Fri Nov 8 05:52:04 UTC 2024 I: starting to build metastudent-data/trixie/armhf on jenkins on '2024-11-08 05:51' Fri Nov 8 05:52:04 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_7/5209/console.log Fri Nov 8 05:52:04 UTC 2024 I: Downloading source for trixie/metastudent-data=2.0.1-8 --2024-11-08 05:52:04-- http://deb.debian.org/debian/pool/main/m/metastudent-data/metastudent-data_2.0.1-8.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2136 (2.1K) [text/prs.lines.tag] Saving to: ‘metastudent-data_2.0.1-8.dsc’ 0K .. 100% 278M=0s 2024-11-08 05:52:04 (278 MB/s) - ‘metastudent-data_2.0.1-8.dsc’ saved [2136/2136] Fri Nov 8 05:52:04 UTC 2024 I: metastudent-data_2.0.1-8.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: metastudent-data Binary: metastudent-data Architecture: all Version: 2.0.1-8 Maintainer: Debian Med Packaging Team Uploaders: Tobias Hamp , Laszlo Kajan Homepage: https://rostlab.org/owiki/index.php/Metastudent Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/metastudent-data Vcs-Git: https://salsa.debian.org/med-team/metastudent-data.git Build-Depends: debhelper-compat (= 13) Build-Depends-Indep: ncbi-blast+-legacy | blast2, rsync Package-List: metastudent-data deb science optional arch=all Checksums-Sha1: 69e4fe22d32f87a3dc5da934252b693a91b0c999 152941188 metastudent-data_2.0.1.orig.tar.xz 349c672936c7c43399ac40db53335f6f45b75032 5444 metastudent-data_2.0.1-8.debian.tar.xz Checksums-Sha256: 8bec8a080711cba270256fdbc1035961a63ba0b5af3f6f75f67741e9b53a34e7 152941188 metastudent-data_2.0.1.orig.tar.xz a5fc40b447fd232e02437fb906c4edd1e4c82d30e1564f1f1356bf3054896f4e 5444 metastudent-data_2.0.1-8.debian.tar.xz Files: 981f92b555b8e2846423dd9c0a616ce5 152941188 metastudent-data_2.0.1.orig.tar.xz 271c755735951328425fcbb25f24a362 5444 metastudent-data_2.0.1-8.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmHpLH8RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHlPA//cKrZ6u0gBLvCe9CBPuQX/qOcaIp6HPj4 bQWPSo0qJhJfIi60ZdnEPCEZmoTcs1oOfHFM+bHzb6wkT+1D1eCk+4D3tcaVfqop yZqfSm+T7dNNI3hiKDRsGVKmKzo241zGsNeZn2mbmHNbzuqmhUSUPWRAnQmcbW8S NRL2gT4wz4cmJSK/NVJUHjQBunOEgt32msHPgC40HNmVW+vJ/qenFb7U8TcYxSaV MRrhboI5L8liMaH2c8F5+WkLqQRMqny3ffy1UnwqWPwLi8OmLXM1TwsBkNVC0N0T gltPOKFmWR+0Kq/SFLueesdwM1c2OZWCLVO5DNba88Aq23THWuxatzc87xwsazKH kJIz+B+pyez+Y9e+Y6dKJWInoaJ64z8nIF0i1YfB1Vx838YoMBCBQ2wzP3o5s3qb 44Fzmunm1YcleNmDRJpzV92DUL/nPIbgYOpYbr3c1aFNqotr1iEb3KBsebA7jKQ2 RgkZYjDfANaIiFntMIZhTKcAox1T5+0XsQrCcFmjO0r4MNDwaQgD0Q1ieq7dat7p lJmOvbV9PVs23yshCQPAua5PKeIoyimoS5EKEUzD9Y0pyMeTKYDoQPicwpcTTjrz XTnm5Ua0MTPxAalRr947rm8pCvILze6M7GAu78TxcxpPEaJpAldnsytPZJ79slHB q319yl1MyT8= =9SXt -----END PGP SIGNATURE----- Fri Nov 8 05:52:04 UTC 2024 I: Checking whether the package is not for us Fri Nov 8 05:52:04 UTC 2024 I: Starting 1st build on remote node virt64b-armhf-rb.debian.net. Fri Nov 8 05:52:04 UTC 2024 I: Preparing to do remote build '1' on virt64b-armhf-rb.debian.net. Fri Nov 8 06:16:40 UTC 2024 I: Deleting $TMPDIR on virt64b-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Nov 7 17:52:14 -12 2024 I: pbuilder-time-stamp: 1731045134 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [metastudent-data_2.0.1-8.dsc] I: copying [./metastudent-data_2.0.1.orig.tar.xz] I: copying [./metastudent-data_2.0.1-8.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Jan 20 09:33:51 2022 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./metastudent-data_2.0.1-8.dsc: no acceptable signature found dpkg-source: info: extracting metastudent-data in metastudent-data-2.0.1 dpkg-source: info: unpacking metastudent-data_2.0.1.orig.tar.xz dpkg-source: info: unpacking metastudent-data_2.0.1-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 01_formatdb_fix_prot_dbtype.patch dpkg-source: info: applying use_blastdb_format_4.