Thu May 2 03:17:48 UTC 2024 I: starting to build metastudent-data/trixie/arm64 on jenkins on '2024-05-02 03:17' Thu May 2 03:17:48 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_3/33309/console.log Thu May 2 03:17:48 UTC 2024 I: Downloading source for trixie/metastudent-data=2.0.1-8 --2024-05-02 03:17:48-- 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% 196M=0s 2024-05-02 03:17:48 (196 MB/s) - ‘metastudent-data_2.0.1-8.dsc’ saved [2136/2136] Thu May 2 03:17:48 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----- Thu May 2 03:17:48 UTC 2024 I: Checking whether the package is not for us Thu May 2 03:17:48 UTC 2024 I: Starting 1st build on remote node codethink01-arm64.debian.net. Thu May 2 03:17:48 UTC 2024 I: Preparing to do remote build '1' on codethink01-arm64.debian.net. Thu May 2 03:20:24 UTC 2024 I: Deleting $TMPDIR on codethink01-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Jun 3 21:40:56 -12 2025 I: pbuilder-time-stamp: 1749030056 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/2041024/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='0230f2a7f02b439aa56b304ba96265b5' 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='2041024' 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.81WfhbYe/pbuilderrc_Sl2V --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.81WfhbYe/b1 --logfile b1/build.log metastudent-data_2.0.1-8.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink01-arm64 6.1.0-20-cloud-arm64 #1 SMP Debian 6.1.85-1 (2024-04-11) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 26 17:47 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2041024/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), 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 ... 19915 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} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libpopt0{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} rsync{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, 32 newly installed, 0 to remove and 0 not upgraded. Need to get 19.1 MB of archives. After unpacking 77.0 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: ncbi-blast+-legacy but it is not installable or blast2 which is a virtual package and is not provided by any available package The following actions will resolve these dependencies: Remove the following packages: 1) libdb5.3 [5.3.28+dfsg2-4+b1 (now)] 2) libssl3 [3.1.5-1 (now)] Install the following packages: 3) libdb5.3t64 [5.3.28+dfsg2-7 (testing)] 4) libexpat1 [2.6.2-1 (testing)] 5) liblmdb0 [0.9.31-1+b1 (testing)] 6) libmbedcrypto7t64 [2.28.8-1 (testing)] 7) libmbedtls14t64 [2.28.8-1 (testing)] 8) libmbedx509-1t64 [2.28.8-1 (testing)] 9) libpython3-stdlib [3.11.8-1 (testing)] 10) libpython3.11-minimal [3.11.9-1 (testing)] 11) libpython3.11-stdlib [3.11.9-1 (testing)] 12) libreadline8t64 [8.2-4 (testing)] 13) libssl3t64 [3.2.1-3 (testing)] 14) media-types [10.1.0 (testing)] 15) ncbi-blast+ [2.12.0+ds-4+b1 (testing)] 16) ncbi-blast+-legacy [2.12.0+ds-4 (testing)] 17) ncbi-data [6.1.20170106+dfsg1-10 (testing)] 18) netbase [6.4 (testing)] 19) python3 [3.11.8-1 (testing)] 20) python3-minimal [3.11.8-1 (testing)] 21) python3.11 [3.11.9-1 (testing)] 22) python3.11-minimal [3.11.9-1 (testing)] 23) readline-common [8.2-4 (testing)] 24) tzdata [2024a-3 (testing)] 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} libdb5.3t64{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libicu72{a} liblmdb0{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto7t64{a} libmbedtls14t64{a} libmbedx509-1t64{a} libpipeline1{a} libpopt0{a} libpython3-stdlib{a} libpython3.11-minimal{a} libpython3.11-stdlib{a} libreadline8t64{a} libssl3t64{a} libsub-override-perl{a} libtool{a} libuchardet0{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} python3.11{a} python3.11-minimal{a} readline-common{a} rsync{a} sensible-utils{a} tzdata{a} The following packages will be REMOVED: libdb5.3{a} libssl3{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 54 newly installed, 2 to remove and 0 not upgraded. Need to get 43.6 MB of archives. After unpacking 189 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 libdb5.3t64 arm64 5.3.28+dfsg2-7 [625 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libssl3t64 arm64 3.2.1-3 [2537 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 libpython3.11-minimal arm64 3.11.9-1 [813 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 libexpat1 arm64 2.6.2-1 [88.7 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 python3.11-minimal arm64 3.11.9-1 [1767 