sbuild (Debian sbuild) 0.91.9 (05 May 2026) on carme.larted.org.uk +==============================================================================+ | psortb 3.0.6+dfsg-5+b1 (amd64) Sat, 27 Jun 2026 03:08:08 +0000 | +==============================================================================+ Package: psortb Version: 3.0.6+dfsg-5+b1 Source Version: 3.0.6+dfsg-5 Distribution: perl-5.44 Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: any I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... +------------------------------------------------------------------------------+ | Chroot Setup Commands Sat, 27 Jun 2026 03:08:09 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup psortb_3.0.6+dfsg-5 perl-5.44 amd64 ---------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup psortb_3.0.6+dfsg-5 perl-5.44 amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: Setting up apt archive... +------------------------------------------------------------------------------+ | Update chroot Sat, 27 Jun 2026 03:08:09 +0000 | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.44 InRelease [3039 B] Get:1 file:/srv/reprepro perl-5.44 InRelease [3039 B] Get:2 file:/srv/reprepro perl-5.44/main amd64 Packages [430 kB] Get:3 http://deb.debian.org/debian unstable InRelease [189 kB] Get:4 http://deb.debian.org/debian sid InRelease [189 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 Packages.diff/Index [63.6 kB] Get:6 http://deb.debian.org/debian sid/main Sources.diff/Index [63.6 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 Packages T-2026-06-27-0200.40-F-2026-06-27-0200.40.pdiff [26.1 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 Packages T-2026-06-27-0200.40-F-2026-06-27-0200.40.pdiff [26.1 kB] Get:8 http://deb.debian.org/debian sid/main Sources T-2026-06-27-0200.40-F-2026-06-27-0200.40.pdiff [17.6 kB] Get:8 http://deb.debian.org/debian sid/main Sources T-2026-06-27-0200.40-F-2026-06-27-0200.40.pdiff [17.6 kB] Fetched 550 kB in 3s (216 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libldap2 libsystemd0 libudev1 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 605 kB/793 kB of archives. After this operation, 5120 B of additional disk space will be used. Get:1 file:/srv/reprepro perl-5.44/main amd64 libldap2 amd64 2.6.13+dfsg-1+b1 [188 kB] Get:2 http://deb.debian.org/debian unstable/main amd64 libsystemd0 amd64 261.1-1 [467 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 libudev1 amd64 261.1-1 [138 kB] Fetched 605 kB in 0s (9420 kB/s) (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 ... 14520 files and directories currently installed.) Preparing to unpack .../libsystemd0_261.1-1_amd64.deb ... Unpacking libsystemd0:amd64 (261.1-1) over (261-1) ... Setting up libsystemd0:amd64 (261.1-1) ... (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 ... 14520 files and directories currently installed.) Preparing to unpack .../libudev1_261.1-1_amd64.deb ... Unpacking libudev1:amd64 (261.1-1) over (261-1) ... Setting up libudev1:amd64 (261.1-1) ... (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 ... 14520 files and directories currently installed.) Preparing to unpack .../libldap2_2.6.13+dfsg-1+b1_amd64.deb ... Unpacking libldap2:amd64 (2.6.13+dfsg-1+b1) over (2.6.13+dfsg-1) ... Setting up libldap2:amd64 (2.6.13+dfsg-1+b1) ... Processing triggers for libc-bin (2.42-17) ... +------------------------------------------------------------------------------+ | Fetch source files Sat, 27 Jun 2026 03:08:14 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/psortb_3.0.6+dfsg-5.dsc exists in /srv/debomatic/incoming; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Sat, 27 Jun 2026 03:08:14 