t64:armhf. Preparing to unpack .../32-libcurl4t64_8.7.1-3_armhf.deb ... Unpacking libcurl4t64:armhf (8.7.1-3) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../33-libexpat1_2.6.2-1_armhf.deb ... Unpacking libexpat1:armhf (2.6.2-1) ... Selecting previously unselected package libjsoncpp25:armhf. Preparing to unpack .../34-libjsoncpp25_1.9.5-6+b2_armhf.deb ... Unpacking libjsoncpp25:armhf (1.9.5-6+b2) ... Selecting previously unselected package librhash0:armhf. Preparing to unpack .../35-librhash0_1.4.3-3+b1_armhf.deb ... Unpacking librhash0:armhf (1.4.3-3+b1) ... Selecting previously unselected package libuv1t64:armhf. Preparing to unpack .../36-libuv1t64_1.48.0-1.1_armhf.deb ... Unpacking libuv1t64:armhf (1.48.0-1.1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../37-cmake-data_3.29.2-2_all.deb ... Unpacking cmake-data (3.29.2-2) ... Selecting previously unselected package cmake. Preparing to unpack .../38-cmake_3.29.2-2_armhf.deb ... Unpacking cmake (3.29.2-2) ... Selecting previously unselected package libdebhelper-perl. 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Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../45-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1t64:armhf. Preparing to unpack .../46-libelf1t64_0.191-1+b1_armhf.deb ... Unpacking libelf1t64:armhf (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../47-dwz_0.15-1+b2_armhf.deb ... Unpacking dwz (0.15-1+b2) ... Selecting previously unselected package gettext. Preparing to unpack .../48-gettext_0.21-14+b1_armhf.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../49-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../50-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... 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Preparing to unpack .../62-pkgconf_1.8.1-1+b2_armhf.deb ... Unpacking pkgconf:armhf (1.8.1-1+b2) ... Selecting previously unselected package pkg-config:armhf. Preparing to unpack .../63-pkg-config_1.8.1-1+b2_armhf.deb ... Unpacking pkg-config:armhf (1.8.1-1+b2) ... Selecting previously unselected package libeigen3-dev. Preparing to unpack .../64-libeigen3-dev_3.4.0-4_all.deb ... Unpacking libeigen3-dev (3.4.0-4) ... Selecting previously unselected package libtext-unidecode-perl. Preparing to unpack .../65-libtext-unidecode-perl_1.30-3_all.deb ... Unpacking libtext-unidecode-perl (1.30-3) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../66-libxml-namespacesupport-perl_1.12-2_all.deb ... Unpacking libxml-namespacesupport-perl (1.12-2) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../67-libxml-sax-base-perl_1.09-3_all.deb ... Unpacking libxml-sax-base-perl (1.09-3) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../68-libxml-sax-perl_1.02+dfsg-3_all.deb ... Unpacking libxml-sax-perl (1.02+dfsg-3) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../69-libxml-libxml-perl_2.0207+dfsg+really+2.0134-1+b4_armhf.deb ... Unpacking libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b4) ... Selecting previously unselected package tex-common. Preparing to unpack .../70-tex-common_6.18_all.deb ... Unpacking tex-common (6.18) ... Selecting previously unselected package texinfo-lib. Preparing to unpack .../71-texinfo-lib_7.1-3+b2_armhf.deb ... Unpacking texinfo-lib (7.1-3+b2) ... Selecting previously unselected package texinfo. Preparing to unpack .../72-texinfo_7.1-3_all.deb ... Unpacking texinfo (7.1-3) ... Setting up libexpat1:armhf (2.6.2-1) ... Setting up libpipeline1:armhf (1.5.7-2) ... Setting up libkeyutils1:armhf (1.6.3-3) ... Setting up libicu72:armhf (72.1-4+b1) ... Setting up bsdextrautils (2.40-8) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libbpp-core4t64:armhf (2.4.1-12) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libbrotli1:armhf (1.1.0-2+b3) ... Setting up libuv1t64:armhf (1.48.0-1.1) ... Setting up libmagic1t64:armhf (1:5.45-3) ... Setting up libpsl5t64:armhf (0.21.2-1.1) ... Setting up libnghttp2-14:armhf (1.61.0-1+b1) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:armhf (1.47.0-2.4) ... Setting up file (1:5.45-3) ... Setting up texinfo-lib (7.1-3+b2) ... Setting up libelf1t64:armhf (0.191-1+b1) ... Setting up libkrb5support0:armhf (1.20.1-6+b1) ... Setting up libbpp-core-dev:armhf (2.4.1-12) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up autotools-dev (20220109.1) ... Setting up libpkgconf3:armhf (1.8.1-1+b2) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libproc2-0:armhf (2:4.0.4-4) ... Setting up autopoint (0.21-14) ... Setting up libjsoncpp25:armhf (1.9.5-6+b2) ... Setting up pkgconf-bin (1.8.1-1+b2) ... Setting up libk5crypto3:armhf (1.20.1-6+b1) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b2) ... Setting up sensible-utils (0.0.22) ... Setting up librhash0:armhf (1.4.3-3+b1) ... Setting up libuchardet0:armhf (0.0.8-1+b1) ... Setting up procps (2:4.0.4-4) ... Setting up libsub-override-perl (0.10-1) ... Setting up cmake-data (3.29.2-2) ... Setting up libkrb5-3:armhf (1.20.1-6+b1) ... Setting up libssh2-1t64:armhf (1.11.0-4.1+b2) ... Setting up libtext-unidecode-perl (1.30-3) ... Setting up libxml2:armhf (2.9.14+dfsg-1.3+b3) ... Setting up libbpp-seq12t64:armhf (2.4.1-12) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libbpp-seq-dev:armhf (2.4.1-12) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up libbpp-phyl12t64:armhf (2.4.1-10) ... Setting up libbpp-popgen8t64:armhf (2.4.1-10) ... Setting up pkgconf:armhf (1.8.1-1+b2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libbpp-phyl-dev:armhf (2.4.1-10) ... Setting up libeigen3-dev (3.4.0-4) ... Setting up libgssapi-krb5-2:armhf (1.20.1-6+b1) ... Setting up pkg-config:armhf (1.8.1-1+b2) ... Setting up ucf (3.0043+nmu1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up groff-base (1.23.0-3) ... Setting up libarchive13t64:armhf (3.7.2-2) ... Setting up libcurl4t64:armhf (8.7.1-3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libbpp-popgen-dev:armhf (2.4.1-10) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-3) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b4) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up cmake (3.29.2-2) ... Setting up debhelper (13.15.3) ... Setting up texinfo (7.1-3) ... Processing triggers for libc-bin (2.37-18) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/30722/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/30722/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/bppsuite-2.4.1/ && 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 > ../bppsuite_2.4.1-7_source.changes dpkg-buildpackage: info: source package bppsuite dpkg-buildpackage: info: source version 2.4.1-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-arm-linux-gnueabihf && DEB_PYTHON_INSTALL_LAYOUT=deb cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf .. CMake Deprecation Warning at CMakeLists.txt:7 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The CXX compiler identification is GNU 13.2.0 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found /usr/bin/gzip compression program, using file extension .gz -- bpp-core 4.1.0 found: -- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-core.a -- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 -- includes: /usr/include -- bpp-seq 12.0.0 found: -- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-seq.a -- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 -- includes: /usr/include -- bpp-phyl 12.0.0 found: -- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-phyl.a -- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 -- includes: /usr/include -- bpp-popgen 8.0.0 found: -- static lib: /usr/lib/arm-linux-gnueabihf/libbpp-popgen.a -- shared lib: /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 -- includes: /usr/include -- Found /usr/bin/makeinfo: 'info' and 'html' target enabled (builds info/html doc) -- Found texi2dvi: 'pdf' target enabled (builds pdf doc) -- Configuring done (0.9s) -- Generating done (0.1s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf dh_auto_build cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/bppsuite-2.4.1 -B/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf --check-build-system 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"--color=" make -f bppSuite/CMakeFiles/bppseqgen.dir/build.make bppSuite/CMakeFiles/bppseqgen.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bppseqgen.dir/DependInfo.cmake "--color=" make -f bppSuite/CMakeFiles/bppdist.dir/build.make bppSuite/CMakeFiles/bppdist.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bppdist.dir/DependInfo.cmake "--color=" make -f bppSuite/CMakeFiles/bpppars.dir/build.make bppSuite/CMakeFiles/bpppars.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bpppars.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bppml.dir/build.make bppSuite/CMakeFiles/bppml.dir/build make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bppdist.dir/build.make bppSuite/CMakeFiles/bppdist.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bpppars.dir/build.make bppSuite/CMakeFiles/bpppars.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bppseqgen.dir/build.make bppSuite/CMakeFiles/bppseqgen.dir/build [ 2%] Building CXX object bppSuite/CMakeFiles/bpppars.dir/bppPars.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bpppars.dir/bppPars.cpp.o -MF CMakeFiles/bpppars.dir/bppPars.cpp.o.d -o CMakeFiles/bpppars.dir/bppPars.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppPars.cpp [ 5%] Building CXX object bppSuite/CMakeFiles/bppml.dir/bppML.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bppml.dir/bppML.cpp.o -MF CMakeFiles/bppml.dir/bppML.cpp.o.d -o CMakeFiles/bppml.dir/bppML.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppML.cpp make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 7%] Building CXX object bppSuite/CMakeFiles/bppdist.dir/bppDist.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bppdist.dir/bppDist.cpp.o -MF CMakeFiles/bppdist.dir/bppDist.cpp.o.d -o CMakeFiles/bppdist.dir/bppDist.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppDist.cpp [ 10%] Building CXX object bppSuite/CMakeFiles/bppseqgen.dir/bppSeqGen.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bppseqgen.dir/bppSeqGen.cpp.o -MF CMakeFiles/bppseqgen.dir/bppSeqGen.cpp.o.d -o CMakeFiles/bppseqgen.dir/bppSeqGen.