Tue May 30 02:29:54 UTC 2023 I: starting to build physamp/bookworm/armhf on jenkins on '2023-05-30 02:29' Tue May 30 02:29:54 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_6/1446/console.log Tue May 30 02:29:54 UTC 2023 I: Downloading source for bookworm/physamp=1.1.0-4 --2023-05-30 02:29:55-- http://cdn-fastly.deb.debian.org/debian/pool/main/p/physamp/physamp_1.1.0-4.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2026 (2.0K) [text/prs.lines.tag] Saving to: ‘physamp_1.1.0-4.dsc’ 0K . 100% 143M=0s 2023-05-30 02:29:55 (143 MB/s) - ‘physamp_1.1.0-4.dsc’ saved [2026/2026] Tue May 30 02:29:55 UTC 2023 I: physamp_1.1.0-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: physamp Binary: physamp Architecture: any Version: 1.1.0-4 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Julien Dutheil Homepage: https://jydu.github.io/physamp/ Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/physamp Vcs-Git: https://salsa.debian.org/med-team/physamp.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), cmake, texinfo, libbpp-phyl-dev Package-List: physamp deb science optional arch=any Checksums-Sha1: 3ff8524b2bcf0be31ff60857253cdabce2677b90 241845 physamp_1.1.0.orig.tar.gz b6703bd6eaeb943ce0cfaeb7ea539cbf27b505c1 3884 physamp_1.1.0-4.debian.tar.xz Checksums-Sha256: 0c687e7f46d6d5732a3ad6f029a0169667921101294a9fb5efaae9adfc397ae8 241845 physamp_1.1.0.orig.tar.gz 1ab197f75fc0052aa85218efbfcbf383900864f26cd7f3efed5f6805ef981197 3884 physamp_1.1.0-4.debian.tar.xz Files: 70c3d25a3ab2c937495c502a4dbddcdd 241845 physamp_1.1.0.orig.tar.gz 8f1d0261687c3515284f9fff54721b2a 3884 physamp_1.1.0-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmN/tuoRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGsxg/9HHG4np9c0VpL6l/XMvfBTmdei6+L0+tO GtQGMy72DCGEO/ez+o6LzLSRZGgm1nmAqMIeoZPk7HA95S06vH7IXqSvZoypuefn fqqg28Ce+/BZBtCg5lldBiKCogzLfYGtvlXyFy0jC4CsKGX7TDE81XsgXRvD1Kw1 pIAReJGS9z1H8qKp5lQfo7RQDpCjbWwCEp6ciKNkBh8JjuFhWaNL3PeTC4FFyCjB 4ov/FSEmSQ8zxzfKKHxzm8JFNa20t1XvATvJz9a2mQRR3k73foJnyuB/4ElpIi5o MV/AqUTfTuyL+/zbVPAy5bDCLlitnRFUrMKqruBm7YbaX9KQ2l3b3ObJY5GiKWHg 11pvFZz2bW0KK2RKe9HidDgnYqx08smgmrvbpk7aX5OgN336q5qkV3a3d5s/MZP6 x5UCJdQeJbkjXFOGRPJ7+8F39ItaHLcImvREuZjRGuW+2lY2ZTkCS7PgXPB/VCUU 4qjQA/2JQRGmqRC5zFTWEZrM4rH7AjmpYuneAlKRiFbEVRT34mh8N86i5aVICb7B Qilhy7taNM2X020VFZdQceI/dqe5iHfkVu0/6WD/GPZTkspcygw9TlfrwwfXffQz A1iU5OGf78tcA8i3UNIJSsKEx477+Rx+b+7QW/vSuhqpKPPiuhsI5agHeK2fKbtG hjFoQojy2u8= =OIOp -----END PGP SIGNATURE----- Tue May 30 02:29:55 UTC 2023 I: Checking whether the package is not for us Tue May 30 02:29:55 UTC 2023 I: Starting 1st build on remote node virt64b-armhf-rb.debian.net. Tue May 30 02:29:55 UTC 2023 I: Preparing to do remote build '1' on virt64b-armhf-rb.debian.net. Tue May 30 02:36:22 UTC 2023 I: Deleting $TMPDIR on virt64b-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon May 29 14:30:11 -12 2023 I: pbuilder-time-stamp: 1685413811 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bookworm-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 [physamp_1.1.0-4.dsc] I: copying [./physamp_1.1.0.orig.tar.gz] I: copying [./physamp_1.1.0-4.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Nov 24 06:24:42 2022 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./physamp_1.1.0-4.dsc: no acceptable signature found dpkg-source: info: extracting physamp in physamp-1.1.0 dpkg-source: info: unpacking physamp_1.1.0.orig.tar.gz dpkg-source: info: unpacking physamp_1.1.0-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying unforce-cxxflags.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/29361/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='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='bookworm' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='2e22522d1cf443e3aa03b5a9524097dd' 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='29361' PS1='# ' PS2='> ' 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.MPeioC9u/pbuilderrc_NZJj --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.MPeioC9u/b1 --logfile b1/build.log physamp_1.1.0-4.