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/28881/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='521367acf4c0405d97b9b625f4c37db2' 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='28881' 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.X7il8Stb/pbuilderrc_mEQx --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.X7il8Stb/b1 --logfile b1/build.log metastudent-data_2.0.1-8.dsc' SUDO_GID='113' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt64b 6.1.0-26-arm64 #1 SMP Debian 6.1.112-1 (2024-09-30) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/28881/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: armhf Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), ncbi-blast+-legacy | blast2, rsync dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19690 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on ncbi-blast+-legacy | blast2; however: Package ncbi-blast+-legacy is not installed. Package blast2 is not installed. pbuilder-satisfydepends-dummy depends on rsync; however: Package rsync 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} 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} liblmdb0{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto7t64{a} libmbedtls14t64{a} libmbedx509-1t64{a} libnghttp2-14{a} libnsl2{a} libpipeline1{a} libpopt0{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml2{a} m4{a} man-db{a} media-types{a} ncbi-blast+{a} ncbi-blast+-legacy{a} ncbi-data{a} netbase{a} po-debconf{a} python3{a} python3-minimal{a} python3.12{a} python3.12-minimal{a} readline-common{a} rsync{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, 62 newly installed, 0 to remove and 0 not upgraded. Need to get 43.6 MB of archives. After unpacking 170 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main armhf libpython3.12-minimal armhf 3.12.6-1 [800 kB] Get: 2 http://deb.debian.org/debian trixie/main armhf libexpat1 armhf 2.6.3-2 [83.1 kB] Get: 3 http://deb.debian.org/debian trixie/main armhf python3.12-minimal armhf 3.12.6-1 [1812 kB] Get: 4 http://deb.debian.org/debian trixie/main armhf python3-minimal armhf 3.12.6-1 [26.7 kB] Get: 5 http://deb.debian.org/debian trixie/main armhf media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main armhf netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main armhf tzdata all 2024a-4 [255 kB] Get: 8 http://deb.debian.org/debian trixie/main armhf libkrb5support0 armhf 1.21.3-3 [30.0 kB] Get: 9 http://deb.debian.org/debian trixie/main armhf libcom-err2 armhf 1.47.1-1+b1 [22.3 kB] Get: 10 http://deb.debian.org/debian trixie/main armhf libk5crypto3 armhf 1.21.3-3 [75.8 kB] Get: 11 http://deb.debian.org/debian trixie/main armhf libkeyutils1 armhf 1.6.3-4 [8096 B] Get: 12 http://deb.debian.org/debian trixie/main armhf libkrb5-3 armhf 1.21.3-3 [283 kB] Get: 13 http://deb.debian.org/debian trixie/main armhf libgssapi-krb5-2 armhf 1.21.3-3 [114 kB] Get: 14 http://deb.debian.org/debian trixie/main armhf libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian trixie/main armhf libtirpc3t64 armhf 1.3.4+ds-1.3+b1 [71.3 kB] Get: 16 http://deb.debian.org/debian trixie/main armhf libnsl2 armhf 1.3.0-3+b3 [35.0 kB] Get: 17 http://deb.debian.org/debian trixie/main armhf readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian trixie/main armhf libreadline8t64 armhf 8.2-5 [146 kB] Get: 19 http://deb.debian.org/debian trixie/main armhf libpython3.12-stdlib armhf 3.12.6-1 [1817 kB] Get: 20 http://deb.debian.org/debian trixie/main armhf python3.12 armhf 3.12.6-1 [669 kB] Get: 21 http://deb.debian.org/debian trixie/main armhf libpython3-stdlib armhf 3.12.6-1 [9692 B] Get: 22 