Wed Mar 5 18:41:48 UTC 2025 I: starting to build fastdnaml/trixie/arm64 on jenkins on '2025-03-05 18:41' Wed Mar 5 18:41:48 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_7/59809/console.log Wed Mar 5 18:41:49 UTC 2025 I: Downloading source for trixie/fastdnaml=1.2.2-18 --2025-03-05 18:41:49-- http://deb.debian.org/debian/pool/main/f/fastdnaml/fastdnaml_1.2.2-18.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2192 (2.1K) [text/prs.lines.tag] Saving to: ‘fastdnaml_1.2.2-18.dsc’ 0K .. 100% 246M=0s 2025-03-05 18:41:49 (246 MB/s) - ‘fastdnaml_1.2.2-18.dsc’ saved [2192/2192] Wed Mar 5 18:41:49 UTC 2025 I: fastdnaml_1.2.2-18.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: fastdnaml Binary: fastdnaml Architecture: any Version: 1.2.2-18 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Charles Plessy , Étienne Mollier Homepage: https://www.life.illinois.edu/gary/programs/fastDNAml.html Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/med-team/fastdnaml Vcs-Git: https://salsa.debian.org/med-team/fastdnaml.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: fastdnaml deb science optional arch=any Checksums-Sha1: 78197cbd760163f65085ac80c36d4286a1f29e34 70005 fastdnaml_1.2.2.orig.tar.gz b4e0d40bef01becd3c44a74f38527c955a593a7c 9808 fastdnaml_1.2.2-18.debian.tar.xz Checksums-Sha256: 34690ec9a8e2fe1d86bea4a7cb10f7bc47e5e4c30719e1c9451210df4f160180 70005 fastdnaml_1.2.2.orig.tar.gz c075531de338aba42de6193d73e6b8d776f6d01b66bb1d7a55685f952f15d800 9808 fastdnaml_1.2.2-18.debian.tar.xz Files: dd9c737e0f433879500391d0e229f763 70005 fastdnaml_1.2.2.orig.tar.gz da574961503f9ba141553a93fb25c47b 9808 fastdnaml_1.2.2-18.debian.tar.xz Dgit: 0915a53d1881c4fd2a080d9ec0efca6f87e5b3db debian archive/debian/1.2.2-18 https://git.dgit.debian.org/fastdnaml -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmfEKSsUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdrMhg/+IoVMLp64KlbXd+wrOpCwEXh+LE+h FQprgBOrCQA9fSzDcLe4p5pxaMHQ9U3DKT0O5B3inFzPVbtBzKOVZcUn3w7j1Jqx +rXhbSncXyn4fiPxJxlMOGBlfnWw4x2Gsg+j6eEvIIAH06GwnLALfkGodJl/fMvv z8ICWlV2VtIkqVucd6naG5KxQJQf/8DjDHMsqoF060BWXjSdtGukhO5OCygfwsgW ghnkKlvVNa26Sr9df8lg9DGifl867RqTZFQfio08YuNH5JTVYonWF9KFNAb4ns6u Z9UlMTAnKL92i9H0eSKLv9pRVDG/rRRi7COe7opc+JD8+3bu837Uqji2NEyVbaEX Qbx4BqfYB9EX0ImON1rrBfuw+IpjKi6KBgrRLxBu/HwcLebTUAm+PcBZQB8UIE6U jt5DGrOcnb3rSdlbRKz6vd/qb6Oxt++QNjq5Uze/0yoRwKIOgaYTTO+FLrivf85T FLdbvWIIdTlpfIa9dXSEXqh0WUKQe+QGSMq5lV/w7vtPSkvIyIQtLCxOern3o8rY IX1sDnLzi9TrBJ5SiYU+JQ5sBd214lEuxQshAaeS4IM+O5nTbXRvCw+dusb3Px9z 0ypEKYicdZWYHcw/vsW5r6u1zlTOdeACaNFceG6fTInWcQjEbPYZ93O0kNamlPBg 8/+VNIdqqNXYjGA= =p7r5 -----END PGP SIGNATURE----- Wed Mar 5 18:41:49 UTC 2025 I: Checking whether the package is not for us Wed Mar 5 18:41:49 UTC 2025 I: Starting 1st build on remote node codethink04-arm64.debian.net. Wed Mar 5 18:41:49 UTC 2025 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Wed Mar 5 18:42:32 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Mar 5 06:41:51 -12 2025 I: pbuilder-time-stamp: 1741200111 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 [fastdnaml_1.2.2-18.dsc] I: copying [./fastdnaml_1.2.2.orig.tar.gz] I: copying [./fastdnaml_1.2.2-18.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./fastdnaml_1.2.2-18.dsc: unsupported subcommand dpkg-source: info: extracting fastdnaml in fastdnaml-1.2.2 dpkg-source: info: unpacking fastdnaml_1.2.2.orig.tar.gz dpkg-source: info: unpacking fastdnaml_1.2.2-18.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying Makefile.patch dpkg-source: info: applying scripts.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying cross.patch dpkg-source: info: applying fixup-implicit-function-declaration.patch dpkg-source: info: applying gcc-14.patch dpkg-source: info: applying gcc-15.patch dpkg-source: info: applying fortify.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1219731/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='31b571661ec546a590e93ae80e525e8d' 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='1219731' 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.vFWOEyHD/pbuilderrc_CoKn --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.vFWOEyHD/b1 --logfile b1/build.log fastdnaml_1.2.2-18.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1219731/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: arm64 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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19914 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. 