Tue Dec 10 20:03:04 UTC 2024 I: starting to build pbsuite/unstable/amd64 on jenkins on '2024-12-10 20:02' Tue Dec 10 20:03:04 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_23/41094/console.log Tue Dec 10 20:03:04 UTC 2024 I: Downloading source for unstable/pbsuite=15.8.24+dfsg-8 --2024-12-10 20:03:04-- http://deb.debian.org/debian/pool/main/p/pbsuite/pbsuite_15.8.24%2bdfsg-8.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2316 (2.3K) [text/prs.lines.tag] Saving to: ‘pbsuite_15.8.24+dfsg-8.dsc’ 0K .. 100% 217M=0s 2024-12-10 20:03:04 (217 MB/s) - ‘pbsuite_15.8.24+dfsg-8.dsc’ saved [2316/2316] Tue Dec 10 20:03:04 UTC 2024 I: pbsuite_15.8.24+dfsg-8.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: pbsuite Binary: pbsuite, python3-pbsuite-utils, pbjelly, pbhoney, python3-pbbanana Architecture: all Version: 15.8.24+dfsg-8 Maintainer: Debian Med Packaging Team Uploaders: Olivier Sallou Homepage: http://sourceforge.net/projects/pb-jelly Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/pbsuite Vcs-Git: https://salsa.debian.org/med-team/pbsuite.git Testsuite: autopkgtest Testsuite-Triggers: pbdagcon Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3-all Package-List: pbhoney deb science optional arch=all pbjelly deb science optional arch=all pbsuite deb metapackages optional arch=all python3-pbbanana deb python optional arch=all python3-pbsuite-utils deb python optional arch=all Checksums-Sha1: 83f478b44516f962d98520eba8109da904f84f11 1614912 pbsuite_15.8.24+dfsg.orig.tar.xz b241c4dc88623c757a91ab5898a0001d662c3cf9 26912 pbsuite_15.8.24+dfsg-8.debian.tar.xz Checksums-Sha256: f58813e9e3ed9e3f161de8460ed1e1d86be5a817cbeb0e041cc94cbd3e9e3aab 1614912 pbsuite_15.8.24+dfsg.orig.tar.xz a6b065342cd23be636995f3629e6aed439258911520e8b440c40b3f935f53dad 26912 pbsuite_15.8.24+dfsg-8.debian.tar.xz Files: c6c55284fb59c4dce96fbc9c6d20fda3 1614912 pbsuite_15.8.24+dfsg.orig.tar.xz 6a3dac89072fa43fb02aa2c3781f9cea 26912 pbsuite_15.8.24+dfsg-8.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmdXSWkRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEk8Q//d+mrFa3bQ7R5peEYtKFop2fXoRho1LXp qDPf6I3/5/mM9taDyGW/mg6o3aW9+RMpvXQEXd+bMNnOFYqdQQLuMiyQT9rUFcAm PNuUYNaFp9wHgrE59INDZf4ZUVIGw/JXtXK3K5gMSigj+6MToYwEbOHuSCgapfjp yUY+LSRdi6EATXxuKc0Ipz0UzIKtzlaZ1628prQ+AIV86/hPxHVmCNg3BL3GbhvE 8KOpGNxSmcuqJjhzFzqlWW/CgasWIVQXFfyT0XKwWA14A8R+AKxQ4Kx8qtv9A/sb P3gNjMG1a0fGIlhj8j89WYIAsqK6kdd/GlmBCC/rvfKTpwmbS6jX5wP0kkYz1Srr Q0TaYTWqrjaWIWdcSHmstP87YFbqjf6vXnDQt2/MdgWpUaAH00P9I1NAdFIWYge3 ZjkQ6/X1c650HP4h5ew8F+pXIBH2Nwo29Q+mO5W1C4JLHp+fAnoUCh+DhDYwjpLL oY9vvTlCIpCpPCb3h9qvrz9JpP50+L5vkT5/5sbH5h7JGxCzJsZ7wiWXDHvCipvB OI5GKvEDCiM6wBcJidxX8SP1ntzk4phMfHE7wY/xP24MjJRTQNzUmfr6Xzl89t1v o23eqh15hMuWPhFZ+YLyak5axGpJJHZ10O2Cp9JBV+YEHpJfGz13AjaQbcoChT3z IF5grZrbhv4= =YnLn -----END PGP SIGNATURE----- Tue Dec 10 20:03:04 UTC 2024 I: Checking whether the package is not for us Tue Dec 10 20:03:04 UTC 2024 I: Starting 1st build on remote node ionos11-amd64.debian.net. Tue Dec 10 20:03:04 UTC 2024 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Tue Dec 10 20:04:47 UTC 2024 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Dec 10 08:03:07 -12 2024 I: pbuilder-time-stamp: 1733860987 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 [pbsuite_15.8.24+dfsg-8.dsc] I: copying [./pbsuite_15.8.24+dfsg.orig.tar.xz] I: copying [./pbsuite_15.8.24+dfsg-8.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Dec 9 19:47:53 2024 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./pbsuite_15.8.24+dfsg-8.dsc: no acceptable signature found dpkg-source: info: extracting pbsuite in pbsuite-15.8.24+dfsg dpkg-source: info: unpacking pbsuite_15.8.24+dfsg.orig.tar.xz dpkg-source: info: unpacking pbsuite_15.8.24+dfsg-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix-syntax-error.patch dpkg-source: info: applying intervaltree-import-statement.patch dpkg-source: info: applying fix-example.patch dpkg-source: info: applying fix-shebang-lines.patch dpkg-source: info: applying blasr-5.patch dpkg-source: info: applying intermediate-reads-files.