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libsvm-dev, bioperl, ncbi-blast+-legacy, libsquid-dev, libhmmer2-dev, libsvmloc-dev, libmodhmm-dev, perl-xs-dev, pkgconf, pftools, build-essential Filtered Build-Depends: debhelper-compat (= 13), libsvm-dev, bioperl, ncbi-blast+-legacy, libsquid-dev, libhmmer2-dev, libsvmloc-dev, libmodhmm-dev, perl-xs-dev, pkgconf, pftools, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/psortb-wfo2Lh/resolver-jBrXcq/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/build/psortb-wfo2Lh/resolver-jBrXcq/apt_archive ./ InRelease Get:2 copy:/build/psortb-wfo2Lh/resolver-jBrXcq/apt_archive ./ Release [609 B] Ign:3 copy:/build/psortb-wfo2Lh/resolver-jBrXcq/apt_archive ./ Release.gpg Get:4 copy:/build/psortb-wfo2Lh/resolver-jBrXcq/apt_archive ./ Sources [731 B] Get:5 copy:/build/psortb-wfo2Lh/resolver-jBrXcq/apt_archive ./ Packages [770 B] Fetched 2110 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following additional packages will be installed: autoconf automake autopoint autotools-dev bioperl bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian isa-support libalgorithm-diff-perl libarchive-zip-perl libbio-perl-perl libcapture-tiny-perl libclass-data-inheritable-perl libcrypt-dev libdata-stag-perl libdebhelper-perl libdevel-stacktrace-perl libelf1t64 libexception-class-perl libexpat1 libfile-slurp-perl libfile-stripnondeterminism-perl libgfortran5 libhmmer2-dev libio-string-perl liblmdb0 libmagic-mgc libmagic1t64 libmbedcrypto16 libmbedtls21 libmbedx509-7 libmodhmm-dev libmodhmm0 libncbi-vdb3 libnghttp2-14 libperl-dev libpipeline1 libpkgconf7 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libsquid-dev libsquid1t64 libsub-uplevel-perl libsvm-dev libsvm3 libsvmloc-dev libsvmloc0 libtest-deep-perl libtest-differences-perl libtest-exception-perl libtest-most-perl libtest-warn-perl libtext-diff-perl libtool libuchardet0 libuv1t64 libxml2-16 m4 man-db media-types ncbi-blast+ ncbi-blast+-legacy ncbi-data ncbi-vdb-data netbase pftools pkgconf pkgconf-bin po-debconf python3 python3-minimal python3.13 python3.13-minimal sensible-utils sse4.2-support tzdata Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff libxml-sax-expatxs-perl libbio-alignio-stockholm-perl biosquid libtool-doc gfortran | fortran95-compiler m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python3.13-venv python3.13-doc binfmt-support Recommended packages: bioperl-run perl-doc libhttp-message-perl libwww-perl libcache-cache-perl libbio-perl-run-perl libdbi-perl libapache-dbi-perl liburi-perl libxml-simple-perl libyaml-perl libace-perl liblist-moreutils-perl libxml-twig-perl libset-scalar-perl curl | wget | lynx libalgorithm-diff-xs-perl bioperl-run | libbio-perl-run-perl libalgorithm-munkres-perl libarray-compare-perl libbio-asn1-entrezgene-perl libclone-perl libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl libdbd-pg-perl libgraph-perl libgraphviz-perl libhtml-parser-perl libhtml-tableextract-perl libpostscript-perl libsoap-lite-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl libsvg-graph-perl libxml-dom-xpath-perl libxml-parser-perl libxml-sax-perl libxml-sax-writer-perl libxml-writer-perl libxml-libxml-perl libgd-perl libmldbm-perl libxml-libxslt-perl libxml-perl perl-tk libarchive-cpio-perl libltdl-dev libmail-sendmail-perl ca-certificates The following NEW packages will be installed: autoconf automake autopoint autotools-dev bioperl bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian isa-support libalgorithm-diff-perl libarchive-zip-perl libbio-perl-perl libcapture-tiny-perl libclass-data-inheritable-perl libcrypt-dev libdata-stag-perl libdebhelper-perl libdevel-stacktrace-perl libelf1t64 libexception-class-perl libexpat1 libfile-slurp-perl libfile-stripnondeterminism-perl libgfortran5 libhmmer2-dev libio-string-perl liblmdb0 libmagic-mgc libmagic1t64 