Fri Mar 21 13:06:24 UTC 2025 I: starting to build prank/unstable/amd64 on jenkins on '2025-03-21 13:06' Fri Mar 21 13:06:24 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_23/50611/console.log Fri Mar 21 13:06:24 UTC 2025 I: Downloading source for unstable/prank=0.0.170427+dfsg-3 --2025-03-21 13:06:25-- http://deb.debian.org/debian/pool/main/p/prank/prank_0.0.170427%2bdfsg-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2035 (2.0K) [text/prs.lines.tag] Saving to: ‘prank_0.0.170427+dfsg-3.dsc’ 0K . 100% 343M=0s 2025-03-21 13:06:25 (343 MB/s) - ‘prank_0.0.170427+dfsg-3.dsc’ saved [2035/2035] Fri Mar 21 13:06:25 UTC 2025 I: prank_0.0.170427+dfsg-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: prank Binary: prank Architecture: any Version: 0.0.170427+dfsg-3 Maintainer: Debian Med Packaging Team Uploaders: Manuel Prinz , Andreas Tille Homepage: http://wasabiapp.org/software/prank/ Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/prank Vcs-Git: https://salsa.debian.org/med-team/prank.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: prank deb science optional arch=any Checksums-Sha1: 48d122657e11779b3792ba0f71f6272fc5fabc4b 102244 prank_0.0.170427+dfsg.orig.tar.xz 9ea6f6b255dbf3588d729cbd3302b1bc957be5e6 10952 prank_0.0.170427+dfsg-3.debian.tar.xz Checksums-Sha256: 49d7483db8a83d3fb8085778203f3114e122e181cc19fb2234916d5d34b8cac6 102244 prank_0.0.170427+dfsg.orig.tar.xz 6b1ede7b2cd1269c50a56377ebbb3d5d51cc3923dca6d01e2f7b9ea9ee99d9a6 10952 prank_0.0.170427+dfsg-3.debian.tar.xz Files: 72cc8c3bf77d15f411e9709a45253cb3 102244 prank_0.0.170427+dfsg.orig.tar.xz f49d579c0767bf48386b332761813b4a 10952 prank_0.0.170427+dfsg-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl+cJVQRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFwvw//dxUb6MjLhxrSaK0FZ81huFOvp03kBcq+ AvVIvr0TDk61NKSTvWTOtEXVRb2Mq5jU+2UGKCYEciN62n9M2G9WM111HkZUgJVc jj4DZwIFUfOED8cAGMEOT4Kx0wunMtKIe5ErS/lA+qEk4PD8UWtlehMHq/IShn++ btsBzlrlPi9SvOZHRCRavkLNy0JxmgzIv7de3SmDiy0Op+iXSqL7LetCJiv8FAeE +tMdiWRgcfsMlPSRMPali2AC57jxY0ZYnGpCNR+efDczpTDGYcV0MF7zLm0PW5AA an9pgpuX4R0oulshB+h3VuvJqDXcQu/STmaVekKYw1IBvWQmaM4ToFhXJA5g9tkC B9JtQrlFrIFMfPSlGy9iiqC610UifN8gr/Vzi90GqCR7GqnDojGtakvmyJfKuH3N FNdzZEuRf57bu/9vOF8ETLLSOH4nwJs9BY0vXJvLf+qGHD6grTyOFW6h2HJQku3M Oiuj3jhe/qcqivwKjW9op/KfL4aZKKKsUyXcfEtOqEbHIT6Q8epO0YGZMq47kaBc VPwE3DZs4LjKBNJhHxBld/TSYeW3A0DahqGR3tDewaPd1pbO6HhxTYRfaQP54Amn z0RRbvzeEZ8nTdPklPG/5Db3ANv0K6+oiGXMXQz6udKvzmxtpBg5p8y9qUcqPttf ESOANFpTA/g= =czR6 -----END PGP SIGNATURE----- Fri Mar 21 13:06:25 UTC 2025 I: Checking whether the package is not for us Fri Mar 21 13:06:25 UTC 2025 I: Starting 1st build on remote node ionos11-amd64.debian.net. Fri Mar 21 13:06:25 UTC 2025 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Fri Mar 21 13:08:58 UTC 2025 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Mar 21 01:06:27 -12 2025 I: pbuilder-time-stamp: 1742562387 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 [prank_0.0.170427+dfsg-3.dsc] I: copying [./prank_0.0.170427+dfsg.orig.tar.xz] I: copying [./prank_0.0.170427+dfsg-3.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./prank_0.0.170427+dfsg-3.dsc: unsupported subcommand dpkg-source: info: extracting prank in prank-0.0.170427+dfsg dpkg-source: info: unpacking prank_0.0.170427+dfsg.orig.tar.xz dpkg-source: info: unpacking prank_0.0.170427+dfsg-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying fix-gcc6.patch dpkg-source: info: applying cross.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2031649/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=20 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='68a1655e48144cd792ce66633a3adb16' 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='2031649' 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.tOtSypCp/pbuilderrc_tGwm --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.tOtSypCp/b1 --logfile b1/build.log prank_0.0.170427+dfsg-3.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos11-amd64 6.1.0-32-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.129-1 (2025-03-06) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2031649/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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19805 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} libicu76{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 20.9 MB of archives. After unpacking 80.8 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 1:5.46-3 [337 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-3 [109 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-3 [43.5 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 2.40.4-5 [92.4 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 1.4.19-7 [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 1:1.17-3 [862 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 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libicu76 amd64 76.1-3 [9721 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.3+b1 [699 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.1 [920 kB] Fetched 20.9 MB in 2s (9125 kB/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 ... 