Sat Jan 25 22:31:56 UTC 2025 I: starting to build libpsortb/unstable/amd64 on jenkins on '2025-01-25 22:31' Sat Jan 25 22:31:56 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_34/45975/console.log Sat Jan 25 22:31:56 UTC 2025 I: Downloading source for unstable/libpsortb=1.0+dfsg-7 --2025-01-25 22:31:56-- http://deb.debian.org/debian/pool/main/libp/libpsortb/libpsortb_1.0%2bdfsg-7.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2350 (2.3K) [text/prs.lines.tag] Saving to: ‘libpsortb_1.0+dfsg-7.dsc’ 0K .. 100% 11.9M=0s 2025-01-25 22:31:56 (11.9 MB/s) - ‘libpsortb_1.0+dfsg-7.dsc’ saved [2350/2350] Sat Jan 25 22:31:56 UTC 2025 I: libpsortb_1.0+dfsg-7.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libpsortb Binary: libmodhmm0, libmodhmm-dev, libsvmloc0, libsvmloc-dev Architecture: any Version: 1.0+dfsg-7 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://www.psort.org/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/libpsortb Vcs-Git: https://salsa.debian.org/med-team/libpsortb.git Build-Depends: debhelper-compat (= 13), d-shlibs, libsvm-dev, libsquid-dev, libhmmer2-dev, pkgconf Package-List: libmodhmm-dev deb libdevel optional arch=any libmodhmm0 deb libs optional arch=any libsvmloc-dev deb libdevel optional arch=any libsvmloc0 deb libs optional arch=any Checksums-Sha1: 44d3705f46372837f5ecdf8fa2ad0273a6c38433 95644 libpsortb_1.0+dfsg.orig.tar.xz b13c9071a55d1fe8f0fe968c8271e74a977871a7 10220 libpsortb_1.0+dfsg-7.debian.tar.xz Checksums-Sha256: 5021b7ac656b33b8f0aa8c2e0403056a5459e1b92c17008b3ff442e262b3e2e5 95644 libpsortb_1.0+dfsg.orig.tar.xz 2a17d0a360424c133b6ca22f3d7fc70d8eb437015bf79b38802ec2136360e1af 10220 libpsortb_1.0+dfsg-7.debian.tar.xz Files: f9c6cf32032da4c9e88b609fba9bb02d 95644 libpsortb_1.0+dfsg.orig.tar.xz ef1736bb4ae38302866e97128937776e 10220 libpsortb_1.0+dfsg-7.debian.tar.xz Dgit: 9bafca52917fb0f97fdcfae9782dc8bea37d31de debian archive/debian/1.0+dfsg-7 https://git.dgit.debian.org/libpsortb -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmbLNAUUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdpbTBAAue6pNuR0IsU/ogBxhLroVEpbYERU GL9QIn6xm2CGbnpQTlMVPMJkJ+969D0sAMAsy51CZ0saoP9mgAxL9h3AXNHjsJ3i CLqmi5miQe+/BpDM4EOWN2AxcL9FRYS9oi5WPvdtG9jcMWJhhm03MgB67Nz5iuJi h/5nYHeZ2Ed17ckYQMVCX+qP1xaeAdElX93+rLLaNZCV/dY82Kc8cLzaLCO+aRWf 7hJvJhXmDeCG5Go2CZhYOATgFo3LyvPf6QJqq1gUjEtcPlo8Qz9y04zVVntDtJ9w P2hTd9Dra8xrOgF5Q1hyqGVCalS+Oe6fYU9k4vhzx8EqiDvbX1Z3A1LbzJML+Oja HQHvEnkYL8pcCtj2wSCZsdgkX5QWB/zgRIVoUNTccxEqSUEpHi58wXtbCevv22cr 74HZVSyOlJSzDz5dEPz0stzspItEF9a2KsO9ZHhSl+54vf2bCV4l4kyt+6neIv9p 6J542LXdkj51N0hyV2d0p7SQp+duydfJWSA2+6vFBioZqFV3rfHBaDqfP/CkcOuK /57X8hzxkUV4GkvBwR/u1AEF8HVBP9B/d3k9YMF7GeotxdmMrTVVTwdI7Gzr5ikh wx1htA3IoR3lNGbe1MsEvx6YW4PkO9qkwS9ixvOfsS62dRttp1sM6qADhJVUP1OY qpapCM//shZ/aQU= =RFu7 -----END PGP SIGNATURE----- Sat Jan 25 22:31:56 UTC 2025 I: Checking whether the package is not for us Sat Jan 25 22:31:56 UTC 2025 I: Starting 1st build on remote node infom02-amd64.debian.net. Sat Jan 25 22:31:56 UTC 2025 I: Preparing to do remote build '1' on infom02-amd64.debian.net. Sat Jan 25 22:33:34 UTC 2025 I: Deleting $TMPDIR on infom02-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Feb 27 16:54:58 -12 2026 I: pbuilder-time-stamp: 1772254498 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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 [libpsortb_1.0+dfsg-7.dsc] I: copying [./libpsortb_1.0+dfsg.orig.tar.xz] I: copying [./libpsortb_1.0+dfsg-7.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./libpsortb_1.0+dfsg-7.dsc: unsupported subcommand dpkg-source: info: extracting libpsortb in libpsortb-1.0+dfsg dpkg-source: info: unpacking libpsortb_1.0+dfsg.orig.tar.xz dpkg-source: info: unpacking libpsortb_1.0+dfsg-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_libs.patch dpkg-source: info: applying use_debian_packaged_libsvm.patch dpkg-source: info: applying remove_unused_debug_functions.patch dpkg-source: info: applying fix-implicit-declaration.patch dpkg-source: info: applying gcc14.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1172208/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='6131e1a1e7f5476588d693174f35b316' 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='1172208' 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.vL9GblRr/pbuilderrc_IKQW --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.vL9GblRr/b1 --logfile b1/build.log libpsortb_1.0+dfsg-7.