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt64b 5.10.0-23-arm64 #1 SMP Debian 5.10.179-1 (2023-05-12) aarch64 GNU/Linux I: ls -l /bin total 5072 -rwxr-xr-x 1 root root 838488 Apr 23 09:24 bash -rwxr-xr-x 3 root root 67144 Sep 18 2022 bunzip2 -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzcat lrwxrwxrwx 1 root root 6 Sep 18 2022 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Sep 18 2022 bzdiff lrwxrwxrwx 1 root root 6 Sep 18 2022 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4893 Nov 27 2021 bzexe lrwxrwxrwx 1 root root 6 Sep 18 2022 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Sep 18 2022 bzgrep -rwxr-xr-x 3 root root 67144 Sep 18 2022 bzip2 -rwxr-xr-x 1 root root 67112 Sep 18 2022 bzip2recover lrwxrwxrwx 1 root root 6 Sep 18 2022 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Sep 18 2022 bzmore -rwxr-xr-x 1 root root 67632 Sep 20 2022 cat -rwxr-xr-x 1 root root 67676 Sep 20 2022 chgrp -rwxr-xr-x 1 root root 67644 Sep 20 2022 chmod -rwxr-xr-x 1 root root 67684 Sep 20 2022 chown -rwxr-xr-x 1 root root 133532 Sep 20 2022 cp -rwxr-xr-x 1 root root 132868 Jan 5 01:20 dash -rwxr-xr-x 1 root root 133220 Sep 20 2022 date -rwxr-xr-x 1 root root 67732 Sep 20 2022 dd -rwxr-xr-x 1 root root 68104 Sep 20 2022 df -rwxr-xr-x 1 root root 133632 Sep 20 2022 dir -rwxr-xr-x 1 root root 59128 Mar 22 21:02 dmesg lrwxrwxrwx 1 root root 8 Dec 19 01:33 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Dec 19 01:33 domainname -> hostname -rwxr-xr-x 1 root root 67560 Sep 20 2022 echo -rwxr-xr-x 1 root root 41 Jan 24 02:43 egrep -rwxr-xr-x 1 root root 67548 Sep 20 2022 false -rwxr-xr-x 1 root root 41 Jan 24 02:43 fgrep -rwxr-xr-x 1 root root 55748 Mar 22 21:02 findmnt -rwsr-xr-x 1 root root 26208 Mar 22 20:15 fusermount -rwxr-xr-x 1 root root 128608 Jan 24 02:43 grep -rwxr-xr-x 2 root root 2346 Apr 9 2022 gunzip -rwxr-xr-x 1 root root 6447 Apr 9 2022 gzexe -rwxr-xr-x 1 root root 64220 Apr 9 2022 gzip -rwxr-xr-x 1 root root 67032 Dec 19 01:33 hostname -rwxr-xr-x 1 root root 67720 Sep 20 2022 ln -rwxr-xr-x 1 root root 35132 Mar 22 21:51 login -rwxr-xr-x 1 root root 133632 Sep 20 2022 ls -rwxr-xr-x 1 root root 136808 Mar 22 21:02 lsblk -rwxr-xr-x 1 root root 67800 Sep 20 2022 mkdir -rwxr-xr-x 1 root root 67764 Sep 20 2022 mknod -rwxr-xr-x 1 root root 67596 Sep 20 2022 mktemp -rwxr-xr-x 1 root root 38504 Mar 22 21:02 more -rwsr-xr-x 1 root root 38496 Mar 22 21:02 mount -rwxr-xr-x 1 root root 9824 Mar 22 21:02 mountpoint -rwxr-xr-x 1 root root 133532 Sep 20 2022 mv lrwxrwxrwx 1 root root 8 Dec 19 01:33 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 2 18:25 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 67608 Sep 20 2022 pwd lrwxrwxrwx 1 root root 4 Apr 23 09:24 rbash -> bash -rwxr-xr-x 1 root root 67600 Sep 20 2022 readlink -rwxr-xr-x 1 root root 67672 Sep 20 2022 rm -rwxr-xr-x 1 root root 67600 Sep 20 2022 rmdir -rwxr-xr-x 1 root root 67400 Nov 2 2022 run-parts -rwxr-xr-x 1 root root 133372 Jan 5 07:55 sed lrwxrwxrwx 1 root root 4 Jan 5 01:20 sh -> dash -rwxr-xr-x 1 root root 67584 Sep 20 2022 sleep -rwxr-xr-x 1 root root 67644 Sep 20 2022 stty -rwsr-xr-x 1 root root 50800 Mar 22 21:02 su -rwxr-xr-x 1 root root 67584 Sep 20 2022 sync -rwxr-xr-x 1 root root 336764 Apr 6 02:25 tar -rwxr-xr-x 1 root root 67144 Nov 2 2022 tempfile -rwxr-xr-x 1 root root 133224 Sep 20 2022 touch -rwxr-xr-x 1 root root 67548 Sep 20 2022 true -rwxr-xr-x 1 root root 9768 Mar 22 20:15 ulockmgr_server -rwsr-xr-x 1 root root 22108 Mar 22 21:02 umount -rwxr-xr-x 1 root root 67572 Sep 20 2022 uname -rwxr-xr-x 2 root root 2346 Apr 9 2022 uncompress -rwxr-xr-x 1 root root 133632 Sep 20 2022 vdir -rwxr-xr-x 1 root root 42608 Mar 22 21:02 wdctl lrwxrwxrwx 1 root root 8 Dec 19 01:33 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Apr 9 2022 zcat -rwxr-xr-x 1 root root 1678 Apr 9 2022 zcmp -rwxr-xr-x 1 root root 6460 Apr 9 2022 zdiff -rwxr-xr-x 1 root root 29 Apr 9 2022 zegrep -rwxr-xr-x 1 root root 29 Apr 9 2022 zfgrep -rwxr-xr-x 1 root root 2081 Apr 9 2022 zforce -rwxr-xr-x 1 root root 8103 Apr 9 2022 zgrep -rwxr-xr-x 1 root root 2206 Apr 9 2022 zless -rwxr-xr-x 1 root root 1842 Apr 9 2022 zmore -rwxr-xr-x 1 root root 4577 Apr 9 2022 znew I: user script /srv/workspace/pbuilder/29361/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 dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19324 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. 