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 python3-minimal arm64 3.11.8-1 [26.3 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 media-types all 10.1.0 [26.9 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 netbase all 6.4 [12.8 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 tzdata all 2024a-3 [255 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 readline-common all 8.2-4 [69.3 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 libreadline8t64 arm64 8.2-4 [157 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 libpython3.11-stdlib arm64 3.11.9-1 [1775 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 python3.11 arm64 3.11.9-1 [602 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 libpython3-stdlib arm64 3.11.8-1 [9332 B] Get: 15 http://deb.debian.org/debian trixie/main arm64 python3 arm64 3.11.8-1 [27.4 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 libpopt0 arm64 1.19+dfsg-1+b1 [42.6 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 rsync arm64 3.2.7-1+b1 [400 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.22 [22.4 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.21-14+b1 [160 kB] Get: 23 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-3+b1 [1126 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.40-8 [93.0 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.12.0-3 [1385 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.71-3 [332 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.21-14 [496 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 libtool all 2.4.7-7 [517 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 libsub-override-perl all 0.10-1 [10.6 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 39 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 40 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 42 http://deb.debian.org/debian trixie/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 43 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.9.14+dfsg-1.3+b3 [624 kB] Get: 44 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.21-14+b1 [1249 kB] Get: 45 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 46 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 47 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.15.3 [901 kB] Get: 48 http://deb.debian.org/debian trixie/main arm64 liblmdb0 arm64 0.9.31-1+b1 [43.0 kB] Get: 49 http://deb.debian.org/debian trixie/main arm64 libmbedcrypto7t64 arm64 2.28.8-1 [269 kB] Get: 50 http://deb.debian.org/debian trixie/main arm64 libmbedx509-1t64 arm64 2.28.8-1 [131 kB] Get: 51 http://deb.debian.org/debian trixie/main arm64 libmbedtls14t64 arm64 2.28.8-1 [160 kB] Get: 52 http://deb.debian.org/debian trixie/main arm64 ncbi-data all 6.1.20170106+dfsg1-10 [3557 kB] Get: 53 http://deb.debian.org/debian trixie/main arm64 ncbi-blast+ arm64 2.12.0+ds-4+b1 [11.6 MB] Get: 54 http://deb.debian.org/debian trixie/main arm64 ncbi-blast+-legacy all 2.12.0+ds-4 [8956 B] Fetched 43.6 MB in 1s (45.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed dpkg: libdb5.3:arm64: dependency problems, but removing anyway as you requested: libperl5.38:arm64 depends on libdb5.3. libpam-modules:arm64 depends on libdb5.3. (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 ... 19915 files and directories currently installed.) Removing libdb5.3:arm64 (5.3.28+dfsg2-4+b1) ... Selecting previously unselected package libdb5.3t64:arm64. (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 ... 19908 files and directories currently installed.) Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-7_arm64.deb ... Unpacking libdb5.3t64:arm64 (5.3.28+dfsg2-7) ... Setting up libdb5.3t64:arm64 (5.3.28+dfsg2-7) ... dpkg: libssl3:arm64: dependency problems, but removing anyway as you requested: libkrb5-3:arm64 depends on libssl3 (>= 3.0.0). coreutils depends on libssl3 (>= 3.0.0). (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19914 files and directories currently installed.) Removing libssl3:arm64 (3.1.5-1) ... Selecting previously unselected package libssl3t64:arm64. (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 ... 19901 files and directories currently installed.) Preparing to unpack .../libssl3t64_3.2.1-3_arm64.deb ... Unpacking libssl3t64:arm64 (3.2.1-3) ... Setting up libssl3t64:arm64 (3.2.1-3) ... Selecting previously unselected package libpython3.11-minimal:arm64. (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 ... 