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' I: uname -a Linux infom02-amd64 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1172208/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: amd64 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), d-shlibs, libsvm-dev, libsquid-dev, libhmmer2-dev, pkgconf dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19832 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 d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on libsvm-dev; however: Package libsvm-dev is not installed. pbuilder-satisfydepends-dummy depends on libsquid-dev; however: Package libsquid-dev is not installed. pbuilder-satisfydepends-dummy depends on libhmmer2-dev; however: Package libhmmer2-dev is not installed. pbuilder-satisfydepends-dummy depends on pkgconf; however: Package pkgconf 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} d-shlibs{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} libhmmer2-dev{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpkgconf3{a} libsquid-dev{a} libsquid1t64{a} libsvm-dev{a} libsvm3{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} pkgconf{a} pkgconf-bin{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, 39 newly installed, 0 to remove and 0 not upgraded. Need to get 21.0 MB of archives. After unpacking 79.6 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.4-1 [92.2 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-5 [294 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 d-shlibs all 0.109 [11.1 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-2 [539 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-1 [19.6 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-1 [8584 B] Get: 23 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.1 [920 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libhmmer2-dev amd64 2.3.2+dfsg-12+b2 [97.4 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 libsquid1t64 amd64 1.9g+cvs20050121-15.1+b2 [76.8 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libsquid-dev amd64 1.9g+cvs20050121-15.1+b2 [145 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libsvm3 amd64 3.24+ds-6+b1 [41.5 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 libsvm-dev amd64 3.24+ds-6+b1 [62.1 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Fetched 21.0 MB in 1s (26.7 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 ... 19832 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_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-7_amd64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.4-1_amd64.deb ... Unpacking bsdextrautils (2.40.4-1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-5_amd64.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%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package d-shlibs. Preparing to unpack .../15-d-shlibs_0.109_all.deb ... Unpacking d-shlibs (0.109) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.24.1_all.deb ... Unpacking libdebhelper-perl (13.24.1) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.5.4-2_all.deb ... Unpacking libtool (2.5.4-2) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-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 .../20-libfile-stripnondeterminism-perl_1.14.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../21-dh-strip-nondeterminism_1.14.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.1-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../22-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../24-libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../25-libicu72_72.1-6_amd64.deb ... Unpacking libicu72:amd64 (72.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../26-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../27-gettext_0.23.1-1_amd64.deb ... Unpacking gettext (0.23.1-1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-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 .../29-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.24.1_all.deb ... Unpacking debhelper (13.24.1) ... Selecting previously unselected package libhmmer2-dev:amd64. Preparing to unpack .../31-libhmmer2-dev_2.3.2+dfsg-12+b2_amd64.deb ... Unpacking libhmmer2-dev:amd64 (2.3.2+dfsg-12+b2) ... Selecting previously unselected package libpkgconf3:amd64. Preparing to unpack .../32-libpkgconf3_1.8.1-4_amd64.deb ... Unpacking libpkgconf3:amd64 (1.8.1-4) ... 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Unpacking pkgconf:amd64 (1.8.1-4) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-6) ... Setting up bsdextrautils (2.40.4-1) ... 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:amd64 (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:amd64 (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libunistring5:amd64 (1.3-1) ... Setting up autopoint (0.23.1-1) ... Setting up d-shlibs (0.109) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libhmmer2-dev:amd64 (2.3.2+dfsg-12+b2) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/libpsortb-1.0+dfsg/ && 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 > ../libpsortb_1.0+dfsg-7_source.changes dpkg-buildpackage: info: source package libpsortb dpkg-buildpackage: info: source version 1.0+dfsg-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.ac, libtoolize: and rerunning libtoolize and aclocal. libtoolize: Consider adding '-I m4' to ACLOCAL_AMFLAGS in Makefile.am. configure.ac:7: warning: The macro 