Sun Nov 24 16:38:47 UTC 2024 I: starting to build clearcut/trixie/armhf on jenkins on '2024-11-24 16:38' Sun Nov 24 16:38:47 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_3/10085/console.log Sun Nov 24 16:38:47 UTC 2024 I: Downloading source for trixie/clearcut=1.0.9+git20211013.b799afe-1 --2024-11-24 16:38:47-- http://deb.debian.org/debian/pool/main/c/clearcut/clearcut_1.0.9%2bgit20211013.b799afe-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2112 (2.1K) [text/prs.lines.tag] Saving to: ‘clearcut_1.0.9+git20211013.b799afe-1.dsc’ 0K .. 100% 265M=0s 2024-11-24 16:38:47 (265 MB/s) - ‘clearcut_1.0.9+git20211013.b799afe-1.dsc’ saved [2112/2112] Sun Nov 24 16:38:47 UTC 2024 I: clearcut_1.0.9+git20211013.b799afe-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: clearcut Binary: clearcut Architecture: any Version: 1.0.9+git20211013.b799afe-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/sheneman/clearcut Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/clearcut Vcs-Git: https://salsa.debian.org/med-team/clearcut.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), debhelper Package-List: clearcut deb science optional arch=any Checksums-Sha1: 246d1638cd40e56d70ec309f952809962a8e935d 274232 clearcut_1.0.9+git20211013.b799afe.orig.tar.xz 50498fc8fa9543b596b4b76ba20bf6af5bfbef18 6252 clearcut_1.0.9+git20211013.b799afe-1.debian.tar.xz Checksums-Sha256: 51afd4373ce2a02c2975e0e4af1a87644bac5b09046d9899d5e95f5759e3c602 274232 clearcut_1.0.9+git20211013.b799afe.orig.tar.xz 6d3a1ea9bfda5b5cac4fd0090b47613d70d3dd3a5a4aead21536256874c67955 6252 clearcut_1.0.9+git20211013.b799afe-1.debian.tar.xz Files: b8879c704c0dffcf25132cee56879be5 274232 clearcut_1.0.9+git20211013.b799afe.orig.tar.xz fc51463ec1b337f40ade942483558fa8 6252 clearcut_1.0.9+git20211013.b799afe-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmHkISoRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtE3IA/+KPb6QBe3hfW0EJooBISStUoPI5dQC97s ducPNOmSyt5qsctO3X4ZOW2wL2Gw05GG+iLD6umcbPsWKQWfhxHhVorVe4bargYK dC/6hN5wjGgOfRtzlqpmr3iu9r1+3mUkUjJ9iR2FxN9VTGZpfzuxCpfXPsE5/dBP is19H65ahHWps9byQsfx1esyd4UyvLt9UbMgQqnjFzCG0XVtgFq0T/OxjM7ASI64 OgWqVwHKKzN2AkTjJsIQY/c3w1uCZ2JQcDKyItBm7BSyIa8TznHAH6F1Tw2hnsgk thx1HXrZjVfGxj0jGq4FR9RFI4tj1qUsppuNIcvs+/FVH/OCdf4AtBFE83ujY+DT XUQ9TFyqsF/urAyJTNw3z+9n2qztIesdinRx+eV3phcsFmA5Kwh6WdYsgJusmNLH 7zSP/idfpdabmSaYrky062vPayk8eIJPnrIyzMldGanQdhJ323QkZYu58ZsXKnFI jvGFEOrpEe25bGJMnve09s12MUZYT+Bl6uBso5ww7oYBWO7WaEtZK46NwmN4Z9sW PRiDEAxK/aMfZoI8Gdg1Uip94JTOqqW7EXthd+64yYbycKeXUTdec+PqV/sMzwUu SdW/vHUjMnUg6KL0dweASC+ac1OcPbJRQLq3VEBXWBgBvXKq6DGU65bD/MA7aGRD hglA0xnQ4vM= =X3EG -----END PGP SIGNATURE----- Sun Nov 24 16:38:47 UTC 2024 I: Checking whether the package is not for us Sun Nov 24 16:38:47 UTC 2024 I: Starting 1st build on remote node ff4a-armhf-rb.debian.net. Sun Nov 24 16:38:47 UTC 2024 I: Preparing to do remote build '1' on ff4a-armhf-rb.debian.net. Sun Nov 24 16:40:33 UTC 2024 I: Deleting $TMPDIR on ff4a-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Nov 24 04:38:53 -12 2024 I: pbuilder-time-stamp: 1732466333 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 [clearcut_1.0.9+git20211013.b799afe-1.dsc] I: copying [./clearcut_1.0.9+git20211013.b799afe.orig.tar.xz] I: copying [./clearcut_1.0.9+git20211013.b799afe-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sun Jan 16 13:44:10 2022 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 ./clearcut_1.0.9+git20211013.b799afe-1.dsc: no acceptable signature found dpkg-source: info: extracting clearcut in clearcut-1.0.9+git20211013.b799afe dpkg-source: info: unpacking clearcut_1.0.9+git20211013.b799afe.orig.tar.xz dpkg-source: info: unpacking clearcut_1.0.9+git20211013.b799afe-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying mothur_trivial_patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying clear-errno-before-checking.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/13349/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='49e1170f6d404275912990329d1aa561' 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='13349' 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.X6nwnufl/pbuilderrc_YyTg --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.X6nwnufl/b1 --logfile b1/build.log clearcut_1.0.9+git20211013.b799afe-1.