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying fix_py3.patch dpkg-source: info: applying python3.12-syntax.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3277115/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='f72b492febc541339be8ac183727885d' 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='3277115' 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.VVxqOH3U/pbuilderrc_PJ6d --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.VVxqOH3U/b1 --logfile b1/build.log pbsuite_15.8.24+dfsg-8.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 6.1.0-28-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.119-1 (2024-11-22) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3277115/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), dh-sequence-python3, python3-all dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19965 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 dh-sequence-python3; however: Package dh-sequence-python3 is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all 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-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libcom-err2{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libmagic-mgc{a} libmagic1t64{a} libnsl2{a} libpipeline1{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} media-types{a} netbase{a} po-debconf{a} python3{a} python3-all{a} python3-autocommand{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 68 newly installed, 0 to remove and 0 not upgraded. Need to get 34.0 MB of archives. After unpacking 133 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libpython3.12-minimal amd64 3.12.8-1 [815 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 python3.12-minimal amd64 3.12.8-1 [2163 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.12.7-1 [26.8 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 tzdata all 2024b-4 [256 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.2~rc1-2 [23.8 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 12 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libpython3.12-stdlib amd64 3.12.8-1 [1970 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 python3.12 amd64 3.12.8-1 [677 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.12.7-1 [9712 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.12.7-1 [27.8 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.1-1 [857 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.1-1 [2201 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-6 [1184 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-12 [92.0 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 46 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 60 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 75.2.0-1 [213 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 75.2.0-1 [731 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20241024 [109 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.1-1 [1974 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.1-1 [740 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.12.7-1 [1052 B] Fetched 34.0 MB in 1s (38.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:amd64. (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 ... 19965 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.8-1_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.8-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.8-1_amd64.deb ... Unpacking python3.12-minimal (3.12.8-1) ... Setting up libpython3.12-minimal:amd64 (3.12.8-1) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.8-1) ... Selecting previously unselected package python3-minimal. (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 ... 20285 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_amd64.