'AC_CONFIG_HEADER' is obsolete. configure.ac:7: You should run autoupdate. ./lib/autoconf/status.m4:719: AC_CONFIG_HEADER is expanded from... configure.ac:7: the top level configure.ac:17: warning: The macro 'AC_PROG_LIBTOOL' is obsolete. configure.ac:17: You should run autoupdate. aclocal.m4:122: AC_PROG_LIBTOOL is expanded from... configure.ac:17: the top level configure.ac:47: warning: The macro 'AC_HEADER_STDC' is obsolete. configure.ac:47: You should run autoupdate. ./lib/autoconf/headers.m4:663: AC_HEADER_STDC is expanded from... configure.ac:47: the top level configure.ac:55: warning: The macro 'AC_HEADER_TIME' is obsolete. configure.ac:55: You should run autoupdate. ./lib/autoconf/headers.m4:702: AC_HEADER_TIME is expanded from... configure.ac:55: the top level configure.ac:12: installing './compile' configure.ac:17: installing './config.guess' configure.ac:17: installing './config.sub' configure.ac:8: installing './install-sh' configure.ac:8: installing './missing' modhmm0.92b/Makefile.am: installing './depcomp' dh_auto_configure ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/x86_64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for gcc... gcc checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking whether ln -s works... yes checking whether make sets $(MAKE)... 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checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating svmloc/Makefile config.status: creating modhmm0.92b/Makefile config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands dh_auto_build make -j12 make[1]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg' make all-recursive make[2]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg' Making all in svmloc make[3]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg/svmloc' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o binding.lo binding.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o svmloc.lo svmloc.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c binding.cpp -fPIC -DPIC -o .libs/binding.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c svmloc.cpp -fPIC -DPIC -o .libs/svmloc.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c binding.cpp -o binding.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c svmloc.cpp -o svmloc.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -version-info 0:0:0 -lsvm -Wl,-z,relro -Wl,-z,now -o libsvmloc.la -rpath /usr/lib/x86_64-linux-gnu binding.lo svmloc.lo -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/14/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/14/crtbeginS.o .libs/binding.o .libs/svmloc.o -lsvm -L/usr/lib/gcc/x86_64-linux-gnu/14 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directory '/build/reproducible-path/libpsortb-1.0+dfsg/svmloc' Making all in modhmm0.92b make[3]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg/modhmm0.92b' /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o core_algorithms_multialpha.lo core_algorithms_multialpha.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o debug_funcs.lo debug_funcs.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o hmmsearch.lo hmmsearch.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o readhmm.lo readhmm.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o readhmm_multialpha.lo readhmm_multialpha.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o readseqs_multialpha.lo readseqs_multialpha.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o std_calculation_funcs.lo std_calculation_funcs.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o std_funcs.lo std_funcs.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c -o training_algorithms_multialpha.lo training_algorithms_multialpha.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c hmmsearch.c -fPIC -DPIC -o .libs/hmmsearch.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c core_algorithms_multialpha.c -fPIC -DPIC -o .libs/core_algorithms_multialpha.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c readhmm_multialpha.c -fPIC -DPIC -o .libs/readhmm_multialpha.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c std_funcs.c -fPIC -DPIC -o .libs/std_funcs.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c readseqs_multialpha.c -fPIC -DPIC -o .libs/readseqs_multialpha.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c std_calculation_funcs.c -fPIC -DPIC -o .libs/std_calculation_funcs.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c debug_funcs.c -fPIC -DPIC -o .libs/debug_funcs.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c readhmm.c -fPIC -DPIC -o .libs/readhmm.