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} libunistring5{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, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 20.1 MB of archives. After unpacking 80.2 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3+b1 [43.4 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.23.1-1 [241 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-7 [1129 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40.4-5 [92.0 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-5 [284 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.17-3 [862 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.23.1-1 [770 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libtool all 2.5.4-3 [539 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 22 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 libunistring5 arm64 1.3-1 [449 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-6 [9239 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b2 [630 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.23.1-1 [1610 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.24.1 [920 kB] Fetched 20.1 MB in 0s (164 MB/s) Preconfiguring packages ... 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 ... 19914 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_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_arm64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-1_arm64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-7_arm64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.4-5_arm64.deb ... Unpacking bsdextrautils (2.40.4-5) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_arm64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-5_arm64.deb ... Unpacking m4 (1.4.19-5) ... 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%3a1.17-3_all.deb ... Unpacking automake (1:1.17-3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.24.1_all.deb ... Unpacking libdebhelper-perl (13.24.1) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-3_all.deb ... Unpacking libtool (2.5.4-3) ... 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_1.14.1-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.1-2_all.deb ... Unpacking dh-strip-nondeterminism (1.14.1-2) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../21-libelf1t64_0.192-4_arm64.deb ... Unpacking libelf1t64:arm64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libunistring5:arm64. Preparing to unpack .../23-libunistring5_1.3-1_arm64.deb ... Unpacking libunistring5:arm64 (1.3-1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../24-libicu72_72.1-6_arm64.deb ... Unpacking libicu72:arm64 (72.1-6) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../25-libxml2_2.12.7+dfsg+really2.9.14-0.2+b2_arm64.deb ... Unpacking libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b2) ... Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.23.1-1_arm64.deb ... Unpacking gettext (0.23.1-1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../27-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 .../28-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../29-debhelper_13.24.1_all.deb ... Unpacking debhelper (13.24.1) ... Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up libicu72:arm64 (72.1-6) ... Setting up bsdextrautils (2.40.4-5) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.24.1) ... Setting up libmagic1t64:arm64 (1:5.45-3+b1) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-5) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:arm64 (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up libunistring5:arm64 (1.3-1) ... Setting up autopoint (0.23.1-1) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:arm64 (0.0.8-1+b2) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b2) ... Setting up automake (1:1.17-3) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-1) ... Setting up libtool (2.5.4-3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... 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 (13.24.1) ... Processing triggers for libc-bin (2.40-7) ... 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/fastdnaml-1.2.2/ && 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 > ../fastdnaml_1.2.2-18_source.changes dpkg-buildpackage: info: source package fastdnaml dpkg-buildpackage: info: source version 1.2.2-18 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_auto_clean make -j12 clean make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' (cd source; rm -f *.o fastDNAml) rm -rf tests rm -f checkpoint.* make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' dh_clean rm -fr source/fastDNAml make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j12 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' cd source && cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/fastdnaml-1.2.