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppSeqGen.cpp In file included from /usr/include/c++/13/vector:66, from /usr/include/Bpp/Io/FileTools.h:46, from /usr/include/Bpp/App/ApplicationTools.h:44, from /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppSeqGen.cpp:50: /usr/include/c++/13/bits/stl_vector.h: In constructor 'std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const allocator_type&) [with _InputIterator = __gnu_cxx::__normal_iterator > >; = void; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/stl_vector.h:704:9: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 704 | vector(_InputIterator __first, _InputIterator __last, | ^~~~~~ /usr/include/c++/13/bits/stl_vector.h:704:9: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 In file included from /usr/include/c++/13/vector:72: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'std::vector > bpp::TreeTemplate::getBranchLengths() [with N = bpp::Node]' at /usr/include/Bpp/Phyl/TreeTemplate.h:351:69: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'void readTreesCoaSim(std::ifstream&, std::vector&, std::vector >&)' at /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppSeqGen.cpp:171:18: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/Bpp/Io/FileTools.h:46, from /usr/include/Bpp/App/ApplicationTools.h:44, from /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppPars.cpp:51: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'std::vector > bpp::TreeTemplate::getBranchLengths() [with N = bpp::Node]' at /usr/include/Bpp/Phyl/TreeTemplate.h:351:69: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 13%] Linking CXX executable bpppars cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpppars.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bpppars.dir/bppPars.cpp.o -o bpppars /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppSeqGen.cpp: In function 'int main(int, char**)': /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppSeqGen.cpp:550:20: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 550 | tmpRates = vector(rates.begin() + previousPos, rates.begin() + currentPos); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppSeqGen.cpp:575:22: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 575 | tmpRates = vector(rates.begin() + previousPos + 1, rates.begin() + currentPos); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 13%] Built target bpppars make -f bppSuite/CMakeFiles/bppseqman.dir/build.make bppSuite/CMakeFiles/bppseqman.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bppseqman.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bppseqman.dir/build.make bppSuite/CMakeFiles/bppseqman.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 15%] Building CXX object bppSuite/CMakeFiles/bppseqman.dir/bppSeqMan.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bppseqman.dir/bppSeqMan.cpp.o -MF CMakeFiles/bppseqman.dir/bppSeqMan.cpp.o.d -o CMakeFiles/bppseqman.dir/bppSeqMan.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppSeqMan.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/Bpp/Numeric/VectorExceptions.h:47, from /usr/include/Bpp/Numeric/VectorTools.h:43, from /usr/include/Bpp/Numeric/Prob/DiscreteDistribution.h:43, from /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppML.cpp:50: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'std::vector > bpp::TreeTemplate::getBranchLengths() [with N = bpp::Node]' at /usr/include/Bpp/Phyl/TreeTemplate.h:351:69: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/Bpp/Numeric/VectorExceptions.h:47, from /usr/include/Bpp/Numeric/VectorTools.h:43, from /usr/include/Bpp/Numeric/Prob/DiscreteDistribution.h:43, from /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppDist.cpp:50: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'std::vector > bpp::TreeTemplate::getBranchLengths() [with N = bpp::Node]' at /usr/include/Bpp/Phyl/TreeTemplate.h:351:69: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 18%] Linking CXX executable bppseqgen cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppseqgen.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppseqgen.dir/bppSeqGen.cpp.o -o bppseqgen /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 18%] Built target bppseqgen make -f bppSuite/CMakeFiles/bppconsense.dir/build.make bppSuite/CMakeFiles/bppconsense.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bppconsense.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bppconsense.dir/build.make bppSuite/CMakeFiles/bppconsense.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 21%] Building CXX object bppSuite/CMakeFiles/bppconsense.dir/bppConsense.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bppconsense.dir/bppConsense.cpp.o -MF CMakeFiles/bppconsense.dir/bppConsense.cpp.o.d -o CMakeFiles/bppconsense.dir/bppConsense.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppConsense.cpp [ 23%] Linking CXX executable bppdist cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppdist.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppdist.dir/bppDist.cpp.o -o bppdist /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 23%] Built target bppdist make -f bppSuite/CMakeFiles/bppancestor.dir/build.make bppSuite/CMakeFiles/bppancestor.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bppancestor.