libmbedcrypto16 libmbedtls21 libmbedx509-7 libmodhmm-dev libmodhmm0 libncbi-vdb3 libnghttp2-14 libperl-dev libpipeline1 libpkgconf7 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libsquid-dev libsquid1t64 libsub-uplevel-perl libsvm-dev libsvm3 libsvmloc-dev libsvmloc0 libtest-deep-perl libtest-differences-perl libtest-exception-perl libtest-most-perl libtest-warn-perl libtext-diff-perl libtool libuchardet0 libuv1t64 libxml2-16 m4 man-db media-types ncbi-blast+ ncbi-blast+-legacy ncbi-data ncbi-vdb-data netbase pftools pkgconf pkgconf-bin po-debconf python3 python3-minimal python3.13 python3.13-minimal sbuild-build-depends-main-dummy sensible-utils sse4.2-support tzdata 0 upgraded, 86 newly installed, 0 to remove and 0 not upgraded. Need to get 71.2 MB/72.4 MB of archives. After this operation, 262 MB of additional disk space will be used. Get:1 file:/srv/reprepro perl-5.44/main amd64 libperl-dev amd64 5.44.0~rc1-1 [1169 kB] Get:2 copy:/build/psortb-wfo2Lh/resolver-jBrXcq/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [928 B] Get:3 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.8.2-1 [121 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.14-1 [864 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.14-1 [2271 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.13.9-3+b1 [25.4 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 media-types all 14.0.0 [30.8 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 netbase all 6.5 [12.4 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 tzdata all 2026b-1 [260 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.14-1 [1982 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.14-1 [781 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.13.9-3+b1 [8348 B] Get:13 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.13.9-3+b1 [25.4 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 isa-support amd64 27+b1 [15.5 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 sse4.2-support amd64 27+b1 [3692 B] Get:16 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.47-4 [345 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.47-4 [111 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.47-4 [43.0 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 1.0-1 [332 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2+b2 [69.0 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.24.1-1 [1336 kB] Get:23 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.42.2-1 [100.0 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-3 [49.2 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get:26 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.21-1 [332 kB] Get:27 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.73-2 [516 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1+nmu1 [60.0 kB] Get:29 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-4 [877 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 autopoint all 1.0-1 [820 kB] Get:31 http://deb.debian.org/debian unstable/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get:32 http://deb.debian.org/debian unstable/main amd64 libdata-stag-perl all 0.14-4 [440 kB] Get:33 http://deb.debian.org/debian unstable/main amd64 libbio-perl-perl all 1.7.8-4 [2498 kB] Get:34 http://deb.debian.org/debian unstable/main amd64 libclass-data-inheritable-perl all 0.10-1 [8632 B] Get:35 http://deb.debian.org/debian unstable/main amd64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get:36 http://deb.debian.org/debian unstable/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get:37 http://deb.debian.org/debian unstable/main amd64 libtest-deep-perl all 1.205-1 [52.3 kB] Get:38 http://deb.debian.org/debian unstable/main amd64 libcapture-tiny-perl all 0.50-1 [24.6 kB] Get:39 