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard fastDNAml.c -o fastDNAml -lm -Wl,-z,relro -Wl,-z,now fastDNAml.c: In function 'processTreeCom': fastDNAml.c:3957:12: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3957 | (void) fscanf(fp, " p%nhylip_tree(%n", & text_started, & functor_read); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3959:14: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3959 | (void) fscanf(fp, "seudoNewick(%n", & functor_read); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3967:12: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3967 | (void) fscanf(fp, " [%n", & com_open); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3985:32: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3985 | if (functor_read) (void) fscanf(fp, " ,"); /* remove trailing comma */ | ^~~~~~~~~~~~~~~~ make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' # do nothing make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' dh_install cp -a docs/fastDNAml_doc_1.2.txt `pwd`/debian/`dh_listpackages`/usr/share/`dh_listpackages`/fastdnaml_help # the scripts have to be executable thus mentioning these in debian/install is not enough cp -a scripts/* `pwd`/debian/`dh_listpackages`/usr/lib/`dh_listpackages`/bin chmod 755 `pwd`/debian/`dh_listpackages`/usr/lib/`dh_listpackages`/bin/* make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_installmenu 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: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'fastdnaml-dbgsym' in '../fastdnaml-dbgsym_1.2.2-18_arm64.deb'. dpkg-deb: building package 'fastdnaml' in '../fastdnaml_1.2.2-18_arm64.deb'. dpkg-genbuildinfo --build=binary -O../fastdnaml_1.2.2-18_arm64.buildinfo dpkg-genchanges --build=binary -O../fastdnaml_1.2.2-18_arm64.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/1219731 and its subdirectories I: Current time: Wed Mar 5 06:42:31 -12 2025 I: pbuilder-time-stamp: 1741200151 Wed Mar 5 18:42:33 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink03-arm64.debian.net. Wed Mar 5 18:42:33 UTC 2025 I: Preparing to do remote build '2' on codethink03-arm64.debian.net. Wed Mar 5 18:43:10 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. Wed Mar 5 18:43:11 UTC 2025 I: fastdnaml_1.2.2-18_arm64.changes: Format: 1.8 Date: Sun, 02 Mar 2025 10:38:27 +0100 Source: fastdnaml Binary: fastdnaml fastdnaml-dbgsym Architecture: arm64 Version: 1.2.2-18 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: fastdnaml - Tool for construction of phylogenetic trees of DNA sequences Closes: 1096609 Changes: fastdnaml (1.2.2-18) unstable; urgency=medium . * gcc-15.patch: new: fix build failure with gcc-15. (Closes: #1096609) * d/control: declare compliance to standards version 4.7.2. * hardening.patch: normalise Last-Update timestamp. * fixup-implicit-function-declaration.patch: dep3 header. * fortify.patch: new: fortify binaries hardening. * d/*: identified new upstream source location. * d/watch: update watch file to new upstream location. Checksums-Sha1: bbea6b1e172e5e1687016c10bad1ca6a5cbc8256 78036 fastdnaml-dbgsym_1.2.2-18_arm64.deb 43e68880cb53deefffc559865938d455f21a8f2b 4862 fastdnaml_1.2.2-18_arm64.buildinfo 53ca384855ca14b8e538a92220a9f05d01cabe8f 57732 fastdnaml_1.2.2-18_arm64.deb Checksums-Sha256: b244dd5b6908018ca44dd4bed562e63ef4efd3664a25ca015514e87ad2b337f5 78036 fastdnaml-dbgsym_1.2.2-18_arm64.deb 63079a05ed688895e4ffcf565c6cdbcccad0ce9d5978c884e3b574482cf705e4 4862 fastdnaml_1.2.2-18_arm64.buildinfo d332a151b21f8f7ca58bd9285c698220deba7bdbfbed80987b67bf865f047b51 57732 fastdnaml_1.2.2-18_arm64.deb Files: 0ba86ea5f6781899f771b8e4724c3156 78036 debug optional fastdnaml-dbgsym_1.2.2-18_arm64.deb de519255ae480c30328fed381402c720 4862 science optional fastdnaml_1.2.2-18_arm64.buildinfo d93e5208a0d1aa3cf6a45a2965af35a2 57732 science optional fastdnaml_1.2.2-18_arm64.deb Wed Mar 5 18:43:12 UTC 2025 I: diffoscope 289 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_7-59809.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.vFWOEyHD/fastdnaml_1.2.2-18.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.vFWOEyHD/fastdnaml_1.2.2-18.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.vFWOEyHD/fastdnaml_1.2.2-18.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.vFWOEyHD/b1/fastdnaml_1.2.2-18_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.vFWOEyHD/b2/fastdnaml_1.2.2-18_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.005s) 0.004s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 293ms CPU time consumed: 294ms Wed Mar 5 18:43:13 UTC 2025 I: diffoscope 289 found no differences in the changes files, and a .buildinfo file also exists. Wed Mar 5 18:43:13 UTC 2025 I: fastdnaml from trixie built successfully and reproducibly on arm64. Wed Mar 5 18:43:14 UTC 2025 I: Submitting .buildinfo files to external archives: Wed Mar 5 18:43:14 UTC 2025 I: Submitting 8.0K b1/fastdnaml_1.2.2-18_arm64.buildinfo.asc Wed Mar 5 18:43:17 UTC 2025 I: Submitting 8.0K b2/fastdnaml_1.2.2-18_arm64.buildinfo.asc Wed Mar 5 18:43:20 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed Mar 5 18:43:20 UTC 2025 I: Done submitting .buildinfo files. Wed Mar 5 18:43:20 UTC 2025 I: Removing signed fastdnaml_1.2.2-18_arm64.buildinfo.asc files: removed './b1/fastdnaml_1.2.2-18_arm64.buildinfo.asc' removed './b2/fastdnaml_1.2.2-18_arm64.buildinfo.asc'