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c training_algorithms_multialpha.c -fPIC -DPIC -o .libs/training_algorithms_multialpha.o debug_funcs.c:7:76: warning: 'struct hmm_multi_s' declared inside parameter list will not be visible outside of this definition or declaration 7 | int read_multi_prior_file_multi(struct emission_dirichlet_s *em_di, struct hmm_multi_s *hmmp, FILE *priorfile, int alphabet); | ^~~~~~~~~~~ debug_funcs.c:7:40: warning: 'struct emission_dirichlet_s' declared inside parameter list will not be visible outside of this definition or declaration 7 | int read_multi_prior_file_multi(struct emission_dirichlet_s *em_di, struct hmm_multi_s *hmmp, FILE *priorfile, int alphabet); | ^~~~~~~~~~~~~~~~~~~~ readseqs_multialpha.c: In function 'get_sequence_std_multi': readseqs_multialpha.c:121:55: warning: unknown escape sequence: '\s' 121 | if(line[0] == '<' || line[0] == '#' || line[0] == '\s' || line[0] == '\n' || line[0] == '/') { | ^~~~ training_algorithms_multialpha.c: In function 'msa_baum_welch_dirichlet_multi': training_algorithms_multialpha.c:701:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 701 | alphabet = (int)hmmp->alphabet; | ^ training_algorithms_multialpha.c:710:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 710 | alphabet = (int)hmmp->alphabet_2; | ^ training_algorithms_multialpha.c:719:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 719 | alphabet = (int)hmmp->alphabet_3; | ^ training_algorithms_multialpha.c:728:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 728 | alphabet = (int)hmmp->alphabet_4; | ^ hmmsearch.c: In function 'get_nullmodel_score_multi': readseqs_multialpha.c: In function 'get_sequences_msa_std_multi': readseqs_multialpha.c:372:18: warning: unknown escape sequence: '\s' 372 | else if(i == '\s' && i == '\n') { | ^~~~ hmmsearch.c:656:42: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'struct letter_s *' [-Wformat=] 656 | printf("Could not find letter %s when scoring null model\n", &seq[l]); | ~^ ~~~~~~~ | | | | char * struct letter_s * hmmsearch.c:674:44: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'struct letter_s *' [-Wformat=] 674 | printf("Could not find letter %s when scoring null model\n", &seq_2[l]); | ~^ ~~~~~~~~~ | | | | char * struct letter_s * hmmsearch.c:693:44: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'struct letter_s *' [-Wformat=] 693 | printf("Could not find letter %s when scoring null model\n", &seq_3[l]); | ~^ ~~~~~~~~~ | | | | char * struct letter_s * hmmsearch.c:712:44: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'struct letter_s *' [-Wformat=] 712 | printf("Could not find letter %s when scoring null model\n", &seq[l]); | ~^ ~~~~~~~ | | | | char * struct letter_s * readhmm.c: In function 'readhmm': readhmm.c:69:3: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 69 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm.c: In function 'readanhmm': readhmm.c:342:3: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 342 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ training_algorithms_multialpha.c: In function 'extended_msa_baum_welch_dirichlet_multi': readhmm.c: In function 'read_module': readhmm.c:745:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 745 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm.c:780:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 780 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm.c:815:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 815 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm.c:844:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 844 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm.c:848:3: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 848 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ training_algorithms_multialpha.c:1639:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1639 | alphabet = (int)hmmp->alphabet; | ^ training_algorithms_multialpha.c:1646:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1646 | alphabet = (int)hmmp->alphabet_2; | ^ training_algorithms_multialpha.c:1653:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1653 | alphabet = (int)hmmp->alphabet_3; | ^ training_algorithms_multialpha.c:1660:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1660 | alphabet = (int)hmmp->alphabet_4; | ^ readhmm.c: In function 'read_prior_files': readhmm.c:1225:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1225 | fgets(ps, 2048, priorfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ training_algorithms_multialpha.c:1784:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1784 | alphabet = (int)hmmp->alphabet; | ^ training_algorithms_multialpha.c:1791:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1791 | alphabet = (int)hmmp->alphabet_2; | ^ std_calculation_funcs.c: In function 'update_labelings': training_algorithms_multialpha.c:1798:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1798 | alphabet = (int)hmmp->alphabet_3; | ^ training_algorithms_multialpha.c:1805:28: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1805 | alphabet = (int)hmmp->alphabet_4; | ^ std_calculation_funcs.c:1295:21: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1295 | cur_address = (int)((cur_rowp+v)->labeling); | ^ std_calculation_funcs.c:1309:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1309 | if((int)((cur_rowp+w)->labeling) == cur_address && (cur_rowp + w)->is_updated == NO) { | ^ std_calculation_funcs.c: In function 'deallocate_row_labelings': std_calculation_funcs.c:1425:21: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1425 | cur_address = (int)((prev_rowp+v)->labeling); | ^ std_calculation_funcs.c:1430:12: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 1430 | if((int)((prev_rowp+w)->labeling) == cur_address) { | ^ std_funcs.c: In function 'get_replacement_letter_index_single': readseqs_multialpha.c: In function 'get_sequence_std_multi': readseqs_multialpha.c:286:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 286 | fgets(line, MAX_LINE, seqfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ std_funcs.c:680:62: warning: comparison between pointer and integer 680 | if(((replacement_letters->letters + a_index)->letter)[0] == c) { | ^~ readseqs_multialpha.c: In function 'get_sequences_msa_std_multi': readseqs_multialpha.c:625:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 625 | fgets(line, MAX_LINE, seqfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readseqs_multialpha.c:754:9: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 754 | fgets(line, MAX_LINE, seqfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readseqs_multialpha.c:874:9: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 874 | fgets(line, MAX_LINE, seqfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readseqs_multialpha.c:995:9: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 995 | fgets(line, MAX_LINE, seqfile); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ training_algorithms_multialpha.c: In function 'add_to_E_multi': training_algorithms_multialpha.c:3589:43: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 3589 | (char*)alphabet); | ^ training_algorithms_multialpha.c:3593:49: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 3593 | (char*)alphabet); | ^ training_algorithms_multialpha.c:3618:36: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 3618 | (char*)alphabet); | ^ training_algorithms_multialpha.c:3622:42: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 3622 | (char*)alphabet); | ^ readhmm_multialpha.c: In function 'readhmm_multialpha': readhmm_multialpha.c:326:3: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 326 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c: In function 'read_module_multi': readhmm_multialpha.c:1039:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1039 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c:1074:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1074 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c:1108:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1108 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c:1137:5: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1137 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c:1140:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1140 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c:1166:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1166 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c:1169:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1169 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c:1195:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1195 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c:1199:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1199 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c:1226:7: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1226 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ readhmm_multialpha.c:1233:3: warning: ignoring return value of 'fgets' declared with attribute 'warn_unused_result' [-Wunused-result] 1233 | fgets(s, MAX_LINE, file); | ^~~~~~~~~~~~~~~~~~~~~~~~ std_funcs.c: In function 'get_nr_alphabets': std_funcs.c:2726:10: warning: 'fgets' writing 4000 bytes into a region of size 1000 overflows the destination [-Wstringop-overflow=] 2726 | if(fgets(s, MAX_LINE, hmmfile) != NULL) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ std_funcs.c:2719:8: note: destination object 's' of size 1000 2719 | char s[1000]; | ^ In file included from /usr/include/stdio.h:970, from std_funcs.c:1: /usr/include/x86_64-linux-gnu/bits/stdio2.h:305:1: note: in a call to function 'fgets' declared with attribute 'access (write_only, 1, 2)' 305 | fgets (__fortify_clang_overload_arg (char *, __restrict, __s), int __n, | ^~~~~ std_funcs.c:2733:8: warning: 'fgets' writing 4000 bytes into a region of size 1000 overflows the destination [-Wstringop-overflow=] 2733 | if(fgets(s, MAX_LINE, hmmfile) != NULL) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ std_funcs.c:2719:8: note: destination object 's' of size 1000 2719 | char s[1000]; | ^ /usr/include/x86_64-linux-gnu/bits/stdio2.h:305:1: note: in a call to function 'fgets' declared with attribute 'access (write_only, 1, 2)' 305 | fgets (__fortify_clang_overload_arg (char *, __restrict, __s), int __n, | ^~~~~ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c hmmsearch.c -o hmmsearch.