http://deb.debian.org/debian trixie/main armhf python3 armhf 3.12.6-1 [27.8 kB] Get: 23 http://deb.debian.org/debian trixie/main armhf libpopt0 armhf 1.19+dfsg-2 [40.7 kB] Get: 24 http://deb.debian.org/debian trixie/main armhf rsync armhf 3.3.0-1 [398 kB] Get: 25 http://deb.debian.org/debian trixie/main armhf sensible-utils all 0.0.24 [24.8 kB] Get: 26 http://deb.debian.org/debian trixie/main armhf libmagic-mgc armhf 1:5.45-3+b1 [314 kB] Get: 27 http://deb.debian.org/debian trixie/main armhf libmagic1t64 armhf 1:5.45-3+b1 [98.5 kB] Get: 28 http://deb.debian.org/debian trixie/main armhf file armhf 1:5.45-3+b1 [42.3 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf gettext-base armhf 0.22.5-2 [195 kB] Get: 30 http://deb.debian.org/debian trixie/main armhf libuchardet0 armhf 0.0.8-1+b2 [65.6 kB] Get: 31 http://deb.debian.org/debian trixie/main armhf groff-base armhf 1.23.0-5 [1091 kB] Get: 32 http://deb.debian.org/debian trixie/main armhf bsdextrautils armhf 2.40.2-9 [88.8 kB] Get: 33 http://deb.debian.org/debian trixie/main armhf libpipeline1 armhf 1.5.8-1 [35.0 kB] Get: 34 http://deb.debian.org/debian trixie/main armhf man-db armhf 2.13.0-1 [1382 kB] Get: 35 http://deb.debian.org/debian trixie/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 36 http://deb.debian.org/debian trixie/main armhf autoconf all 2.72-3 [493 kB] Get: 37 http://deb.debian.org/debian trixie/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 38 http://deb.debian.org/debian trixie/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 39 http://deb.debian.org/debian trixie/main armhf autopoint all 0.22.5-2 [723 kB] Get: 40 http://deb.debian.org/debian trixie/main armhf libdebhelper-perl all 13.20 [89.7 kB] Get: 41 http://deb.debian.org/debian trixie/main armhf libtool all 2.4.7-8 [517 kB] Get: 42 http://deb.debian.org/debian trixie/main armhf dh-autoreconf all 20 [17.1 kB] Get: 43 http://deb.debian.org/debian trixie/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 44 http://deb.debian.org/debian trixie/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 45 http://deb.debian.org/debian trixie/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 46 http://deb.debian.org/debian trixie/main armhf libelf1t64 armhf 0.192-4 [184 kB] Get: 47 http://deb.debian.org/debian trixie/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 48 http://deb.debian.org/debian trixie/main armhf libicu72 armhf 72.1-5+b1 [9088 kB] Get: 49 http://deb.debian.org/debian trixie/main armhf libxml2 armhf 2.12.7+dfsg+really2.9.14-0.1 [604 kB] Get: 50 http://deb.debian.org/debian trixie/main armhf gettext armhf 0.22.5-2 [1485 kB] Get: 51 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 52 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 53 http://deb.debian.org/debian trixie/main armhf debhelper all 13.20 [915 kB] Get: 54 http://deb.debian.org/debian trixie/main armhf liblmdb0 armhf 0.9.31-1+b2 [38.1 kB] Get: 55 http://deb.debian.org/debian trixie/main armhf libmbedcrypto7t64 armhf 2.28.8-1 [251 kB] Get: 56 http://deb.debian.org/debian trixie/main armhf libmbedx509-1t64 armhf 2.28.8-1 [127 kB] Get: 57 http://deb.debian.org/debian trixie/main armhf libmbedtls14t64 armhf 2.28.8-1 [158 kB] Get: 58 http://deb.debian.org/debian trixie/main armhf libnghttp2-14 armhf 1.64.0-1 [62.9 kB] Get: 59 http://deb.debian.org/debian trixie/main armhf libuv1t64 armhf 1.48.0-6 [134 kB] Get: 60 http://deb.debian.org/debian trixie/main armhf ncbi-data all 6.1.20170106+dfsg2-4 [3540 kB] Get: 61 http://deb.debian.org/debian trixie/main armhf ncbi-blast+ armhf 2.16.0+ds-6 [13.4 MB] Get: 62 http://deb.debian.org/debian trixie/main armhf ncbi-blast+-legacy all 2.16.0+ds-6 [10.4 kB] Fetched 43.6 MB in 1s (40.