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bppancestor.dir/build.make bppSuite/CMakeFiles/bppancestor.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 26%] Building CXX object bppSuite/CMakeFiles/bppancestor.dir/bppAncestor.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bppancestor.dir/bppAncestor.cpp.o -MF CMakeFiles/bppancestor.dir/bppAncestor.cpp.o.d -o CMakeFiles/bppancestor.dir/bppAncestor.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppAncestor.cpp [ 28%] Linking CXX executable bppml cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppml.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppml.dir/bppML.cpp.o -o bppml /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 28%] Built target bppml make -f bppSuite/CMakeFiles/bppmixedlikelihoods.dir/build.make bppSuite/CMakeFiles/bppmixedlikelihoods.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bppmixedlikelihoods.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bppmixedlikelihoods.dir/build.make bppSuite/CMakeFiles/bppmixedlikelihoods.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 31%] Building CXX object bppSuite/CMakeFiles/bppmixedlikelihoods.dir/bppMixedLikelihoods.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bppmixedlikelihoods.dir/bppMixedLikelihoods.cpp.o -MF CMakeFiles/bppmixedlikelihoods.dir/bppMixedLikelihoods.cpp.o.d -o CMakeFiles/bppmixedlikelihoods.dir/bppMixedLikelihoods.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppMixedLikelihoods.cpp [ 34%] Linking CXX executable bppseqman cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppseqman.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppseqman.dir/bppSeqMan.cpp.o -o bppseqman /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 34%] Built target bppseqman make -f bppSuite/CMakeFiles/bppreroot.dir/build.make bppSuite/CMakeFiles/bppreroot.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bppreroot.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bppreroot.dir/build.make bppSuite/CMakeFiles/bppreroot.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 36%] Building CXX object bppSuite/CMakeFiles/bppreroot.dir/bppReRoot.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bppreroot.dir/bppReRoot.cpp.o -MF CMakeFiles/bppreroot.dir/bppReRoot.cpp.o.d -o CMakeFiles/bppreroot.dir/bppReRoot.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppReRoot.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/Bpp/Io/FileTools.h:46, from /usr/include/Bpp/App/ApplicationTools.h:44, from /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppConsense.cpp:50: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'std::vector bpp::TreeTemplate::getBranchLengths() [with N = bpp::Node]' at /usr/include/Bpp/Phyl/TreeTemplate.h:351:69: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 39%] Linking CXX executable bppconsense cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppconsense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppconsense.dir/bppConsense.cpp.o -o bppconsense /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 39%] Built target bppconsense make -f bppSuite/CMakeFiles/bpptreedraw.dir/build.make bppSuite/CMakeFiles/bpptreedraw.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bpptreedraw.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bpptreedraw.dir/build.make bppSuite/CMakeFiles/bpptreedraw.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 42%] Building CXX object bppSuite/CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o -MF CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o.d -o CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppTreeDraw.cpp In file included from /usr/include/c++/13/vector:72, from /usr/include/Bpp/Io/FileTools.h:46, from /usr/include/Bpp/App/ApplicationTools.h:44, from /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppMixedLikelihoods.cpp:50: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'int main(int, char**)' at /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppMixedLikelihoods.cpp:441:29: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from 'int main(int, char**)' at /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppMixedLikelihoods.cpp:445:27: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'int main(int, char**)' at /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppMixedLikelihoods.cpp:456:25: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]' at /usr/include/c++/13/bits/stl_vector.h:1296:21, inlined from 'int main(int, char**)' at /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppMixedLikelihoods.cpp:517:25: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/Bpp/Numeric/VectorExceptions.h:47, from /usr/include/Bpp/Numeric/VectorTools.h:43, from /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppReRoot.cpp:48: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'std::vector > bpp::TreeTemplate::getBranchLengths() [with N = bpp::Node]' at /usr/include/Bpp/Phyl/TreeTemplate.h:351:69: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /usr/include/Bpp/Io/FileTools.h:46, from /usr/include/Bpp/App/ApplicationTools.h:44, from /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppAncestor.cpp:50: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'std::vector > bpp::TreeTemplate::getBranchLengths() [with N = bpp::Node]' at /usr/include/Bpp/Phyl/TreeTemplate.h:351:69: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 44%] Linking CXX executable bppreroot cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppreroot.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppreroot.dir/bppReRoot.cpp.o -o bppreroot /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 [ 47%] Linking CXX executable bppancestor cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppancestor.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppancestor.dir/bppAncestor.cpp.o -o bppancestor /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 47%] Built target bppreroot make -f bppSuite/CMakeFiles/bppalnscore.dir/build.make bppSuite/CMakeFiles/bppalnscore.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bppalnscore.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bppalnscore.dir/build.make bppSuite/CMakeFiles/bppalnscore.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 50%] Building CXX object bppSuite/CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o -MF CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o.d -o CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppAlnScore.cpp make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 50%] Built target bppancestor make -f bppSuite/CMakeFiles/bpppopstats.dir/build.make bppSuite/CMakeFiles/bpppopstats.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite/CMakeFiles/bpppopstats.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f bppSuite/CMakeFiles/bpppopstats.dir/build.make bppSuite/CMakeFiles/bpppopstats.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 52%] Building CXX object bppSuite/CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT bppSuite/CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o -MF CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o.d -o CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppPopStats.cpp [ 55%] Linking CXX executable bppmixedlikelihoods cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppmixedlikelihoods.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppmixedlikelihoods.dir/bppMixedLikelihoods.cpp.o -o bppmixedlikelihoods /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 55%] Built target bppmixedlikelihoods make -f doc/CMakeFiles/info.dir/build.make doc/CMakeFiles/info.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/doc /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/doc /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/doc/CMakeFiles/info.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f doc/CMakeFiles/info.dir/build.make doc/CMakeFiles/info.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 57%] Generating info page cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/doc && /usr/bin/makeinfo --no-split -o /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/doc/bppsuite.info /build/reproducible-path/bppsuite-2.4.1/doc/bppsuite.texi [ 60%] Compressing info page cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/doc && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/doc/bppsuite.info > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/doc/bppsuite.info.gz make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 60%] Built target info make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/man /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/CMakeFiles/man.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/build make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 63%] Compressing manpage bppalnscore.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppalnscore.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bppalnscore.1.gz [ 65%] Compressing manpage bppancestor.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppancestor.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bppancestor.1.gz [ 68%] Compressing manpage bppconsense.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppconsense.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bppconsense.1.gz [ 71%] Compressing manpage bppdist.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppdist.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bppdist.1.gz [ 73%] Compressing manpage bppmixedlikelihoods.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppmixedlikelihoods.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bppmixedlikelihoods.1.gz [ 76%] Compressing manpage bppml.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppml.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bppml.1.gz [ 78%] Compressing manpage bpppars.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bpppars.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bpppars.1.gz [ 81%] Compressing manpage bpppopstats.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bpppopstats.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bpppopstats.1.gz [ 84%] Compressing manpage bppreroot.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppreroot.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bppreroot.1.gz [ 86%] Compressing manpage bppseqgen.