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c debug_funcs.c -o debug_funcs.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c readhmm.c -o readhmm.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c readhmm_multialpha.c -o readhmm_multialpha.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c std_calculation_funcs.c -o std_calculation_funcs.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c readseqs_multialpha.c -o readseqs_multialpha.o >/dev/null 2>&1 In function 'fgets', inlined from 'get_nr_alphabets' at std_funcs.c:2726:10: /usr/include/x86_64-linux-gnu/bits/stdio2.h:316:12: warning: call to '__fgets_chk_warn' declared with attribute warning: fgets called with bigger size than length of destination buffer [-Wattribute-warning] 316 | return __fgets_chk_warn (__s, __sz, __n, __stream); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'fgets', inlined from 'get_nr_alphabets' at std_funcs.c:2733:8: /usr/include/x86_64-linux-gnu/bits/stdio2.h:316:12: warning: call to '__fgets_chk_warn' declared with attribute warning: fgets called with bigger size than length of destination buffer [-Wattribute-warning] 316 | return __fgets_chk_warn (__s, __sz, __n, __stream); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c std_funcs.c -o std_funcs.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c training_algorithms_multialpha.c -o training_algorithms_multialpha.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -c core_algorithms_multialpha.c -o core_algorithms_multialpha.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -version-info 0:0:0 -Wl,-z,relro -Wl,-z,now -o libmodhmm.la -rpath /usr/lib/x86_64-linux-gnu core_algorithms_multialpha.lo debug_funcs.lo hmmsearch.lo readhmm.lo readhmm_multialpha.lo readseqs_multialpha.lo std_calculation_funcs.lo std_funcs.lo training_algorithms_multialpha.lo -lm libtool: link: gcc -shared -fPIC -DPIC .libs/core_algorithms_multialpha.o .libs/debug_funcs.o .libs/hmmsearch.o .libs/readhmm.o .libs/readhmm_multialpha.o .libs/readseqs_multialpha.o .libs/std_calculation_funcs.o .libs/std_funcs.o .libs/training_algorithms_multialpha.o -lm -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libpsortb-1.0+dfsg=. -fstack-protector-strong -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,libmodhmm.so.0 -o .libs/libmodhmm.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libmodhmm.so.0" && ln -s "libmodhmm.so.0.0.0" "libmodhmm.so.0") libtool: link: (cd ".libs" && rm -f "libmodhmm.so" && ln -s "libmodhmm.so.0.0.0" "libmodhmm.so") libtool: link: ar cr .libs/libmodhmm.a core_algorithms_multialpha.o debug_funcs.o hmmsearch.o readhmm.o readhmm_multialpha.o readseqs_multialpha.o std_calculation_funcs.o std_funcs.o training_algorithms_multialpha.o libtool: link: ranlib .libs/libmodhmm.a libtool: link: ( cd ".libs" && rm -f "libmodhmm.la" && ln -s "../libmodhmm.la" "libmodhmm.la" ) make[3]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg/modhmm0.92b' make[3]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg' make[3]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg' make[2]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg' make[1]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg' dh_auto_test make -j12 check "TESTSUITEFLAGS=-j12 --verbose" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg' Making check in svmloc make[2]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg/svmloc' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg/svmloc' Making check in modhmm0.92b make[2]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg/modhmm0.92b' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg/modhmm0.92b' make[2]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg' make[2]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg' make[1]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg' dh_auto_install make -j1 install DESTDIR=/build/reproducible-path/libpsortb-1.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg' Making install in svmloc make[3]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg/svmloc' make[4]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg/svmloc' /usr/bin/mkdir -p '/build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu' /bin/bash ../libtool --mode=install /usr/bin/install -c libsvmloc.la '/build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu' libtool: install: /usr/bin/install -c .libs/libsvmloc.so.0.0.0 /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libsvmloc.so.0.0.0 libtool: install: (cd /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libsvmloc.so.0.0.0 libsvmloc.so.0 || { rm -f libsvmloc.so.0 && ln -s libsvmloc.so.0.0.0 