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-4_all.deb ... Unpacking tzdata (2024b-4) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../05-libcom-err2_1.47.2~rc1-2_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2~rc1-2) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../14-libreadline8t64_8.2-5_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.8-1_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.8-1) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.8-1_amd64.deb ... Unpacking python3.12 (3.12.8-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... Selecting previously unselected package python3. (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 ... 21348 files and directories currently installed.) Preparing to unpack .../00-python3_3.12.7-1_amd64.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../01-libpython3.13-minimal_3.13.1-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.1-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../02-python3.13-minimal_3.13.1-1_amd64.deb ... Unpacking python3.13-minimal (3.13.1-1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../03-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../04-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 .../05-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../06-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. 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Setting up libdebhelper-perl (13.20) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:amd64 (1.47.2~rc1-2) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up tzdata (2024b-4) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Dec 10 20:04:12 UTC 2024. Universal Time is now: Tue Dec 10 20:04:12 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libpython3.13-minimal:amd64 (3.13.1-1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-2) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... 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 python3.13-minimal (3.13.1-1) ... Setting up netbase (6.4) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up readline-common (8.2-5) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-6) ... Setting up libpython3.13-stdlib:amd64 (3.13.1-1) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up python3.13 (3.13.1-1) ... 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 libnsl2:amd64 (1.3.0-3+b3) ... Setting up libpython3.12-stdlib:amd64 (3.12.8-1) ... Setting up python3.12 (3.12.8-1) ... Setting up debhelper (13.20) ... Setting up libpython3-stdlib:amd64 (3.12.7-1) ... Setting up python3 (3.12.7-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-typeguard (4.4.1-1) ... Setting up python3-all (3.12.7-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-pkg-resources (75.2.0-1) ... Setting up python3-setuptools (75.2.0-1) ... Setting up dh-python (6.20241024) ... Processing triggers for libc-bin (2.40-4) ... 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/pbsuite-15.8.24+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 > ../pbsuite_15.8.24+dfsg-8_source.changes dpkg-buildpackage: info: source package pbsuite dpkg-buildpackage: info: source version 15.8.24+dfsg-8 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 debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/pbsuite-15.8.24+dfsg' dh_auto_clean find -name "*.pyc" -delete make[1]: Leaving directory '/build/reproducible-path/pbsuite-15.8.24+dfsg' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/pbsuite-15.8.24+dfsg' dh_auto_build python3 -m compileall pbsuite Listing 'pbsuite'... Compiling 'pbsuite/__init__.py'... Listing 'pbsuite/banana'... Compiling 'pbsuite/banana/Banana.py'... Compiling 'pbsuite/banana/MakeOverlapTable.py'... Compiling 'pbsuite/banana/MakeReciprocal.py'... Compiling 'pbsuite/banana/OLCAssembly.py'... Compiling 'pbsuite/banana/Polish.py'... Compiling 'pbsuite/banana/SeqAsm.py'... Compiling 'pbsuite/banana/__init__.py'... Compiling 'pbsuite/banana/chunkyBlasr.py'... Listing 'pbsuite/honey'... Compiling 'pbsuite/honey/ComplexResolver.py'... Compiling 'pbsuite/honey/Force.py'... Compiling 'pbsuite/honey/HSpots.py'... Compiling 'pbsuite/honey/Honey.py'... Compiling 'pbsuite/honey/SVMachines.py'... Compiling 'pbsuite/honey/TGraf.py'... Compiling 