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppseqgen.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bppseqgen.1.gz [ 89%] Compressing manpage bppseqman.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppseqman.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bppseqman.1.gz [ 92%] Compressing manpage bpptreedraw.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bpptreedraw.1 > /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/man/bpptreedraw.1.gz make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 92%] Built target man [ 94%] Linking CXX executable bpptreedraw cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpptreedraw.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o -o bpptreedraw /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 94%] Built target bpptreedraw [ 97%] Linking CXX executable bppalnscore cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppalnscore.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o -o bppalnscore /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [ 97%] Built target bppalnscore In file included from /usr/include/c++/13/vector:72, from /usr/include/Bpp/Io/FileTools.h:46, from /usr/include/Bpp/App/ApplicationTools.h:44, from /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppPopStats.cpp:52: /usr/include/c++/13/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]': /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/vector:66: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]', inlined from 'std::vector > bpp::TreeTemplate::getBranchLengths() [with N = bpp::Node]' at /usr/include/Bpp/Phyl/TreeTemplate.h:351:69: /usr/include/c++/13/bits/stl_vector.h:1289:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1289 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [100%] Linking CXX executable bpppopstats cd /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpppopstats.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o -o bpppopstats /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-popgen.so.8.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-seq.so.12.0.0 /usr/lib/arm-linux-gnueabihf/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' [100%] Built target bpppopstats make[2]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-arm-linux-gnueabihf && make -j4 install DESTDIR=/build/reproducible-path/bppsuite-2.4.1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/reproducible-path/bppsuite-2.4.1 -B/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppml -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppseqgen -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppdist -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bpppars -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppseqman -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppconsense -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppancestor -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppmixedlikelihoods -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppreroot -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bpptreedraw -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppalnscore -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bpppopstats -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/info/bppsuite.info.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppalnscore.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppancestor.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppconsense.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppdist.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppmixedlikelihoods.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppml.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bpppars.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bpppopstats.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppreroot.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppseqgen.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppseqman.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bpptreedraw.1.gz make[1]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-arm-linux-gnueabihf' dh_install dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms debian/rules execute_after_dh_fixperms make[1]: Entering directory '/build/reproducible-path/bppsuite-2.4.1' find debian -name "*.dnd" -exec chmod -x \{\} \; make[1]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1' dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'bppsuite' in '../bppsuite_2.4.1-7_armhf.deb'. dpkg-deb: building package 'bppsuite-dbgsym' in '../bppsuite-dbgsym_2.4.1-7_armhf.deb'. dpkg-deb: building package 'bppsuite-examples' in '../bppsuite-examples_2.4.1-7_all.deb'. dpkg-genbuildinfo --build=binary -O../bppsuite_2.4.1-7_armhf.buildinfo dpkg-genchanges --build=binary -O../bppsuite_2.4.1-7_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . 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/30722/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/30722/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/30722 and its subdirectories I: Current time: Fri May 3 19:53:09 +14 2024 I: pbuilder-time-stamp: 1714715589