libsvmloc.so.0; }; }) libtool: install: (cd /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libsvmloc.so.0.0.0 libsvmloc.so || { rm -f libsvmloc.so && ln -s libsvmloc.so.0.0.0 libsvmloc.so; }; }) libtool: install: /usr/bin/install -c .libs/libsvmloc.lai /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libsvmloc.la libtool: install: /usr/bin/install -c .libs/libsvmloc.a /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libsvmloc.a libtool: install: chmod 644 /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libsvmloc.a libtool: install: ranlib /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libsvmloc.a libtool: warning: remember to run 'libtool --finish /usr/lib/x86_64-linux-gnu' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg/svmloc' make[3]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg/svmloc' Making install in modhmm0.92b make[3]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg/modhmm0.92b' make[4]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg/modhmm0.92b' /usr/bin/mkdir -p '/build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu' /bin/bash ../libtool --mode=install /usr/bin/install -c libmodhmm.la '/build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu' libtool: install: /usr/bin/install -c .libs/libmodhmm.so.0.0.0 /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libmodhmm.so.0.0.0 libtool: install: (cd /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libmodhmm.so.0.0.0 libmodhmm.so.0 || { rm -f libmodhmm.so.0 && ln -s libmodhmm.so.0.0.0 libmodhmm.so.0; }; }) libtool: install: (cd /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libmodhmm.so.0.0.0 libmodhmm.so || { rm -f libmodhmm.so && ln -s libmodhmm.so.0.0.0 libmodhmm.so; }; }) libtool: install: /usr/bin/install -c .libs/libmodhmm.lai /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libmodhmm.la libtool: install: /usr/bin/install -c .libs/libmodhmm.a /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libmodhmm.a libtool: install: chmod 644 /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libmodhmm.a libtool: install: ranlib /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libmodhmm.a libtool: warning: remember to run 'libtool --finish /usr/lib/x86_64-linux-gnu' make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg/modhmm0.92b' make[3]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg/modhmm0.92b' make[3]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg' make[4]: Entering directory '/build/reproducible-path/libpsortb-1.0+dfsg' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg' make[3]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg' make[2]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg' d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ debian/tmp/usr/lib/*/libmodhmm.so Library package automatic movement utility set -e install -d -m 755 debian/libmodhmm-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libmodhmm0/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libmodhmm.a debian/libmodhmm-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libmodhmm.so debian/libmodhmm-dev/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libmodhmm.so.0 debian/libmodhmm0/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libmodhmm.so.0.0.0 debian/libmodhmm0/usr/lib/x86_64-linux-gnu PKGDEV=libmodhmm-dev PKGSHL=libmodhmm0 d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ debian/tmp/usr/lib/*/libsvmloc.so Library package automatic movement utility --> libsvm-dev package exists. set -e install -d -m 755 debian/libsvmloc-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libsvmloc0/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libsvmloc.a debian/libsvmloc-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libsvmloc.so debian/libsvmloc-dev/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libsvmloc.so.0 debian/libsvmloc0/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/libpsortb-1.0+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libsvmloc.so.0.0.0 debian/libsvmloc0/usr/lib/x86_64-linux-gnu PKGDEV=libsvmloc-dev PKGSHL=libsvmloc0 find debian -name "lib*.la" -delete make[1]: Leaving directory '/build/reproducible-path/libpsortb-1.0+dfsg' dh_installdocs dh_installchangelogs 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 dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libmodhmm0' in '../libmodhmm0_1.0+dfsg-7_amd64.deb'. dpkg-deb: building package 'libmodhmm-dev' in '../libmodhmm-dev_1.0+dfsg-7_amd64.deb'. dpkg-deb: building package 'libmodhmm0-dbgsym' in '../libmodhmm0-dbgsym_1.0+dfsg-7_amd64.deb'. dpkg-deb: building package 'libsvmloc0' in '../libsvmloc0_1.0+dfsg-7_amd64.deb'. dpkg-deb: building package 'libsvmloc-dev' in '../libsvmloc-dev_1.0+dfsg-7_amd64.deb'. dpkg-deb: building package 'libsvmloc0-dbgsym' in '../libsvmloc0-dbgsym_1.0+dfsg-7_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libpsortb_1.0+dfsg-7_amd64.buildinfo dpkg-genchanges --build=binary -O../libpsortb_1.0+dfsg-7_amd64.