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 ff4a 6.1.0-27-armmp-lpae #1 SMP Debian 6.1.115-1 (2024-11-01) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/13349/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), debhelper dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19690 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 debhelper; however: Package debhelper 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} 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} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 19.1 MB of archives. After unpacking 70.3 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main armhf sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian trixie/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian trixie/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB] Get: 4 http://deb.debian.org/debian trixie/main armhf file armhf 1:5.45-3+b1 [42.3 kB] Get: 5 http://deb.debian.org/debian trixie/main armhf gettext-base armhf 0.22.5-2 [195 kB] Get: 6 http://deb.debian.org/debian trixie/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB] Get: 7 http://deb.debian.org/debian trixie/main armhf groff-base armhf 1.23.0-5 [1091 kB] Get: 8 http://deb.debian.org/debian trixie/main armhf bsdextrautils armhf 2.40.2-11 [83.6 kB] Get: 9 http://deb.debian.org/debian trixie/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB] Get: 10 http://deb.debian.org/debian trixie/main armhf man-db armhf 2.13.0-1 [1382 kB] Get: 11 http://deb.debian.org/debian trixie/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 12 http://deb.debian.org/debian trixie/main armhf autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian trixie/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian trixie/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian trixie/main armhf autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian trixie/main armhf libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian trixie/main armhf libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian trixie/main armhf dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian trixie/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian trixie/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian trixie/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian trixie/main armhf libelf1t64 armhf 0.192-4 [184 kB] Get: 23 http://deb.debian.org/debian trixie/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 24 http://deb.debian.org/debian trixie/main armhf libicu72 armhf 72.1-5+b1 [9088 kB] Get: 25 http://deb.debian.org/debian trixie/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.2+b1 [605 kB] Get: 26 http://deb.debian.org/debian trixie/main armhf gettext armhf 0.22.5-2 [1485 kB] Get: 27 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf debhelper all 13.20 [915 kB] Fetched 19.1 MB in 1s (15.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19690 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_armhf.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:armhf. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_armhf.deb ... Unpacking libmagic1t64:armhf (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_armhf.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_armhf.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_armhf.deb ... Unpacking libuchardet0:armhf (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_armhf.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-11_armhf.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../08-libpipeline1_1.5.8-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_armhf.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_armhf.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-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 .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:armhf. Preparing to unpack .../21-libelf1t64_0.192-4_armhf.deb ... Unpacking libelf1t64:armhf (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b2_armhf.deb ... Unpacking dwz (0.15-1+b2) ... Selecting previously unselected package libicu72:armhf. Preparing to unpack .../23-libicu72_72.1-5+b1_armhf.deb ... Unpacking libicu72:armhf (72.1-5+b1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_armhf.deb ... Unpacking libxml2:armhf (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-2_armhf.