19805 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%3a5.46-3_amd64.deb ... Unpacking libmagic-mgc (1:5.46-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-3_amd64.deb ... Unpacking file (1:5.46-3) ... 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_2.40.4-5_amd64.deb ... Unpacking bsdextrautils (2.40.4-5) ... 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_1.4.19-7_amd64.deb ... Unpacking m4 (1.4.19-7) ... 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_2.5.4-4_all.deb ... Unpacking libtool (2.5.4-4) ... 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:amd64. Preparing to unpack .../21-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../23-libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Selecting previously unselected package libicu76:amd64. Preparing to unpack .../24-libicu76_76.1-3_amd64.deb ... Unpacking libicu76:amd64 (76.1-3) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../25-libxml2_2.12.7+dfsg+really2.9.14-0.3+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.3+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.23.1-1_amd64.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:amd64 (1.5.8-1) ... Setting up bsdextrautils (2.40.4-5) ... Setting up libmagic-mgc (1:5.46-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.24.1) ... Setting up libmagic1t64:amd64 (1:5.46-3) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-7) ... Setting up file (1:5.46-3) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up libunistring5:amd64 (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:amd64 (0.0.8-1+b2) ... Setting up libicu76:amd64 (76.1-3) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.3+b1) ... 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 (2.5.4-4) ... 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 (2.41-6) ... 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/prank-0.0.170427+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 > ../prank_0.0.170427+dfsg-3_source.changes dpkg-buildpackage: info: source package prank dpkg-buildpackage: info: source version 0.0.170427+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/prank-0.0.170427+dfsg' # No distclean! See README.source ( cd src ; make clean ) make[2]: Entering directory '/build/reproducible-path/prank-0.0.170427+dfsg/src' rm -f writefile.o treenode.o translatesequences.o terminalsequence.o terminalnode.o site.o sequence.o readnewick.o readfile.o readalignment.o pwsite.o pwhirschberg.o progressivealignment.o prank.o postprobability.o phylomatchscore.o node.o intmatrix.o hmmodel.o hirschberg.o guidetree.o fullprobability.o flmatrix.o eigen.o dbmatrix.o characterprobability.o boolmatrix.o ancestralsequence.o ancestralnode.o check_version.o exonerate_reads.o mafft_alignment.o bppancestors.o rm -f *~ core *.core make[2]: Leaving directory '/build/reproducible-path/prank-0.0.170427+dfsg/src' ( cd src ; rm -f prank prank.1 ) make[1]: Leaving directory '/build/reproducible-path/prank-0.0.170427+dfsg' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/prank-0.0.170427+dfsg' dh_auto_build --verbose cd src && make -j20 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/prank-0.0.170427+dfsg/src' g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o writefile.o writefile.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o treenode.o treenode.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o translatesequences.o translatesequences.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o terminalsequence.o terminalsequence.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o terminalnode.o terminalnode.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o site.o site.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o sequence.o sequence.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o readnewick.o readnewick.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o readfile.o readfile.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o readalignment.o readalignment.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o pwsite.o pwsite.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o pwhirschberg.o pwhirschberg.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o progressivealignment.o progressivealignment.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o prank.o prank.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o postprobability.o postprobability.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o phylomatchscore.o phylomatchscore.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o node.o node.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o intmatrix.o intmatrix.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o hmmodel.o hmmodel.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o hirschberg.o hirschberg.cpp In file included from readnewick.h:29, from readnewick.cpp:26: treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from treenode.cpp:25: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from translatesequences.cpp:22: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from terminalnode.h:23, from terminalnode.cpp:22: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o guidetree.o guidetree.