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/1172208 and its subdirectories I: Current time: Fri Feb 27 16:56:33 -12 2026 I: pbuilder-time-stamp: 1772254593 Sat Jan 25 22:33:35 UTC 2025 I: 1st build successful. Starting 2nd build on remote node infom01-amd64.debian.net. Sat Jan 25 22:33:35 UTC 2025 I: Preparing to do remote build '2' on infom01-amd64.debian.net. Sat Jan 25 22:34:24 UTC 2025 I: Deleting $TMPDIR on infom01-amd64.debian.net. Sat Jan 25 22:34:25 UTC 2025 I: libpsortb_1.0+dfsg-7_amd64.changes: Format: 1.8 Date: Sun, 25 Aug 2024 15:12:08 +0200 Source: libpsortb Binary: libmodhmm-dev libmodhmm0 libmodhmm0-dbgsym libsvmloc-dev libsvmloc0 libsvmloc0-dbgsym Architecture: amd64 Version: 1.0+dfsg-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: libmodhmm-dev - library for constructing, training and scoring hidden Markov mode libmodhmm0 - library for constructing, training and scoring hidden Markov mode libsvmloc-dev - PSORTb adapted library for svm machine-learning library (dev) libsvmloc0 - PSORTb adapted library for svm machine-learning library Closes: 1075198 Changes: libpsortb (1.0+dfsg-7) unstable; urgency=medium . * gcc14.patch: new: fix multiple issues caught by gcc14. (Closes: #1075198) * d/control: add myself to uploaders. Checksums-Sha1: 686942547564c003f32471353374734365266d71 79652 libmodhmm-dev_1.0+dfsg-7_amd64.deb e20be4b1d89120b72da6e9588e194dc5e55793a2 222436 libmodhmm0-dbgsym_1.0+dfsg-7_amd64.deb 9ec9325707602cee300fbbf6aaee2cb83b04d066 79760 libmodhmm0_1.0+dfsg-7_amd64.deb 345651b94cb1fa6c33d11ea9ab7186c6bef62b68 6892 libpsortb_1.0+dfsg-7_amd64.buildinfo 1449b4ac937f67e14850e83365f57123784d0c56 12184 libsvmloc-dev_1.0+dfsg-7_amd64.deb d798324165a5fb891e75ff29f234fea893d4e7b7 99296 libsvmloc0-dbgsym_1.0+dfsg-7_amd64.deb e79c33d2181fbb3a33dd22c98cd2e6a6a61e976e 13324 libsvmloc0_1.0+dfsg-7_amd64.deb Checksums-Sha256: c81ab5081788d4cea4a8bf91124f52c2d2f3495c514d640923ba5b0233ee359f 79652 libmodhmm-dev_1.0+dfsg-7_amd64.deb d499d915382e00384067badd44f4eb1f3dc874c0b0479ba74580a1ebea1ff1cd 222436 libmodhmm0-dbgsym_1.0+dfsg-7_amd64.deb 89c810abb81cd846edf5ecd53da5911b0c4dbd9e04b8b281e92df1ced626e0d3 79760 libmodhmm0_1.0+dfsg-7_amd64.deb 1e9f1363a66114a44df1b8d4509aec41a2f4d54dd85f6aa43b5f9968719c0aa2 6892 libpsortb_1.0+dfsg-7_amd64.buildinfo 35937ace02f8d63d45650bd24d984cc9f7edc7ca1efcbf22332a0bc93b48fcdd 12184 libsvmloc-dev_1.0+dfsg-7_amd64.deb a881e1413c988736d7cedc2942e918a474f3db935242135718fa554397b18c54 99296 libsvmloc0-dbgsym_1.0+dfsg-7_amd64.deb 1e71b5b64db51777cbcd1764280307412c3430f434aad53d783c2d82a5dd6400 13324 libsvmloc0_1.0+dfsg-7_amd64.deb Files: 9cae333c5997f066b6584d0f579ebf4f 79652 libdevel optional libmodhmm-dev_1.0+dfsg-7_amd64.deb 171b707d6cb34a7be24aba1525616e0f 222436 debug optional libmodhmm0-dbgsym_1.0+dfsg-7_amd64.deb b29b99c56cea846216c88b572f66d85b 79760 libs optional libmodhmm0_1.0+dfsg-7_amd64.deb 545ee39d37c8f375bcf4c0ac4b286a66 6892 science optional libpsortb_1.0+dfsg-7_amd64.buildinfo 7bad14a791295396a6fd0c1513f5292d 12184 libdevel optional libsvmloc-dev_1.0+dfsg-7_amd64.deb 19b21afd0bc7d0761711ffd3e5e28781 99296 debug optional libsvmloc0-dbgsym_1.0+dfsg-7_amd64.deb 875d287bd2e5da45612af3a5f7c51306 13324 libs optional libsvmloc0_1.0+dfsg-7_amd64.deb Sat Jan 25 22:34:26 UTC 2025 I: diffoscope 285 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_34-45975.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.vL9GblRr/libpsortb_1.0+dfsg-7.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.vL9GblRr/libpsortb_1.0+dfsg-7.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.vL9GblRr/libpsortb_1.0+dfsg-7.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.vL9GblRr/b1/libpsortb_1.0+dfsg-7_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.vL9GblRr/b2/libpsortb_1.0+dfsg-7_amd64.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: 0.325s) 0.325s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.021s) 0.021s 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: 615ms CPU time consumed: 616ms Sat Jan 25 22:34:27 UTC 2025 I: diffoscope 285 found no differences in the changes files, and a .buildinfo file also exists. Sat Jan 25 22:34:27 UTC 2025 I: libpsortb from unstable built successfully and reproducibly on amd64. Sat Jan 25 22:34:28 UTC 2025 I: Submitting .buildinfo files to external archives: Sat Jan 25 22:34:28 UTC 2025 I: Submitting 8.0K b1/libpsortb_1.0+dfsg-7_amd64.buildinfo.asc Sat Jan 25 22:34:29 UTC 2025 I: Submitting 8.0K b2/libpsortb_1.0+dfsg-7_amd64.buildinfo.asc Sat Jan 25 22:34:29 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Jan 25 22:34:29 UTC 2025 I: Done submitting .buildinfo files. Sat Jan 25 22:34:29 UTC 2025 I: Removing signed libpsortb_1.0+dfsg-7_amd64.buildinfo.asc files: removed './b1/libpsortb_1.0+dfsg-7_amd64.buildinfo.asc' removed './b2/libpsortb_1.0+dfsg-7_amd64.buildinfo.asc'