19916 files and directories currently installed.) Preparing to unpack .../libpython3.11-minimal_3.11.9-1_arm64.deb ... Unpacking libpython3.11-minimal:arm64 (3.11.9-1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.6.2-1_arm64.deb ... Unpacking libexpat1:arm64 (2.6.2-1) ... Selecting previously unselected package python3.11-minimal. Preparing to unpack .../python3.11-minimal_3.11.9-1_arm64.deb ... Unpacking python3.11-minimal (3.11.9-1) ... Setting up libpython3.11-minimal:arm64 (3.11.9-1) ... Setting up libexpat1:arm64 (2.6.2-1) ... Setting up python3.11-minimal (3.11.9-1) ... 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 ... 20232 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.11.8-1_arm64.deb ... Unpacking python3-minimal (3.11.8-1) ... 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Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-4) ... Selecting previously unselected package libpython3.11-stdlib:arm64. Preparing to unpack .../6-libpython3.11-stdlib_3.11.9-1_arm64.deb ... Unpacking libpython3.11-stdlib:arm64 (3.11.9-1) ... Selecting previously unselected package python3.11. Preparing to unpack .../7-python3.11_3.11.9-1_arm64.deb ... Unpacking python3.11 (3.11.9-1) ... 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Selecting previously unselected package ncbi-blast+. Preparing to unpack .../38-ncbi-blast+_2.12.0+ds-4+b1_arm64.deb ... Unpacking ncbi-blast+ (2.12.0+ds-4+b1) ... Selecting previously unselected package ncbi-blast+-legacy. Preparing to unpack .../39-ncbi-blast+-legacy_2.12.0+ds-4_all.deb ... Unpacking ncbi-blast+-legacy (2.12.0+ds-4) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:arm64 (1.5.7-2) ... Setting up liblmdb0:arm64 (0.9.31-1+b1) ... Setting up ncbi-data (6.1.20170106+dfsg1-10) ... Setting up libicu72:arm64 (72.1-4+b1) ... Setting up bsdextrautils (2.40-8) ... Setting up libmbedcrypto7t64:arm64 (2.28.8-1) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libmagic1t64:arm64 (1:5.45-3) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:arm64 (0.191-1+b1) ... Setting up tzdata (2024a-3) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Jun 4 09:41:28 UTC 2025. Universal Time is now: Wed Jun 4 09:41:28 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:arm64 (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... Setting up netbase (6.4) ... Setting up readline-common (8.2-4) ... Setting up libxml2:arm64 (2.9.14+dfsg-1.3+b3) ... Setting up libpopt0:arm64 (1.19+dfsg-1+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 (1.13.1-1) ... Setting up gettext (0.21-14+b1) ... Setting up libmbedx509-1t64:arm64 (2.28.8-1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libreadline8t64:arm64 (8.2-4) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libmbedtls14t64:arm64 (2.28.8-1) ... Setting up groff-base (1.23.0-3+b1) ... Setting up rsync (3.2.7-1+b1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up po-debconf (1.0.21+nmu1) ... Setting up libpython3.11-stdlib:arm64 (3.11.9-1) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython3-stdlib:arm64 (3.11.8-1) ... Setting up python3.11 (3.11.9-1) ... Setting up debhelper (13.15.3) ... Setting up python3 (3.11.8-1) ... Setting up ncbi-blast+ (2.12.0+ds-4+b1) ... Setting up ncbi-blast+-legacy (2.12.0+ds-4) ... Processing triggers for libc-bin (2.37-18) ... 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 arm64 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=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile dh_auto_build make -j12 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: 06/04/2025 09:41:40 Building a new DB, current time: 06/04/2025 09:41:40 Building a new DB, current time: 06/04/2025 09:41:40 New DB name: /build/reproducible-path/metastudent-data-2.0.1/dataset_201401/MFO/goasp.fasta New DB name: /build/reproducible-path/metastudent-data-2.0.1/dataset_201401/BPO/goasp.fasta New DB name: /build/reproducible-path/metastudent-data-2.0.1/dataset_201401/CCO/goasp.fasta New DB title: dataset_201401/MFO/goasp.fasta New DB title: dataset_201401/CCO/goasp.fasta New DB title: dataset_201401/BPO/goasp.fasta Sequence type: Protein Sequence type: Protein Sequence type: Protein Keep MBits: T Maximum file size: 1000000000B Keep MBits: T Maximum file size: 1000000000B Keep MBits: T Maximum file size: 1000000000B Adding sequences from FASTA; added 392822 sequences in 9.4735 seconds. Adding sequences from FASTA; added 459503 sequences in 10.0858 seconds. Adding sequences from FASTA; added 486000 sequences in 10.7502 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 -j12 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_arm64.buildinfo dpkg-genchanges --build=binary -O../metastudent-data_2.0.1-8_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/2041024 and its subdirectories I: Current time: Tue Jun 3 21:43:14 -12 2025 I: pbuilder-time-stamp: 1749030194 Thu May 2 03:20:25 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Thu May 2 03:20:25 UTC 2024 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Thu May 2 03:23:06 UTC 2024 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Thu May 2 03:23:07 UTC 2024 I: metastudent-data_2.0.1-8_arm64.