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:armhf. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19690 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.6-1_armhf.deb ... Unpacking libpython3.12-minimal:armhf (3.12.6-1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.6.3-2_armhf.deb ... Unpacking libexpat1:armhf (2.6.3-2) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.6-1_armhf.deb ... Unpacking python3.12-minimal (3.12.6-1) ... Setting up libpython3.12-minimal:armhf (3.12.6-1) ... Setting up libexpat1:armhf (2.6.3-2) ... Setting up python3.12-minimal (3.12.6-1) ... 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 ... 20010 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_armhf.deb ... Unpacking python3-minimal (3.12.6-1) ... 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_2024a-4_all.deb ... Unpacking tzdata (2024a-4) ... Selecting previously unselected package libkrb5support0:armhf. Preparing to unpack .../04-libkrb5support0_1.21.3-3_armhf.deb ... Unpacking libkrb5support0:armhf (1.21.3-3) ... Selecting previously unselected package libcom-err2:armhf. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_armhf.deb ... Unpacking libcom-err2:armhf (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:armhf. Preparing to unpack .../06-libk5crypto3_1.21.3-3_armhf.deb ... Unpacking libk5crypto3:armhf (1.21.3-3) ... Selecting previously unselected package libkeyutils1:armhf. Preparing to unpack .../07-libkeyutils1_1.6.3-4_armhf.deb ... Unpacking libkeyutils1:armhf (1.6.3-4) ... Selecting previously unselected package libkrb5-3:armhf. Preparing to unpack .../08-libkrb5-3_1.21.3-3_armhf.deb ... Unpacking libkrb5-3:armhf (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:armhf. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_armhf.deb ... Unpacking libgssapi-krb5-2:armhf (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:armhf. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3 to /lib/arm-linux-gnueabihf/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0 to /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:armhf (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:armhf. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_armhf.deb ... Unpacking libnsl2:armhf (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:armhf. Preparing to unpack .../14-libreadline8t64_8.2-5_armhf.deb ... Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:armhf (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:armhf. Preparing to unpack .../15-libpython3.12-stdlib_3.12.6-1_armhf.deb ... Unpacking libpython3.12-stdlib:armhf (3.12.6-1) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.6-1_armhf.deb ... Unpacking python3.12 (3.12.6-1) ... 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Unpacking libuv1t64:armhf (1.48.0-6) ... Selecting previously unselected package ncbi-data. Preparing to unpack .../38-ncbi-data_6.1.20170106+dfsg2-4_all.deb ... Unpacking ncbi-data (6.1.20170106+dfsg2-4) ... Selecting previously unselected package ncbi-blast+. Preparing to unpack .../39-ncbi-blast+_2.16.0+ds-6_armhf.deb ... Unpacking ncbi-blast+ (2.16.0+ds-6) ... Selecting previously unselected package ncbi-blast+-legacy. Preparing to unpack .../40-ncbi-blast+-legacy_2.16.0+ds-6_all.deb ... Unpacking ncbi-blast+-legacy (2.16.0+ds-6) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:armhf (1.5.8-1) ... Setting up liblmdb0:armhf (0.9.31-1+b2) ... Setting up ncbi-data (6.1.20170106+dfsg2-4) ... Setting up libkeyutils1:armhf (1.6.3-4) ... Setting up libicu72:armhf (72.1-5+b1) ... Setting up bsdextrautils (2.40.2-9) ... Setting up libmbedcrypto7t64:armhf (2.28.8-1) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libdebhelper-perl (13.20) ... Setting up libuv1t64:armhf (1.48.0-6) ... Setting up libmagic1t64:armhf (1:5.45-3+b1) ... Setting up libnghttp2-14:armhf (1.64.0-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:armhf (1.47.1-1+b1) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:armhf (0.192-4) ... Setting up libkrb5support0:armhf (1.21.3-3) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Fri Nov 8 05:53:34 UTC 2024. Universal Time is now: Fri Nov 8 05:53:34 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-2) ... Setting up libk5crypto3:armhf (1.21.3-3) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b2) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:armhf (0.0.8-1+b2) ... Setting up netbase (6.4) ... Setting up libkrb5-3:armhf (1.21.3-3) ... Setting up readline-common (8.2-5) ... Setting up libxml2:armhf (2.12.7+dfsg+really2.9.14-0.1) ... Setting up libpopt0:armhf (1.19+dfsg-2) ... 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 libmbedx509-1t64:armhf (2.28.8-1) ... 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:armhf (1.21.3-3) ... Setting up libreadline8t64:armhf (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libmbedtls14t64:armhf (2.28.8-1) ... Setting up groff-base (1.23.0-5) ... Setting up rsync (3.3.0-1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libtirpc3t64:armhf (1.3.4+ds-1.3+b1) ... 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:armhf (1.3.0-3+b3) ... Setting up libpython3.12-stdlib:armhf (3.12.6-1) ... Setting up python3.12 (3.12.6-1) ... Setting up debhelper (13.20) ... Setting up libpython3-stdlib:armhf (3.12.6-1) ... Setting up python3 (3.12.6-1) ... Setting up ncbi-blast+ (2.16.0+ds-6) ... Setting up ncbi-blast+-legacy (2.16.0+ds-6) ... Processing triggers for libc-bin (2.40-3) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/metastudent-data-2.0.1/ && 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 > ../metastudent-data_2.0.1-8_source.changes dpkg-buildpackage: info: source package metastudent-data dpkg-buildpackage: info: source version 2.0.1-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf Makefile.am:4: warning: shell cat dataversion.txt: non-POSIX variable name Makefile.am:4: (probably a GNU make extension) Makefile.am:23: warning: dir $@: non-POSIX variable name Makefile.am:23: (probably a GNU make extension) dh_auto_configure ./configure --build=arm-linux-gnueabihf --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/arm-linux-gnueabihf --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 that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile dh_auto_build make -j3 make[1]: Entering directory '/build/reproducible-path/metastudent-data-2.0.1' mkdir -p dataset_201401/BPO/ && \ makeblastdb -dbtype prot -in "dataset_201401/BPO/goasp.fasta" -out "dataset_201401/BPO/goasp.fasta" -blastdb_version 4 mkdir -p dataset_201401/MFO/ && \ makeblastdb -dbtype prot -in "dataset_201401/MFO/goasp.fasta" -out "dataset_201401/MFO/goasp.fasta" -blastdb_version 4 mkdir -p dataset_201401/CCO/ && \ makeblastdb -dbtype prot -in "dataset_201401/CCO/goasp.fasta" -out "dataset_201401/CCO/goasp.fasta" -blastdb_version 4 Building a new DB, current time: 11/08/2024 05:54:01 New DB name: /build/reproducible-path/metastudent-data-2.0.1/dataset_201401/BPO/goasp.fasta New DB title: dataset_201401/BPO/goasp.fasta Sequence type: Protein Keep MBits: T Maximum file size: 3000000000B Building a new DB, current time: 11/08/2024 05:54:01 New DB name: /build/reproducible-path/metastudent-data-2.0.1/dataset_201401/CCO/goasp.fasta New DB title: dataset_201401/CCO/goasp.fasta Sequence type: Protein Keep MBits: T Maximum file size: 3000000000B Building a new DB, current time: 