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} libarchive13{a} libbpp-core-dev{a} libbpp-core4{a} libbpp-phyl-dev{a} libbpp-phyl12{a} libbpp-seq-dev{a} libbpp-seq12{a} libbrotli1{a} libcurl4{a} libdebhelper-perl{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libicu72{a} libjsoncpp25{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libpipeline1{a} libproc2-0{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1{a} libsub-override-perl{a} libtext-unidecode-perl{a} libtool{a} libuchardet0{a} libuv1{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} po-debconf{a} procps{a} sensible-utils{a} tex-common{a} texinfo{a} ucf{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libwww-perl libxml-sax-expat-perl lynx psmisc publicsuffix wget 0 packages upgraded, 62 newly installed, 0 to remove and 0 not upgraded. Need to get 36.5 MB of archives. After unpacking 170 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bookworm/main armhf libproc2-0 armhf 2:4.0.2-3 [54.2 kB] Get: 2 http://deb.debian.org/debian bookworm/main armhf procps armhf 2:4.0.2-3 [695 kB] Get: 3 http://deb.debian.org/debian bookworm/main armhf sensible-utils all 0.0.17+nmu1 [19.0 kB] Get: 4 http://deb.debian.org/debian bookworm/main armhf libmagic-mgc armhf 1:5.44-3 [305 kB] Get: 5 http://deb.debian.org/debian bookworm/main armhf libmagic1 armhf 1:5.44-3 [96.5 kB] Get: 6 http://deb.debian.org/debian bookworm/main armhf file armhf 1:5.44-3 [41.6 kB] Get: 7 http://deb.debian.org/debian bookworm/main armhf gettext-base armhf 0.21-12 [157 kB] Get: 8 http://deb.debian.org/debian bookworm/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB] Get: 9 http://deb.debian.org/debian bookworm/main armhf groff-base armhf 1.22.4-10 [825 kB] Get: 10 http://deb.debian.org/debian bookworm/main armhf bsdextrautils armhf 2.38.1-5+b1 [78.6 kB] Get: 11 http://deb.debian.org/debian bookworm/main armhf libpipeline1 armhf 1.5.7-1 [33.6 kB] Get: 12 http://deb.debian.org/debian bookworm/main armhf man-db armhf 2.11.2-2 [1351 kB] Get: 13 http://deb.debian.org/debian bookworm/main armhf ucf all 3.0043+nmu1 [55.2 kB] Get: 14 http://deb.debian.org/debian bookworm/main armhf m4 armhf 1.4.19-3 [265 kB] Get: 15 http://deb.debian.org/debian bookworm/main armhf autoconf all 2.71-3 [332 kB] Get: 16 http://deb.debian.org/debian bookworm/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 17 http://deb.debian.org/debian bookworm/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 18 http://deb.debian.org/debian bookworm/main armhf autopoint all 0.21-12 [495 kB] Get: 19 http://deb.debian.org/debian bookworm/main armhf libicu72 armhf 72.1-3 [9048 kB] Get: 20 http://deb.debian.org/debian bookworm/main armhf libxml2 armhf 2.9.14+dfsg-1.2 [591 kB] Get: 21 http://deb.debian.org/debian bookworm/main armhf libarchive13 armhf 3.6.2-1 [299 kB] Get: 22 http://deb.debian.org/debian bookworm/main armhf libbrotli1 armhf 1.0.9-2+b6 [271 kB] Get: 23 http://deb.debian.org/debian bookworm/main armhf libsasl2-modules-db armhf 2.1.28+dfsg-10 [19.0 kB] Get: 24 http://deb.debian.org/debian bookworm/main armhf libsasl2-2 armhf 2.1.28+dfsg-10 [52.3 kB] Get: 25 http://deb.debian.org/debian bookworm/main armhf libldap-2.5-0 armhf 2.5.13+dfsg-5 [158 kB] Get: 26 http://deb.debian.org/debian bookworm/main armhf libnghttp2-14 armhf 1.52.0-1 [60.8 kB] Get: 27 http://deb.debian.org/debian bookworm/main armhf libpsl5 armhf 0.21.2-1 [57.5 kB] Get: 28 http://deb.debian.org/debian bookworm/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [55.2 kB] Get: 29 http://deb.debian.org/debian bookworm/main armhf libssh2-1 armhf 1.10.0-3+b1 [163 kB] Get: 30 http://deb.debian.org/debian bookworm/main armhf libcurl4 armhf 7.88.1-9 [347 kB] Get: 31 http://deb.debian.org/debian bookworm/main armhf libexpat1 armhf 2.5.0-1 [79.9 kB] Get: 32 http://deb.debian.org/debian bookworm/main armhf libjsoncpp25 armhf 1.9.5-4 [68.6 kB] Get: 33 http://deb.debian.org/debian bookworm/main armhf librhash0 armhf 1.4.3-3 [146 kB] Get: 34 http://deb.debian.org/debian bookworm/main armhf libuv1 armhf 1.44.2-1 [126 kB] Get: 35 http://deb.debian.org/debian bookworm/main armhf cmake-data all 3.25.1-1 [2026 kB] Get: 36 http://deb.debian.org/debian bookworm/main armhf cmake armhf 3.25.1-1 [4263 kB] Get: 37 http://deb.debian.org/debian bookworm/main armhf libdebhelper-perl all 13.11.4 [81.2 kB] Get: 38 http://deb.debian.org/debian bookworm/main armhf libtool all 2.4.7-5 [517 kB] Get: 39 http://deb.debian.org/debian bookworm/main armhf dh-autoreconf all 20 [17.1 kB] Get: 40 http://deb.debian.org/debian bookworm/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 41 http://deb.debian.org/debian bookworm/main armhf libsub-override-perl all 0.09-4 [9304 B] Get: 42 http://deb.debian.org/debian bookworm/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 43 