'pbsuite/honey/Valid.py'... Compiling 'pbsuite/honey/__init__.py'... Compiling 'pbsuite/honey/bakH.py'... Compiling 'pbsuite/honey/bampie.py'... Compiling 'pbsuite/honey/massivePhrap.py'... Compiling 'pbsuite/honey/realign.py'... Compiling 'pbsuite/honey/recallSpots.py'... Compiling 'pbsuite/honey/spotH5Merge.py'... Compiling 'pbsuite/honey/spotH5dump.py'... Compiling 'pbsuite/honey/spotToBed.py'... Compiling 'pbsuite/honey/spotToVCF.py'... Listing 'pbsuite/honey/svm'... Listing 'pbsuite/honey/svm/ecoli_jul1.svm'... Listing 'pbsuite/honey/svm/ecoli_jul12.svm'... Listing 'pbsuite/jelly'... Compiling 'pbsuite/jelly/Assembly.py'... Compiling 'pbsuite/jelly/Collection.py'... Compiling 'pbsuite/jelly/Extraction.py'... Compiling 'pbsuite/jelly/GetSubs.py'... Compiling 'pbsuite/jelly/Jelly.py'... Compiling 'pbsuite/jelly/QFix.py'... Compiling 'pbsuite/jelly/Setup.py'... Compiling 'pbsuite/jelly/Stages.py'... Compiling 'pbsuite/jelly/Support.py'... Compiling 'pbsuite/jelly/__init__.py'... Compiling 'pbsuite/jelly/m4pie.py'... Listing 'pbsuite/utils'... Compiling 'pbsuite/utils/BamStat.py'... Compiling 'pbsuite/utils/BedIO.py'... Compiling 'pbsuite/utils/CommandRunner.py'... Compiling 'pbsuite/utils/FileHandlers.py'... Compiling 'pbsuite/utils/VCFIO.py'... Compiling 'pbsuite/utils/__init__.py'... Compiling 'pbsuite/utils/bamToFastq.py'... Compiling 'pbsuite/utils/blasrToBed.py'... Compiling 'pbsuite/utils/fakeQuals.py'... Compiling 'pbsuite/utils/fastqDivide.py'... Compiling 'pbsuite/utils/fastqSplit.py'... Compiling 'pbsuite/utils/jellyoutputrename.py'... Compiling 'pbsuite/utils/longCCSCombine.py'... Compiling 'pbsuite/utils/mapStats.py'... Compiling 'pbsuite/utils/mergeFaQu.py'... Compiling 'pbsuite/utils/quickN50.py'... Compiling 'pbsuite/utils/readSummary.py'... Compiling 'pbsuite/utils/setupLogging.py'... Compiling 'pbsuite/utils/summarizeAssembly.py'... Listing 'pbsuite/utils/vcfTemplates'... Compiling 'pbsuite/utils/vcfTemplates/spotToVCF.py'... make[1]: Leaving directory '/build/reproducible-path/pbsuite-15.8.24+dfsg' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/pbsuite-15.8.24+dfsg' dh_install -Xsam2bam -XsortChunks.sh make[1]: Leaving directory '/build/reproducible-path/pbsuite-15.8.24+dfsg' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_python3 dh_perl dh_link dh_strip_nondeterminism dh_compress debian/rules override_dh_fixperms make[1]: Entering directory '/build/reproducible-path/pbsuite-15.8.24+dfsg' dh_fixperms find debian/ -name Valid.py -exec chmod -x {} + make[1]: Leaving directory '/build/reproducible-path/pbsuite-15.8.24+dfsg' dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'pbjelly' in '../pbjelly_15.8.24+dfsg-8_all.deb'. dpkg-deb: building package 'pbsuite' in '../pbsuite_15.8.24+dfsg-8_all.deb'. dpkg-deb: building package 'python3-pbsuite-utils' in '../python3-pbsuite-utils_15.8.24+dfsg-8_all.deb'. dpkg-deb: building package 'pbhoney' in '../pbhoney_15.8.24+dfsg-8_all.deb'. dpkg-deb: building package 'python3-pbbanana' in '../python3-pbbanana_15.8.24+dfsg-8_all.deb'. dpkg-genbuildinfo --build=binary -O../pbsuite_15.8.24+dfsg-8_amd64.buildinfo dpkg-genchanges --build=binary -O../pbsuite_15.8.24+dfsg-8_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/3277115 and its subdirectories I: Current time: Tue Dec 10 08:04:46 -12 2024 I: pbuilder-time-stamp: 1733861086 Tue Dec 10 20:04:47 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Tue Dec 10 20:04:47 UTC 2024 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Tue Dec 10 20:06:14 UTC 2024 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Tue Dec 10 20:06:14 UTC 2024 I: pbsuite_15.8.24+dfsg-8_amd64.changes: Format: 1.8 Date: Mon, 09 Dec 2024 20:44:30 +0100 Source: pbsuite Binary: pbhoney pbjelly pbsuite python3-pbbanana python3-pbsuite-utils Architecture: all Version: 15.8.24+dfsg-8 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: pbhoney - genomic structural variation discovery pbjelly - genome assembly upgrading tool pbsuite - software for Pacific Biosciences