http://deb.debian.org/debian unstable/main amd64 libalgorithm-diff-perl all 1.201-1 [43.3 kB] Get:40 http://deb.debian.org/debian unstable/main amd64 libtext-diff-perl all 1.45-2 [27.2 kB] Get:41 http://deb.debian.org/debian unstable/main amd64 libtest-differences-perl all 0.72-1 [17.7 kB] Get:42 http://deb.debian.org/debian unstable/main amd64 libsub-uplevel-perl all 0.2800-3 [14.0 kB] Get:43 http://deb.debian.org/debian unstable/main amd64 libtest-exception-perl all 0.43-3 [16.9 kB] Get:44 http://deb.debian.org/debian unstable/main amd64 libtest-warn-perl all 0.37-2 [14.5 kB] Get:45 http://deb.debian.org/debian unstable/main amd64 libtest-most-perl all 0.42-1 [23.9 kB] Get:46 http://deb.debian.org/debian unstable/main amd64 bioperl all 1.7.8-4 [231 kB] Get:47 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 14.2 [77.1 kB] Get:48 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-11 [539 kB] Get:49 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 22 [12.2 kB] Get:50 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:51 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.1-1 [17.1 kB] Get:52 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.1-1 [6020 B] Get:53 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.195-1 [58.1 kB] Get:54 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-4 [108 kB] Get:55 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.3+dfsg-1 [642 kB] Get:56 http://deb.debian.org/debian unstable/main amd64 gettext amd64 1.0-1 [2660 kB] Get:57 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:58 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.22 [216 kB] Get:59 http://deb.debian.org/debian unstable/main amd64 debhelper all 14.2 [933 kB] Get:60 http://deb.debian.org/debian unstable/main amd64 libcrypt-dev amd64 1:4.5.1-1+b1 [127 kB] Get:61 http://deb.debian.org/debian unstable/main amd64 libfile-slurp-perl all 9999.32-2.1 [26.5 kB] Get:62 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 16.1.0-2 [877 kB] Get:63 http://deb.debian.org/debian unstable/main amd64 libhmmer2-dev amd64 2.3.2+dfsg-12+b3 [98.0 kB] Get:64 http://deb.debian.org/debian unstable/main amd64 liblmdb0 amd64 0.9.31-1+b3 [46.1 kB] Get:65 http://deb.debian.org/debian unstable/main amd64 libmbedcrypto16 amd64 3.6.6-0.1 [365 kB] Get:66 http://deb.debian.org/debian unstable/main amd64 libmbedx509-7 amd64 3.6.6-0.1 [154 kB] Get:67 http://deb.debian.org/debian unstable/main amd64 libmbedtls21 amd64 3.6.6-0.1 [248 kB] Get:68 http://deb.debian.org/debian unstable/main amd64 libmodhmm0 amd64 1.0+dfsg-7+b2 [79.3 kB] Get:69 http://deb.debian.org/debian unstable/main amd64 libmodhmm-dev amd64 1.0+dfsg-7+b2 [79.4 kB] Get:70 http://deb.debian.org/debian unstable/main amd64 ncbi-vdb-data all 3.2.1+dfsg-2 [88.5 kB] Get:71 http://deb.debian.org/debian unstable/main amd64 libncbi-vdb3 amd64 3.2.1+dfsg-2+b1 [1180 kB] Get:72 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.69.0-1 [89.0 kB] Get:73 http://deb.debian.org/debian unstable/main amd64 libpkgconf7 amd64 2.5.1-4 [47.8 kB] Get:74 http://deb.debian.org/debian unstable/main amd64 libsquid1t64 amd64 1.9g+cvs20050121-16+b1 [77.5 kB] Get:75 http://deb.debian.org/debian unstable/main amd64 libsquid-dev amd64 1.9g+cvs20050121-16+b1 [145 kB] Get:76 http://deb.debian.org/debian unstable/main amd64 libsvm3 amd64 3.24+ds-6.1+b2 [42.0 kB] Get:77 http://deb.debian.org/debian unstable/main amd64 libsvm-dev amd64 3.24+ds-6.1+b2 [62.7 kB] Get:78 http://deb.debian.org/debian unstable/main amd64 libsvmloc0 amd64 1.0+dfsg-7+b2 [13.7 kB] Get:79 http://deb.debian.org/debian unstable/main amd64 libsvmloc-dev amd64 1.0+dfsg-7+b2 [12.6 kB] Get:80 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.52.1-4 [158 kB] Get:81 http://deb.debian.org/debian unstable/main amd64 ncbi-data