http://deb.debian.org/debian bookworm/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 44 http://deb.debian.org/debian bookworm/main armhf libelf1 armhf 0.188-2.1 [170 kB] Get: 45 http://deb.debian.org/debian bookworm/main armhf dwz armhf 0.15-1 [101 kB] Get: 46 http://deb.debian.org/debian bookworm/main armhf gettext armhf 0.21-12 [1229 kB] Get: 47 http://deb.debian.org/debian bookworm/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 48 http://deb.debian.org/debian bookworm/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 49 http://deb.debian.org/debian bookworm/main armhf debhelper all 13.11.4 [942 kB] Get: 50 http://deb.debian.org/debian bookworm/main armhf libbpp-core4 armhf 2.4.1-9 [501 kB] Get: 51 http://deb.debian.org/debian bookworm/main armhf libbpp-core-dev armhf 2.4.1-9 [943 kB] Get: 52 http://deb.debian.org/debian bookworm/main armhf libbpp-seq12 armhf 2.4.1-9 [420 kB] Get: 53 http://deb.debian.org/debian bookworm/main armhf libbpp-phyl12 armhf 2.4.1-8 [1384 kB] Get: 54 http://deb.debian.org/debian bookworm/main armhf libbpp-seq-dev armhf 2.4.1-9 [733 kB] Get: 55 http://deb.debian.org/debian bookworm/main armhf libbpp-phyl-dev armhf 2.4.1-8 [3095 kB] Get: 56 http://deb.debian.org/debian bookworm/main armhf libtext-unidecode-perl all 1.30-3 [101 kB] Get: 57 http://deb.debian.org/debian bookworm/main armhf libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get: 58 http://deb.debian.org/debian bookworm/main armhf libxml-sax-base-perl all 1.09-3 [20.6 kB] Get: 59 http://deb.debian.org/debian bookworm/main armhf libxml-sax-perl all 1.02+dfsg-3 [59.4 kB] Get: 60 http://deb.debian.org/debian bookworm/main armhf libxml-libxml-perl armhf 2.0207+dfsg+really+2.0134-1+b1 [307 kB] Get: 61 http://deb.debian.org/debian bookworm/main armhf tex-common all 6.18 [32.5 kB] Get: 62 http://deb.debian.org/debian bookworm/main armhf texinfo armhf 6.8-6+b1 [1803 kB] Fetched 36.5 MB in 11s (3397 kB/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 ... 19324 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.2-3_armhf.deb ... Unpacking libproc2-0:armhf (2:4.0.2-3) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.2-3_armhf.deb ... Unpacking procps (2:4.0.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.17+nmu1_all.deb ... 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Preparing to unpack .../21-libbrotli1_1.0.9-2+b6_armhf.deb ... Unpacking libbrotli1:armhf (1.0.9-2+b6) ... Selecting previously unselected package libsasl2-modules-db:armhf. Preparing to unpack .../22-libsasl2-modules-db_2.1.28+dfsg-10_armhf.deb ... Unpacking libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... Selecting previously unselected package libsasl2-2:armhf. Preparing to unpack .../23-libsasl2-2_2.1.28+dfsg-10_armhf.deb ... Unpacking libsasl2-2:armhf (2.1.28+dfsg-10) ... Selecting previously unselected package libldap-2.5-0:armhf. Preparing to unpack .../24-libldap-2.5-0_2.5.13+dfsg-5_armhf.deb ... Unpacking libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Selecting previously unselected package libnghttp2-14:armhf. Preparing to unpack .../25-libnghttp2-14_1.52.0-1_armhf.deb ... Unpacking libnghttp2-14:armhf (1.52.0-1) ... Selecting previously unselected package libpsl5:armhf. Preparing to unpack .../26-libpsl5_0.21.2-1_armhf.deb ... Unpacking libpsl5:armhf (0.21.2-1) ... 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Setting up libexpat1:armhf (2.5.0-1) ... Setting up libpipeline1:armhf (1.5.7-1) ... Setting up libpsl5:armhf (0.21.2-1) ... Setting up libicu72:armhf (72.1-3) ... Setting up bsdextrautils (2.38.1-5+b1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:armhf (1.0.9-2+b6) ... Setting up libnghttp2-14:armhf (1.52.0-1) ... Setting up libmagic1:armhf (1:5.44-3) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up file (1:5.44-3) ... Setting up libsasl2-modules-db:armhf (2.1.28+dfsg-10) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up autotools-dev (20220109.1) ... Setting up libuv1:armhf (1.44.2-1) ... Setting up libbpp-core4:armhf (2.4.1-9) ... Setting up librtmp1:armhf (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libproc2-0:armhf (2:4.0.2-3) ... Setting up autopoint (0.21-12) ... Setting up libjsoncpp25:armhf (1.9.5-4) ... Setting up libsasl2-2:armhf (2.1.28+dfsg-10) ... Setting up autoconf (2.71-3) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up librhash0:armhf (1.4.3-3) ... Setting up libuchardet0:armhf (0.0.7-1) ... Setting up procps (2:4.0.2-3) ... Setting up libsub-override-perl (0.09-4) ... Setting up libssh2-1:armhf (1.10.0-3+b1) ... Setting up cmake-data (3.25.1-1) ... Setting up libtext-unidecode-perl (1.30-3) ... Setting up libbpp-seq12:armhf (2.4.1-9) ... Setting up libelf1:armhf (0.188-2.1) ... Setting up libxml2:armhf (2.9.14+dfsg-1.2) ... 