sequencing data python3-pbbanana - additional utilities for the pbsuite python3-pbsuite-utils - software for Pacific Biosciences sequencing data -- Python utilit Closes: 1085772 Changes: pbsuite (15.8.24+dfsg-8) unstable; urgency=medium . * Team upload. * Fix Python3.12 string syntax Closes: #1085772 * Standards-Version: 4.7.0 (routine-update) * Build-Depends: s/dh-python/dh-sequence-python3/ (routine-update) * No tab in license text (routine-update) * Replace use of deprecated $ADTTMP with $AUTOPKGTEST_TMP. * autopkgtest: - rename script to run-unit-test and install it as user example - replace needs-recommends by recommended pbdagcon - use default run-unit-test template Checksums-Sha1: 5dfa62436f0117d02c48dc4c127576778c287f4f 1056664 pbhoney_15.8.24+dfsg-8_all.deb d25bf0130bbd3188c07ebd4f42ffae1acf19693c 969768 pbjelly_15.8.24+dfsg-8_all.deb f2089974c0a56f3ed4e79b40a2e78bbaa8305485 5460 pbsuite_15.8.24+dfsg-8_all.deb 9c86319a122d7fe05898198b80c42d50f381fc0f 7181 pbsuite_15.8.24+dfsg-8_amd64.buildinfo 347120b1bb9ee6e12df4fa45c8f75309e56991e5 20084 python3-pbbanana_15.8.24+dfsg-8_all.deb 6bfe8fcabc8c39467dd68add076d84dddac0e402 508636 python3-pbsuite-utils_15.8.24+dfsg-8_all.deb Checksums-Sha256: 4635dd1f5e324c636b873fbce1bdc892092cfd99b5caa8384eb248a7e74010a9 1056664 pbhoney_15.8.24+dfsg-8_all.deb 7235beadf898b71c08df0d1495fc40b69c839bc084eb302014c2086d9ca1f8c3 969768 pbjelly_15.8.24+dfsg-8_all.deb bdb1a2a258f39e69531b7d13dfe4e377d5a682a32db8eb11e57862c2fce4ede7 5460 pbsuite_15.8.24+dfsg-8_all.deb ef79acb8aeba396779b08756c9124320be423e27a5fad2c4ffb40148588dfbfc 7181 pbsuite_15.8.24+dfsg-8_amd64.buildinfo 676d38b06bee5007cdd1cbcb26c2b4ab0cc52e097159608b9e4cd646825b9a19 20084 python3-pbbanana_15.8.24+dfsg-8_all.deb 367d5f5415b5426c975d83423db2cd8418484ca87d67059c7400ce6371e6d40b 508636 python3-pbsuite-utils_15.8.24+dfsg-8_all.deb Files: c2b7ef2710b6e4a5d708b2191ae69641 1056664 science optional pbhoney_15.8.24+dfsg-8_all.deb 67e2749d64e358dde73506c41b054a2c 969768 science optional pbjelly_15.8.24+dfsg-8_all.deb b4d46bea0f238846ed52e987e9bbbec9 5460 metapackages optional pbsuite_15.8.24+dfsg-8_all.deb 2b435be954c0dbaf752c9fd751f8d965 7181 science optional pbsuite_15.8.24+dfsg-8_amd64.buildinfo 6ad7010f206271106371451b382cd02d 20084 python optional python3-pbbanana_15.8.24+dfsg-8_all.deb 5042a31f7fe0668a78a686b98906c935 508636 python optional python3-pbsuite-utils_15.8.24+dfsg-8_all.deb Tue Dec 10 20:06:15 UTC 2024 I: diffoscope 284 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_23-41094.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.VVxqOH3U/pbsuite_15.8.24+dfsg-8.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.VVxqOH3U/pbsuite_15.8.24+dfsg-8.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.VVxqOH3U/pbsuite_15.8.24+dfsg-8.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.VVxqOH3U/b1/pbsuite_15.8.24+dfsg-8_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.VVxqOH3U/b2/pbsuite_15.8.24+dfsg-8_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: 0.365s) 0.365s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.040s) 0.040s 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: 682ms CPU time consumed: 682ms Tue Dec 10 20:06:16 UTC 2024 I: diffoscope 284 found no differences in the changes files, and a .buildinfo file also exists. Tue Dec 10 20:06:16 UTC 2024 I: pbsuite from unstable built successfully and reproducibly on amd64. Tue Dec 10 20:06:17 UTC 2024 I: Submitting .buildinfo files to external archives: Tue Dec 10 20:06:17 UTC 2024 I: Submitting 8.0K b1/pbsuite_15.8.24+dfsg-8_amd64.buildinfo.asc Tue Dec 10 20:06:18 UTC 2024 I: Submitting 8.0K b2/pbsuite_15.8.24+dfsg-8_amd64.buildinfo.asc Tue Dec 10 20:06:19 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Dec 10 20:06:19 UTC 2024 I: Done submitting .buildinfo files. Tue Dec 10 20:06:19 UTC 2024 I: Removing signed pbsuite_15.8.24+dfsg-8_amd64.buildinfo.asc files: removed './b1/pbsuite_15.8.24+dfsg-8_amd64.buildinfo.asc' removed './b2/pbsuite_15.8.24+dfsg-8_amd64.buildinfo.asc'