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: 9758811e951ceabcbf215f75f1c17d3c3af9b3f7 224712684 metastudent-data_2.0.1-8_all.deb 38ed04bb6d957682725b1938b83f93d9ffb758ec 5626 metastudent-data_2.0.1-8_arm64.buildinfo Checksums-Sha256: 778331dc8db8bd24d756dcdd04c2413d8f0bde228b479c70339d33d673e63e94 224712684 metastudent-data_2.0.1-8_all.deb aab61cf3fb46911bc53ee23c323abcb8ef4142c25b4997e6e68136114583a1e9 5626 metastudent-data_2.0.1-8_arm64.buildinfo Files: 588928f00bf81152955960fc798dc2ba 224712684 science optional metastudent-data_2.0.1-8_all.deb 9761555d9ff5c5785f472464cb8b39e2 5626 science optional metastudent-data_2.0.1-8_arm64.buildinfo Thu May 2 03:23:09 UTC 2024 I: diffoscope 265 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_3-33309.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.81WfhbYe/metastudent-data_2.0.1-8.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.81WfhbYe/metastudent-data_2.0.1-8.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.81WfhbYe/metastudent-data_2.0.1-8.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.81WfhbYe/b1/metastudent-data_2.0.1-8_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.81WfhbYe/b2/metastudent-data_2.0.1-8_arm64.changes ## close_archive (total time: 0.000s) 0.000s 2 calls diffoscope.comparators.deb.DebContainer 0.000s 4 calls diffoscope.comparators.tar.TarContainer 0.000s 6 calls diffoscope.comparators.xz.XzContainer 0.000s 2 calls diffoscope.comparators.deb.DebTarContainer ## command (total time: 89.870s) 56.394s 6 calls xz 19.918s 30 calls xxd 13.327s 8 calls diff 0.114s 1 call cmp 0.114s 1 call cmp (external) 0.001s 11 calls cmp (internal) ## compare_files (cumulative) (total time: 265.287s) 77.469s 1 call abc.DotChangesFile 77.416s 1 call abc.DebFile 76.157s 2 calls abc.XzFile 19.589s 1 call abc.DebDataTarFile 14.610s 3 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.039s 1 call abc.TarFile 0.008s 1 call abc.Md5sumsFile ## container_extract (total time: 61.751s) 56.395s 6 calls diffoscope.comparators.xz.XzContainer 4.164s 38 calls diffoscope.comparators.deb.DebTarContainer 1.188s 8 calls diffoscope.comparators.deb.DebContainer 0.004s 6 calls diffoscope.comparators.tar.TarContainer ## diff (total time: 1.108s) 1.108s 8 calls linediff ## has_same_content_as (total time: 0.117s) 0.114s 1 call abc.DebDataTarFile 0.001s 3 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.001s 2 calls abc.TextFile 0.000s 2 calls abc.Md5sumsFile 0.000s 1 call abc.DotChangesFile 0.000s 2 calls abc.XzFile 0.000s 1 call abc.TarFile 0.000s 1 call abc.DebFile ## main (total time: 81.489s) 81.488s 2 calls outputs 0.000s 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: 1.151s) 1.150s 1 call html 0.001s 1 call text 0.000s 1 call json ## recognizes (total time: 3.042s) 2.513s 12 calls diffoscope.comparators.binary.FilesystemFile 0.463s 1602 calls diffoscope.comparators.utils.libarchive.LibarchiveMember 0.039s 54 calls diffoscope.comparators.debian.DebControlMember 0.027s 260 calls diffoscope.comparators.utils.archive.ArchiveMember ## specialize (total time: 0.890s) 0.890s 13 calls specialize Finished with result: success Main processes terminated with: code=exited/status=1 Service runtime: 1min 21.854s CPU time consumed: 1min 25.887s Thu May 2 03:24:31 UTC 2024 W: Diffoscope claims the build is reproducible, but there is a diffoscope file. Please investigate. Thu May 2 03:24:31 UTC 2024 E: metastudent-data failed to build reproducibly in trixie on arm64. Thu May 2 03:24:32 UTC 2024 I: Submitting .buildinfo files to external archives: Thu May 2 03:24:32 UTC 2024 I: Submitting 8.0K b1/metastudent-data_2.0.1-8_arm64.buildinfo.asc Thu May 2 03:24:34 UTC 2024 I: Submitting 8.0K b2/metastudent-data_2.0.1-8_arm64.buildinfo.asc Thu May 2 03:24:35 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu May 2 03:24:35 UTC 2024 I: Done submitting .buildinfo files. Thu May 2 03:24:35 UTC 2024 I: Removing signed metastudent-data_2.0.1-8_arm64.buildinfo.asc files: removed './b1/metastudent-data_2.0.1-8_arm64.buildinfo.asc' removed './b2/metastudent-data_2.0.1-8_arm64.buildinfo.asc'