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-phyl12:armhf (2.4.1-8) ... Setting up gettext (0.21-12) ... Setting up libtool (2.4.7-5) ... Setting up libarchive13:armhf (3.6.2-1) ... Setting up libldap-2.5-0:armhf (2.5.13+dfsg-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libbpp-core-dev:armhf (2.4.1-9) ... Setting up ucf (3.0043+nmu1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-10) ... Setting up libcurl4:armhf (7.88.1-9) ... Setting up libbpp-seq-dev:armhf (2.4.1-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.11.2-2) ... 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 libbpp-phyl-dev:armhf (2.4.1-8) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b1) ... 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 (3.25.1-1) ... Setting up debhelper (13.11.4) ... Setting up texinfo (6.8-6+b1) ... Processing triggers for libc-bin (2.36-9) ... 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: Running cd /build/physamp-1.1.0/ && 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 > ../physamp_1.1.0-4_source.changes dpkg-buildpackage: info: source package physamp dpkg-buildpackage: info: source version 1.1.0-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille 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 debian/rules override_dh_auto_configure make[1]: Entering directory '/build/physamp-1.1.0' dh_auto_configure -- -DCMAKE_BUILD_TYPE=RelWithDebInfo cd obj-arm-linux-gnueabihf && 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 -DCMAKE_BUILD_TYPE=RelWithDebInfo .. CMake Deprecation Warning at CMakeLists.txt:6 (CMAKE_MINIMUM_REQUIRED): Compatibility with CMake < 2.8.12 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 12.2.0 -- 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 /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 -- Found makeinfo as '/usr/bin/makeinfo': 'info' and 'html' target enabled (builds info/html doc) -- Found texi2dvi: 'pdf' target enabled (builds pdf doc) -- Configuring done -- Generating done 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/physamp-1.1.0/obj-arm-linux-gnueabihf make[1]: Leaving directory '/build/physamp-1.1.0' dh_auto_build cd obj-arm-linux-gnueabihf && make -j3 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/physamp-1.1.0 -B/build/physamp-1.1.0/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/physamp-1.1.0/obj-arm-linux-gnueabihf/CMakeFiles /build/physamp-1.1.0/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' make -f physamp/CMakeFiles/bppalnoptim.dir/build.make physamp/CMakeFiles/bppalnoptim.dir/depend make[3]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' make -f physamp/CMakeFiles/bppphysamp.dir/build.make physamp/CMakeFiles/bppphysamp.dir/depend cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/physamp-1.1.0 /build/physamp-1.1.0/physamp /build/physamp-1.1.0/obj-arm-linux-gnueabihf /build/physamp-1.1.0/obj-arm-linux-gnueabihf/physamp /build/physamp-1.1.0/obj-arm-linux-gnueabihf/physamp/CMakeFiles/bppalnoptim.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/depend cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/physamp-1.1.0 /build/physamp-1.1.0/physamp /build/physamp-1.1.0/obj-arm-linux-gnueabihf /build/physamp-1.1.0/obj-arm-linux-gnueabihf/physamp /build/physamp-1.1.0/obj-arm-linux-gnueabihf/physamp/CMakeFiles/bppphysamp.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/physamp-1.1.0 /build/physamp-1.1.0/docs /build/physamp-1.1.0/obj-arm-linux-gnueabihf /build/physamp-1.1.0/obj-arm-linux-gnueabihf/docs /build/physamp-1.1.0/obj-arm-linux-gnueabihf/docs/CMakeFiles/info.