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from phylomatchscore.cpp:23: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from site.cpp:22: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from progressivealignment.h:30, from prank.cpp:28: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from writefile.h:25, from writefile.cpp:27: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from postprobability.cpp:23: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from readnewick.h:29, from progressivealignment.cpp:28: treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from pwhirschberg.cpp:25: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from readalignment.h:28, from readalignment.cpp:23: treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from hirschberg.cpp:25: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from hmmodel.cpp:26: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from terminalsequence.cpp:24: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o fullprobability.o fullprobability.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o flmatrix.o flmatrix.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o eigen.o eigen.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from guidetree.cpp:25: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from fullprobability.cpp:25: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o dbmatrix.o dbmatrix.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o characterprobability.o characterprobability.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o boolmatrix.o boolmatrix.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o ancestralsequence.o ancestralsequence.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o ancestralnode.o ancestralnode.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o check_version.o check_version.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from characterprobability.cpp:24: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from ancestralsequence.cpp:24: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o exonerate_reads.o exonerate_reads.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o mafft_alignment.o mafft_alignment.cpp g++ -c -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=gnu++98 -pipe -O3 -I. -I/usr/include -o bppancestors.o bppancestors.cpp pod2man --utf8 --center "The Probabilistic Alignment Kit" -release="v.121211" --section=1 --name="PRANK" prank.1.pod >prank.1 In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from ancestralnode.cpp:27: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from exonerate_reads.cpp:10: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ ancestralnode.cpp: In member function 'std::string AncestralNode::getThisAncCharactersAt(int)': ancestralnode.cpp:1517:1: warning: control reaches end of non-void function [-Wreturn-type] 1517 | } | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, from mafft_alignment.cpp:6: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, from bppancestors.h:24, from bppancestors.cpp:29: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ guidetree.cpp: In member function 'void GuideTree::computeTree(std::vector >*, std::vector >*, IntMatrix*)': guidetree.cpp:162:37: warning: '%i' directive writing between 1 and 10 bytes into a region of size between 6 and 15 [-Wformat-overflow=] 162 | sprintf(prop,"%i to %i",i,j); | ^~ guidetree.cpp:162:30: note: directive argument in the range [1, 2147483647] 162 | sprintf(prop,"%i to %i",i,j); | ^~~~~~~~~~ In file included from /usr/include/stdio.h:970, from /usr/include/c++/14/cstdio:42, from guidetree.cpp:21: In function 'int sprintf(char*, const char*, ...)', inlined from 'void GuideTree::computeTree(std::vector >*, std::vector >*, IntMatrix*)' at guidetree.cpp:162:24: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 7 and 25 bytes into a destination of size 20 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ hmmodel.cpp: In member function 'void HMModel::readModel(const char*)': hmmodel.cpp:338:31: warning: '%i' directive writing between 1 and 11 bytes into a region of size 5 [-Wformat-overflow=] 338 | sprintf(str,"state%i",l); | ^~ hmmodel.cpp:338:25: note: directive argument in the range [-2147483647, 2147483646] 338 | sprintf(str,"state%i",l); | ^~~~~~~~~ In file included from /usr/include/stdio.h:970, from /usr/include/c++/14/cstdio:42, from /usr/include/c++/14/fstream:43, from hmmodel.cpp:24: In function 'int sprintf(char*, const char*, ...)', inlined from 'void HMModel::readModel(const char*)' at hmmodel.cpp:338:20: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: '__builtin___sprintf_chk' output between 7 and 17 bytes into a destination of size 10 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++ -o prank writefile.o treenode.o translatesequences.o terminalsequence.o terminalnode.o site.o sequence.o readnewick.o readfile.o readalignment.o pwsite.o pwhirschberg.o progressivealignment.o prank.o postprobability.o phylomatchscore.o node.o intmatrix.o hmmodel.o hirschberg.o guidetree.o fullprobability.o flmatrix.o eigen.o dbmatrix.o