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-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 .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Setting up libpipeline1:armhf (1.5.8-1) ... Setting up libicu72:armhf (72.1-5+b1) ... Setting up bsdextrautils (2.40.2-11) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libmagic1t64:armhf (1:5.45-3+b1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:armhf (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-2) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b2) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:armhf (0.0.8-1+b2) ... Setting up libxml2:armhf (2.12.7+dfsg+really2.9.14-0.2+b1) ... 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 (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.20) ... Processing triggers for libc-bin (2.40-3) ... 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/reproducible-path/clearcut-1.0.9+git20211013.b799afe/ && 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 > ../clearcut_1.0.9+git20211013.b799afe-1_source.changes dpkg-buildpackage: info: source package clearcut dpkg-buildpackage: info: source version 1.0.9+git20211013.b799afe-1 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_auto_clean make -j3 clean make[1]: Entering directory '/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe' Makefile:124: warning: ignoring prerequisites on suffix rule definition rm -f *.o a.out *.a clearcut make[1]: Leaving directory '/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j3 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe' Makefile:124: warning: ignoring prerequisites on suffix rule definition gcc -c -I /usr/local/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O3 -Wall -funroll-loops -fomit-frame-pointer clearcut.c gcc -c -I /usr/local/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O3 -Wall -funroll-loops -fomit-frame-pointer dist.c gcc -c -I /usr/local/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O3 -Wall -funroll-loops -fomit-frame-pointer dmat.c dist.c: In function 'NJ_DNA_jc_correction': dist.c:268:12: warning: variable 'k' set but not used [-Wunused-but-set-variable] 268 | long int k; | ^ clearcut.c: In function 'NJ_neighbor_joining': clearcut.c:1106:9: warning: variable 'min' set but not used [-Wunused-but-set-variable] 1106 | float min; | ^~~ clearcut.c: In function 'NJ_relaxed_nj': clearcut.c:1224:12: warning: variable 'q' set but not used [-Wunused-but-set-variable] 1224 | float p, q, x; | ^ dist.c: In function 'NJ_compute_dmat': dist.c:154:5: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-truncation] 154 | strncpy(dmat->taxaname[i], alignment->titles[i], strlen(alignment->titles[i])); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ dist.c:154:5: note: length computed here 154 | strncpy(dmat->taxaname[i], alignment->titles[i], strlen(alignment->titles[i])); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -I /usr/local/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O3 -Wall -funroll-loops -fomit-frame-pointer fasta.c gcc -c -I /usr/local/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O3 -Wall -funroll-loops -fomit-frame-pointer cmdargs.c fasta.c: In function 'NJ_read_fasta': fasta.c:307:19: warning: variable 'x' set but not used [-Wunused-but-set-variable] 307 | long int index, x, seq; | ^ gcc -c -I /usr/local/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O3 -Wall -funroll-loops -fomit-frame-pointer prng.c gcc -c -I /usr/local/include -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -O3 -Wall -funroll-loops -fomit-frame-pointer getopt_long.c gcc -o clearcut clearcut.o dist.o dmat.o fasta.o cmdargs.o prng.o getopt_long.o -lm -Wl,-z,relro make[1]: Leaving directory '/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/clearcut/ dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe' dh_compress -X.dist make[1]: Leaving directory '/build/reproducible-path/clearcut-1.0.9+git20211013.b799afe' dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'clearcut-dbgsym' in '../clearcut-dbgsym_1.0.9+git20211013.b799afe-1_armhf.deb'. dpkg-deb: building package 'clearcut' in '../clearcut_1.0.9+git20211013.b799afe-1_armhf.deb'. dpkg-genbuildinfo --build=binary -O../clearcut_1.0.9+git20211013.b799afe-1_armhf.buildinfo dpkg-genchanges --build=binary -O../clearcut_1.0.9+git20211013.b799afe-1_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: including full 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/13349 and its subdirectories I: Current time: Sun Nov 24 04:40:28 -12 2024 I: pbuilder-time-stamp: 1732466428 Sun Nov 24 16:40:36 UTC 2024 I: 1st build successful. Starting 2nd build on remote node virt64z-armhf-rb.debian.net. Sun Nov 24 16:40:36 UTC 2024 I: Preparing to do remote build '2' on virt64z-armhf-rb.debian.net. Sun Nov 24 16:41:25 UTC 2024 I: Deleting $TMPDIR on virt64z-armhf-rb.debian.net. Sun Nov 24 16:41:27 UTC 2024 I: clearcut_1.0.9+git20211013.b799afe-1_armhf.changes: Format: 1.8 Date: Sun, 16 Jan 2022 14:38:25 +0100 Source: clearcut Binary: clearcut clearcut-dbgsym Architecture: armhf Version: 1.0.9+git20211013.b799afe-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: clearcut - extremely efficient phylogenetic tree reconstruction Changes: clearcut (1.0.9+git20211013.b799afe-1) unstable; urgency=medium . * New upstream version * Add missing build dependency on dh addon. Checksums-Sha1: 2ce5b6dc235ad7611a49588d0281e176e09a0084 64508 clearcut-dbgsym_1.0.9+git20211013.b799afe-1_armhf.deb f6215f243ef4224c409a4ceb46a8cef7b9292e6e 4966 clearcut_1.0.9+git20211013.b799afe-1_armhf.buildinfo fada547b51364f167db37839617f9e0ad900aec3 275324 clearcut_1.0.9+git20211013.b799afe-1_armhf.deb Checksums-Sha256: fdaec4118d4b9e04b53ca01dd970148119bda5f55a6d940d50879eebb85e7b49 64508 clearcut-dbgsym_1.0.9+git20211013.b799afe-1_armhf.deb 734a74132ab5e4a32eb3c5ecca87ae41ea19d08a9f4f6fdfe4750584fc68147f 4966 clearcut_1.0.9+git20211013.b799afe-1_armhf.buildinfo f45872446859b6dc767e69f0318cefba26dd4d043c0619bbe9aa87dad04b1a2c 275324 clearcut_1.0.9+git20211013.b799afe-1_armhf.deb Files: 7f28d9e40f9eae9f9f49f8e29df0ca3c 64508 debug optional clearcut-dbgsym_1.0.9+git20211013.b799afe-1_armhf.deb 578fed8f4081d5320525e15abf44c043 4966 science optional clearcut_1.0.9+git20211013.b799afe-1_armhf.buildinfo c14a7bb828d419937befeb15bda1cb46 275324 science optional clearcut_1.0.9+git20211013.b799afe-1_armhf.deb Sun Nov 24 16:41:29 UTC 2024 I: diffoscope 283 will be used to compare the two builds: Running as unit: rb-diffoscope-armhf_3-10085.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.X6nwnufl/clearcut_1.0.9+git20211013.b799afe-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.X6nwnufl/clearcut_1.0.9+git20211013.b799afe-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.X6nwnufl/clearcut_1.0.9+git20211013.b799afe-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.X6nwnufl/b1/clearcut_1.0.9+git20211013.b799afe-1_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.X6nwnufl/b2/clearcut_1.0.9+git20211013.b799afe-1_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: 0.726s) 0.726s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.023s) 0.023s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 1.312s CPU time consumed: 1.165s Sun Nov 24 16:41:31 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Sun Nov 24 16:41:31 UTC 2024 I: clearcut from trixie built successfully and reproducibly on armhf. Sun Nov 24 16:41:32 UTC 2024 I: Submitting .buildinfo files to external archives: Sun Nov 24 16:41:32 UTC 2024 I: Submitting 8.0K b1/clearcut_1.0.9+git20211013.b799afe-1_armhf.buildinfo.asc Sun Nov 24 16:41:33 UTC 2024 I: Submitting 8.0K b2/clearcut_1.0.9+git20211013.b799afe-1_armhf.buildinfo.asc Sun Nov 24 16:41:34 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Nov 24 16:41:34 UTC 2024 I: Done submitting .buildinfo files. Sun Nov 24 16:41:34 UTC 2024 I: Removing signed clearcut_1.0.9+git20211013.b799afe-1_armhf.buildinfo.asc files: removed './b1/clearcut_1.0.9+git20211013.b799afe-1_armhf.buildinfo.asc' removed './b2/clearcut_1.0.9+git20211013.b799afe-1_armhf.buildinfo.asc'