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' make -f physamp/CMakeFiles/bppalnoptim.dir/build.make physamp/CMakeFiles/bppalnoptim.dir/build make[3]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' make -f physamp/CMakeFiles/bppphysamp.dir/build.make physamp/CMakeFiles/bppphysamp.dir/build make[3]: Leaving directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' make[3]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/build [ 12%] Building CXX object physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/physamp-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -g -DNDEBUG -fPIE -MD -MT physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -MF CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o.d -o CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -c /build/physamp-1.1.0/physamp/AlignmentOptimizer.cpp make[3]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' [ 25%] Building CXX object physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/physamp-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -g -DNDEBUG -fPIE -MD -MT physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -MF CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o.d -o CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -c /build/physamp-1.1.0/physamp/PhyloSampler.cpp [ 37%] Generating info page cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf/docs && /usr/bin/makeinfo --no-split -o /build/physamp-1.1.0/obj-arm-linux-gnueabihf/docs/physamp.info /build/physamp-1.1.0/docs/physamp.texi [ 50%] Compressing info page cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf/docs && /bin/gzip -c9n /build/physamp-1.1.0/obj-arm-linux-gnueabihf/docs/physamp.info > /build/physamp-1.1.0/obj-arm-linux-gnueabihf/docs/physamp.info.gz make[3]: Leaving directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' [ 50%] Built target info make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/depend make[3]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/physamp-1.1.0 /build/physamp-1.1.0/man /build/physamp-1.1.0/obj-arm-linux-gnueabihf /build/physamp-1.1.0/obj-arm-linux-gnueabihf/man /build/physamp-1.1.0/obj-arm-linux-gnueabihf/man/CMakeFiles/man.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/build make[3]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' [ 62%] Compressing manpage bppalnoptim.1 cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf/man && /bin/gzip -c9n /build/physamp-1.1.0/man/bppalnoptim.1 > /build/physamp-1.1.0/obj-arm-linux-gnueabihf/man/bppalnoptim.1.gz [ 75%] Compressing manpage bppphysamp.1 cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf/man && /bin/gzip -c9n /build/physamp-1.1.0/man/bppphysamp.1 > /build/physamp-1.1.0/obj-arm-linux-gnueabihf/man/bppphysamp.1.gz make[3]: Leaving directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' [ 75%] Built target man In file included from /usr/include/c++/12/bits/stl_algo.h:60, from /usr/include/c++/12/algorithm:61, from /usr/include/Bpp/Numeric/VectorTools.h:54, from /usr/include/Bpp/Numeric/DataTable.h:43, from /build/physamp-1.1.0/physamp/PhyloSampler.cpp:34: /usr/include/c++/12/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = Index; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Val_less_iter]': /usr/include/c++/12/bits/stl_algo.h:1782:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1782 | __unguarded_linear_insert(_RandomAccessIterator __last, | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1802 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/include/c++/12/string:50, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /build/physamp-1.1.0/physamp/PhyloSampler.cpp:25: /usr/include/c++/12/bits/stl_algobase.h: In function '_ForwardIterator std::__remove_if(_ForwardIterator, _ForwardIterator, _Predicate) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Predicate = __gnu_cxx::__ops::_Iter_pred]': /usr/include/c++/12/bits/stl_algobase.h:2131:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 2131 | __remove_if(_ForwardIterator __first, _ForwardIterator __last, | ^~~~~~~~~~~ /usr/include/c++/12/bits/stl_algobase.h:2131:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 In file included from /usr/include/c++/12/vector:70, from /usr/include/Bpp/Io/FileTools.h:46, from /usr/include/Bpp/App/ApplicationTools.h:44, from /build/physamp-1.1.0/physamp/PhyloSampler.cpp:31: /usr/include/c++/12/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {Index}; _Tp = Index; _Alloc = std::allocator]': /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector::iterator' changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]': /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1908 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 /usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function 'std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {Index}; _Tp = Index; _Alloc = std::allocator]', inlined from 