characterprobability.o boolmatrix.o ancestralsequence.o ancestralnode.o check_version.o exonerate_reads.o mafft_alignment.o bppancestors.o -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/reproducible-path/prank-0.0.170427+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/prank-0.0.170427+dfsg' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src dh_auto_install --destdir=debian/prank/ -O--sourcedirectory=src debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/prank-0.0.170427+dfsg' dh_install src/prank /usr/bin dh_installman src/prank.1 make[1]: Leaving directory '/build/reproducible-path/prank-0.0.170427+dfsg' dh_installdocs -O--sourcedirectory=src debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/reproducible-path/prank-0.0.170427+dfsg' dh_installchangelogs VERSION_HISTORY make[1]: Leaving directory '/build/reproducible-path/prank-0.0.170427+dfsg' dh_installexamples -O--sourcedirectory=src dh_installman -O--sourcedirectory=src dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src dh_compress -O--sourcedirectory=src dh_fixperms -O--sourcedirectory=src dh_missing -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src dh_strip -a -O--sourcedirectory=src dh_makeshlibs -a -O--sourcedirectory=src dh_shlibdeps -a -O--sourcedirectory=src dh_installdeb -O--sourcedirectory=src dh_gencontrol -O--sourcedirectory=src dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src dpkg-deb: building package 'prank' in '../prank_0.0.170427+dfsg-3_amd64.deb'. dpkg-deb: building package 'prank-dbgsym' in '../prank-dbgsym_0.0.170427+dfsg-3_amd64.deb'. dpkg-genbuildinfo --build=binary -O../prank_0.0.170427+dfsg-3_amd64.buildinfo dpkg-genchanges --build=binary -O../prank_0.0.170427+dfsg-3_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/2031649 and its subdirectories I: Current time: Fri Mar 21 01:08:57 -12 2025 I: pbuilder-time-stamp: 1742562537 Fri Mar 21 13:08:59 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Fri Mar 21 13:08:59 UTC 2025 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Fri Mar 21 13:09:39 UTC 2025 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Fri Mar 21 13:09:40 UTC 2025 I: prank_0.0.170427+dfsg-3_amd64.changes: Format: 1.8 Date: Fri, 30 Oct 2020 15:25:58 +0100 Source: prank Binary: prank prank-dbgsym Architecture: amd64 Version: 0.0.170427+dfsg-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: prank - Probabilistic Alignment Kit for DNA, codon and amino-acid sequenc Changes: prank (0.0.170427+dfsg-3) unstable; urgency=medium . * Standards-Version: 4.5.0 (routine-update) * debhelper-compat 13 (routine-update) * Secure URI in copyright format (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * Fix autopkgtest Checksums-Sha1: e4f8c66a0a5b7c9177e1e07e630ec5c037f1bebd 3546504 prank-dbgsym_0.0.170427+dfsg-3_amd64.deb e3bf4c76b94b08e2061f0792348e08725a9410ac 4914 prank_0.0.170427+dfsg-3_amd64.buildinfo 39344917ad495712cc7a438048c64c932953e04c 406992 prank_0.0.170427+dfsg-3_amd64.deb Checksums-Sha256: 34a6fa9cb6f20cbde8e4577ccef5402c5ffd4551d5e2085b31dc5e9a9841f0e4 3546504 prank-dbgsym_0.0.170427+dfsg-3_amd64.deb 2e1a3e02e1f2ae23fb32e499a4f05887b18b7f3951a79e6d09620cf8fd10cf6b 4914 prank_0.0.170427+dfsg-3_amd64.buildinfo e6a46c986129016cea5f24a11b9b3c3aea72356657ecf7ce2b32a3590bc29307 406992 prank_0.0.170427+dfsg-3_amd64.deb Files: cbb2b4a7b8f65aba3ce8f889177a1959 3546504 debug optional prank-dbgsym_0.0.170427+dfsg-3_amd64.deb 700206b80d7f18f8f8db155559b55a2d 4914 science optional prank_0.0.170427+dfsg-3_amd64.buildinfo 43ea485b22267c0a2431646f871abf15 406992 science optional prank_0.0.170427+dfsg-3_amd64.deb Fri Mar 21 13:09:41 UTC 2025 I: diffoscope 289 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_23-50611.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.tOtSypCp/prank_0.0.170427+dfsg-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.tOtSypCp/prank_0.0.170427+dfsg-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.tOtSypCp/prank_0.0.170427+dfsg-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.tOtSypCp/b1/prank_0.0.170427+dfsg-3_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.tOtSypCp/b2/prank_0.0.170427+dfsg-3_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 diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 228ms CPU time consumed: 228ms Fri Mar 21 13:09:41 UTC 2025 I: diffoscope 289 found no differences in the changes files, and a .buildinfo file also exists. Fri Mar 21 13:09:41 UTC 2025 I: prank from unstable built successfully and reproducibly on amd64. Fri Mar 21 13:09:42 UTC 2025 I: Submitting .buildinfo files to external archives: Fri Mar 21 13:09:42 UTC 2025 I: Submitting 8.0K b1/prank_0.0.170427+dfsg-3_amd64.buildinfo.asc Fri Mar 21 13:09:43 UTC 2025 I: Submitting 8.0K b2/prank_0.0.170427+dfsg-3_amd64.buildinfo.asc Fri Mar 21 13:09:44 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri Mar 21 13:09:44 UTC 2025 I: Done submitting .buildinfo files. Fri Mar 21 13:09:44 UTC 2025 I: Removing signed prank_0.0.170427+dfsg-3_amd64.buildinfo.asc files: removed './b1/prank_0.0.170427+dfsg-3_amd64.buildinfo.asc' removed './b2/prank_0.0.170427+dfsg-3_amd64.buildinfo.asc'