11/08/2024 05:54:01 New DB name: /build/reproducible-path/metastudent-data-2.0.1/dataset_201401/MFO/goasp.fasta New DB title: dataset_201401/MFO/goasp.fasta Sequence type: Protein Keep MBits: T Maximum file size: 3000000000B Adding sequences from FASTA; added 392822 sequences in 55.1529 seconds. Adding sequences from FASTA; added 459503 sequences in 66.9905 seconds. Adding sequences from FASTA; added 486000 sequences in 74.7037 seconds. make[1]: Leaving directory '/build/reproducible-path/metastudent-data-2.0.1' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/metastudent-data/ make -j3 install DESTDIR=/build/reproducible-path/metastudent-data-2.0.1/debian/metastudent-data AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/reproducible-path/metastudent-data-2.0.1' make[2]: Entering directory '/build/reproducible-path/metastudent-data-2.0.1' make[2]: Nothing to be done for 'install-exec-am'. mkdir -p "/build/reproducible-path/metastudent-data-2.0.1/debian/metastudent-data/usr/share/metastudent-data" && \ rsync -rt --include '*.txt' --include '*.dat' --include '*.phr' --include '*.pin' --include '*.psq' --exclude '*.*' "./dataset_201401" "/build/reproducible-path/metastudent-data-2.0.1/debian/metastudent-data/usr/share/metastudent-data/" && \ chmod -R a+rX "/build/reproducible-path/metastudent-data-2.0.1/debian/metastudent-data/usr/share/metastudent-data" && \ chmod -R u+rwX "/build/reproducible-path/metastudent-data-2.0.1/debian/metastudent-data/usr/share/metastudent-data" /usr/bin/mkdir -p '/build/reproducible-path/metastudent-data-2.0.1/debian/metastudent-data/usr/share/metastudent-data' /usr/bin/install -c -m 644 dataversion.txt '/build/reproducible-path/metastudent-data-2.0.1/debian/metastudent-data/usr/share/metastudent-data' make[2]: Leaving directory '/build/reproducible-path/metastudent-data-2.0.1' make[1]: Leaving directory '/build/reproducible-path/metastudent-data-2.0.1' dh_installdocs dh_installchangelogs dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'metastudent-data' in '../metastudent-data_2.0.1-8_all.deb'. dpkg-genbuildinfo --build=binary -O../metastudent-data_2.0.1-8_armhf.buildinfo dpkg-genchanges --build=binary -O../metastudent-data_2.0.1-8_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: 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/28881 and its subdirectories I: Current time: Thu Nov 7 18:08:32 -12 2024 I: pbuilder-time-stamp: 1731046112 Fri Nov 8 06:16:43 UTC 2024 I: 1st build successful. Starting 2nd build on remote node cbxi4a-armhf-rb.debian.net. Fri Nov 8 06:16:43 UTC 2024 I: Preparing to do remote build '2' on cbxi4a-armhf-rb.debian.net. Fri Nov 8 07:09:56 UTC 2024 I: Deleting $TMPDIR on cbxi4a-armhf-rb.debian.net. Fri Nov 8 07:09:59 UTC 2024 I: metastudent-data_2.0.1-8_armhf.changes: Format: 1.8 Date: Thu, 20 Jan 2022 10:14:54 +0100 Source: metastudent-data Binary: metastudent-data Architecture: all Version: 2.0.1-8 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: metastudent-data - predictor of Gene Ontology terms from protein sequence - data fil Changes: metastudent-data (2.0.1-8) unstable; urgency=medium . * Team upload. * Upstream download vanished * Standards-Version: 4.6.0 (routine-update) Checksums-Sha1: dc6a0babd9e409b90e8191d6c8c3821d00ca9fc0 224712772 metastudent-data_2.0.1-8_all.deb f88edaea2b53c9f1b867eb373eb0d287459119c2 5650 metastudent-data_2.0.1-8_armhf.buildinfo Checksums-Sha256: 846e7380c4a6fc40571d474d5a5cf7e180fd1f81c2ddce60489d7f39f802c095 224712772 metastudent-data_2.0.1-8_all.deb 0950fb50cdff5b9b171ac4acbebf34cfeb9aa1fb8f190216b4b120a098198486 5650 metastudent-data_2.0.1-8_armhf.buildinfo Files: 3bbeaaa4c691f5288f17e1d1059ab131 224712772 science optional metastudent-data_2.0.1-8_all.deb 04e7178e02ca03f55925b6afba1288c1 5650 science optional metastudent-data_2.0.1-8_armhf.buildinfo Fri Nov 8 07:10:00 UTC 2024 I: diffoscope 282 will be used to compare the two builds: Running as unit: rb-diffoscope-armhf_7-5209.