'void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = Index; _Alloc = std::allocator]' at /usr/include/c++/12/bits/stl_vector.h:1294:21, inlined from 'int main(int, char**)' at /build/physamp-1.1.0/physamp/PhyloSampler.cpp:150:26: /usr/include/c++/12/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 function 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from 'int main(int, char**)' at /build/physamp-1.1.0/physamp/PhyloSampler.cpp:151:7: /usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1937 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1938 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1939 | __comp); | ~~~~~~~ In function 'void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]', inlined from 'void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]' at /usr/include/c++/12/bits/stl_algo.h:1940:31, inlined from 'void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]' at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from 'int main(int, char**)' at /build/physamp-1.1.0/physamp/PhyloSampler.cpp:151:7: /usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 1854 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function '_FIter std::remove_if(_FIter, _FIter, _Predicate) [with _FIter = __gnu_cxx::__normal_iterator >; _Predicate = Test]', inlined from 'int main(int, char**)' at /build/physamp-1.1.0/physamp/PhyloSampler.cpp:197:16: /usr/include/c++/12/bits/stl_algo.h:877:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 877 | return std::__remove_if(__first, __last, | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 878 | __gnu_cxx::__ops::__pred_iter(__pred)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function '_FIter std::remove_if(_FIter, _FIter, _Predicate) [with _FIter = __gnu_cxx::__normal_iterator >; _Predicate = Test]', inlined from 'int main(int, char**)' at /build/physamp-1.1.0/physamp/PhyloSampler.cpp:230:16: /usr/include/c++/12/bits/stl_algo.h:877:30: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator >' changed in GCC 7.1 877 | return std::__remove_if(__first, __last, | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 878 | __gnu_cxx::__ops::__pred_iter(__pred)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/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++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/12/vector:64: 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++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 87%] Linking CXX executable bppphysamp cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf/physamp && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppphysamp.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/physamp-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -g -DNDEBUG -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -o bppphysamp /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /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/physamp-1.1.0/obj-arm-linux-gnueabihf' [ 87%] Built target bppphysamp In file included from /usr/include/c++/12/vector:70, from /usr/include/Bpp/Io/FileTools.h:46, from /usr/include/Bpp/App/ApplicationTools.h:44, from /build/physamp-1.1.0/physamp/AlignmentOptimizer.cpp:31: /usr/include/c++/12/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++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type 'std::vector >::iterator' changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/12/vector:64: 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++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator > >' changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [100%] Linking CXX executable bppalnoptim cd /build/physamp-1.1.0/obj-arm-linux-gnueabihf/physamp && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppalnoptim.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/physamp-1.1.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O2 -g -DNDEBUG -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -o bppalnoptim /usr/lib/arm-linux-gnueabihf/libbpp-phyl.so.12.0.0 /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/physamp-1.1.0/obj-arm-linux-gnueabihf' [100%] Built target bppalnoptim make[2]: Leaving directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /build/physamp-1.1.0/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/physamp/ cd obj-arm-linux-gnueabihf && make -j3 install DESTDIR=/build/physamp-1.1.0/debian/physamp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/build/physamp-1.1.0 -B/build/physamp-1.1.0/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "RelWithDebInfo" -- Installing: /build/physamp-1.1.0/debian/physamp/usr/bin/bppalnoptim -- Installing: /build/physamp-1.1.0/debian/physamp/usr/bin/bppphysamp -- Installing: /build/physamp-1.1.0/debian/physamp/usr/share/info/physamp.info.gz -- Installing: /build/physamp-1.1.0/debian/physamp/usr/share/man/man1/bppalnoptim.1.gz -- Installing: /build/physamp-1.1.0/debian/physamp/usr/share/man/man1/bppphysamp.1.gz make[1]: Leaving directory '/build/physamp-1.1.0/obj-arm-linux-gnueabihf' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: debian/physamp/usr/bin/bppalnoptim contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dpkg-shlibdeps: warning: debian/physamp/usr/bin/bppphysamp contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'physamp' in '../physamp_1.1.0-4_armhf.deb'. dpkg-deb: building package 'physamp-dbgsym' in '../physamp-dbgsym_1.1.0-4_armhf.deb'. dpkg-genbuildinfo --build=binary -O../physamp_1.1.0-4_armhf.buildinfo dpkg-genchanges --build=binary -O../physamp_1.1.0-4_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: 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/29361 and its subdirectories I: Current time: Mon May 29 14:36:15 -12 2023 I: pbuilder-time-stamp: 1685414175 Tue May 30 02:36:24 UTC 2023 I: 1st build successful. Starting 2nd build on remote node virt32b-armhf-rb.debian.net. Tue May 30 02:36:24 UTC 2023 I: Preparing to do remote build '2' on virt32b-armhf-rb.debian.net. Tue May 30 02:40:17 UTC 2023 I: Deleting $TMPDIR on virt32b-armhf-rb.debian.net. Tue May 30 02:40:19 UTC 2023 I: physamp_1.1.0-4_armhf.changes: Format: 1.8 Date: Thu, 24 Nov 2022 18:05:20 +0100 Source: physamp Binary: physamp physamp-dbgsym Architecture: armhf Version: 1.1.0-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: physamp - sample sequence alignment corresponding to phylogeny Changes: physamp (1.1.0-4) unstable; urgency=medium . * Fix watch file * Standards-Version: 4.6.1 (routine-update) Checksums-Sha1: 710453375960126e3c86912d1dce162210e01df1 1240728 physamp-dbgsym_1.1.0-4_armhf.deb 974d7a4e7f3d1347fa2a91366fea49895ade687d 6102 physamp_1.1.0-4_armhf.buildinfo 419468d3e3ebc43d6f13f13557bf3354eb28dfd2 172232 physamp_1.1.0-4_armhf.deb Checksums-Sha256: 43bfb75b4f0460b66394f6a1cd7fac3af1230f53fbf71279db960803bfaf38db 1240728 physamp-dbgsym_1.1.0-4_armhf.deb 9b82bf01c8d1239b956ff2f1e5cb7a1158970722d04c98b03642a7425450c5a3 6102 physamp_1.1.0-4_armhf.buildinfo 99c15885e2a97cae32fa1aff944fa7a9d01b2e9499bebe0d93e8c429159bab50 172232 physamp_1.1.0-4_armhf.deb Files: ea9a9384896ffa644fa3889b3fa8e4fb 1240728 debug optional physamp-dbgsym_1.1.0-4_armhf.deb 95260db6de06dbfb19e3bbcfc368dc17 6102 science optional physamp_1.1.0-4_armhf.buildinfo 22774cbf3be1cf68f132841838ab57e2 172232 science optional physamp_1.1.0-4_armhf.deb Tue May 30 02:40:21 UTC 2023 I: diffoscope 242 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.MPeioC9u/physamp_1.1.0-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.MPeioC9u/physamp_1.1.0-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.MPeioC9u/physamp_1.1.0-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.MPeioC9u/b1/physamp_1.1.0-4_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.MPeioC9u/b2/physamp_1.1.0-4_armhf.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.331s) 0.331s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.030s) 0.030s 12 calls diffoscope.comparators.binary.FilesystemFile 0.000s 10 calls abc.DotChangesFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Tue May 30 02:40:23 UTC 2023 I: diffoscope 242 found no differences in the changes files, and a .buildinfo file also exists. Tue May 30 02:40:23 UTC 2023 I: physamp from bookworm built successfully and reproducibly on armhf. Tue May 30 02:40:24 UTC 2023 I: Submitting .buildinfo files to external archives: Tue May 30 02:40:24 UTC 2023 I: Submitting 8.0K b1/physamp_1.1.0-4_armhf.buildinfo.asc Tue May 30 02:40:25 UTC 2023 I: Submitting 8.0K b2/physamp_1.1.0-4_armhf.buildinfo.asc Tue May 30 02:40:26 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue May 30 02:40:26 UTC 2023 I: Done submitting .buildinfo files. Tue May 30 02:40:26 UTC 2023 I: Removing signed physamp_1.1.0-4_armhf.buildinfo.asc files: removed './b1/physamp_1.1.0-4_armhf.buildinfo.asc' removed './b2/physamp_1.1.0-4_armhf.buildinfo.asc'