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.X7il8Stb/metastudent-data_2.0.1-8.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.X7il8Stb/metastudent-data_2.0.1-8.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.X7il8Stb/metastudent-data_2.0.1-8.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.X7il8Stb/b1/metastudent-data_2.0.1-8_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.X7il8Stb/b2/metastudent-data_2.0.1-8_armhf.changes ## close_archive (total time: 0.000s) 0.000s 2 calls diffoscope.comparators.xz.XzContainer 0.000s 2 calls diffoscope.comparators.tar.TarContainer ## command (total time: 39.424s) 20.490s 30 calls xxd 13.830s 8 calls diff 4.902s 6 calls xz 0.100s 2 calls cmp 0.100s 2 calls cmp (external) 0.001s 11 calls cmp (internal) ## compare_files (cumulative) (total time: 113.108s) 26.169s 1 call abc.DotChangesFile 26.121s 1 call abc.DebFile 25.071s 2 calls abc.XzFile 20.036s 1 call abc.DebDataTarFile 15.679s 3 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.027s 1 call abc.TarFile 0.006s 1 call abc.Md5sumsFile ## container_extract (total time: 9.476s) 4.902s 6 calls diffoscope.comparators.xz.XzContainer 3.588s 38 calls diffoscope.comparators.deb.DebTarContainer 0.983s 8 calls diffoscope.comparators.deb.DebContainer 0.003s 6 calls diffoscope.comparators.tar.TarContainer ## diff (total time: 0.008s) 0.008s 5 calls linediff ## has_same_content_as (total time: 0.103s) 0.090s 1 call abc.DebDataTarFile 0.011s 2 calls abc.XzFile 0.001s 3 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.000s 2 calls abc.TextFile 0.000s 2 calls abc.Md5sumsFile 0.000s 1 call abc.DotChangesFile 0.000s 1 call abc.DebFile 0.000s 1 call abc.TarFile ## main (total time: 33.601s) 29.228s 2 calls outputs 4.373s 1 call cleanup ## open_archive (total time: 0.000s) 0.000s 6 calls diffoscope.comparators.xz.XzContainer 0.000s 4 calls diffoscope.comparators.tar.TarContainer 0.000s 2 calls diffoscope.comparators.deb.DebContainer 0.000s 2 calls diffoscope.comparators.deb.DebTarContainer ## output (total time: 0.041s) 0.040s 1 call html 0.001s 1 call text 0.000s 1 call json ## recognizes (total time: 3.147s) 2.652s 12 calls diffoscope.comparators.binary.FilesystemFile 0.425s 1614 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.038s 54 calls diffoscope.comparators.debian.DebControlMember 0.032s 260 calls diffoscope.comparators.utils.archive.ArchiveMember ## specialize (total time: 0.830s) 0.830s 13 calls specialize Finished with result: success Main processes terminated with: code=exited/status=1 Service runtime: 33.948s CPU time consumed: 1min 17.081s Fri Nov 8 07:10:35 UTC 2024 W: Diffoscope claims the build is reproducible, but there is a diffoscope file. Please investigate. Fri Nov 8 07:10:35 UTC 2024 E: metastudent-data failed to build reproducibly in trixie on armhf. Fri Nov 8 07:10:37 UTC 2024 I: Submitting .buildinfo files to external archives: Fri Nov 8 07:10:37 UTC 2024 I: Submitting 8.0K b1/metastudent-data_2.0.1-8_armhf.buildinfo.asc Fri Nov 8 07:10:38 UTC 2024 I: Submitting 8.0K b2/metastudent-data_2.0.1-8_armhf.buildinfo.asc Fri Nov 8 07:10:39 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri Nov 8 07:10:39 UTC 2024 I: Done submitting .buildinfo files. Fri Nov 8 07:10:39 UTC 2024 I: Removing signed metastudent-data_2.0.1-8_armhf.buildinfo.asc files: removed './b1/metastudent-data_2.0.1-8_armhf.buildinfo.asc' removed './b2/metastudent-data_2.0.1-8_armhf.buildinfo.asc'