all 6.1.20170106+dfsg2-7 [3540 kB] Get:82 http://deb.debian.org/debian unstable/main amd64 ncbi-blast+ amd64 2.17.0+ds-7 [17.0 MB] Get:83 http://deb.debian.org/debian unstable/main amd64 ncbi-blast+-legacy all 2.17.0+ds-7 [10.4 kB] Get:84 http://deb.debian.org/debian unstable/main amd64 pftools amd64 3.2.12-3 [24.8 MB] Get:85 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 2.5.1-4 [35.9 kB] Get:86 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 2.5.1-4 [33.6 kB] Preconfiguring packages ... Fetched 71.2 MB in 1s (54.9 MB/s) Selecting previously unselected package libexpat1:amd64. (Reading database ... 14521 files and directories currently installed.) Preparing to unpack .../libexpat1_2.8.2-1_amd64.deb ... Unpacking libexpat1:amd64 (2.8.2-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.14-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.14-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.14-1_amd64.deb ... Unpacking python3.13-minimal (3.13.14-1) ... Setting up libpython3.13-minimal:amd64 (3.13.14-1) ... Setting up libexpat1:amd64 (2.8.2-1) ... Setting up python3.13-minimal (3.13.14-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 14855 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.9-3+b1_amd64.deb ... Unpacking python3-minimal (3.13.9-3+b1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_14.0.0_all.deb ... Unpacking media-types (14.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2026b-1_all.deb ... Unpacking tzdata (2026b-1) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../4-libpython3.13-stdlib_3.13.14-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.14-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../5-python3.13_3.13.14-1_amd64.deb ... Unpacking python3.13 (3.13.14-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../6-libpython3-stdlib_3.13.9-3+b1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.9-3+b1) ... 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Setting up media-types (14.0.0) ... Setting up libpipeline1:amd64 (1.5.8-3) ... Setting up liblmdb0:amd64 (0.9.31-1+b3) ... Setting up ncbi-data (6.1.20170106+dfsg2-7) ... Setting up libfile-slurp-perl (9999.32-2.1) ... Setting up bsdextrautils (2.42.2-1) ... Setting up libtest-deep-perl (1.205-1) ... Setting up libmagic-mgc (1:5.47-4) ... Setting up libalgorithm-diff-perl (1.201-1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.15.3+dfsg-1) ... Setting up libdebhelper-perl (14.2) ... Setting up libpkgconf7:amd64 (2.5.1-4) ... Setting up libuv1t64:amd64 (1.52.1-4) ... Setting up libmagic1t64:amd64 (1:5.47-4) ... Setting up libnghttp2-14:amd64 (1.69.0-1) ... Setting up gettext-base (1.0-1) ... Setting up m4 (1.4.21-1) ... Setting up file (1:5.47-4) ... Setting up libmodhmm0:amd64 (1.0+dfsg-7+b2) ... Setting up libelf1t64:amd64 (0.195-1) ... Setting up tzdata (2026b-1) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Jun 27 03:08:25 UTC 2026. Universal Time is now: Sat Jun 27 03:08:25 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libio-string-perl (1.08-4) ... Setting up autotools-dev (20240727.1+nmu1) ... Setting up libclass-data-inheritable-perl (0.10-1) ... Setting up libtext-diff-perl (1.45-2) ... Setting up autopoint (1.0-1) ... Setting up pkgconf-bin (2.5.1-4) ... Setting up libgfortran5:amd64 (16.1.0-2) ... Setting up autoconf (2.73-2) ... Setting up libcapture-tiny-perl (0.50-1) ... Setting up dwz (0.16-4) ... Setting up libdata-stag-perl (0.14-4) ... Setting up sensible-utils (0.0.26) ... Setting up pftools (3.2.12-3) ... Setting up libcrypt-dev:amd64 (1:4.5.1-1+b1) ... Setting up libuchardet0:amd64 (0.0.8-2+b2) ... Setting up sse4.2-support (27+b1) ... Setting up libsub-uplevel-perl (0.2800-3) ... Setting up ncbi-vdb-data (3.2.1+dfsg-2) ... Setting up netbase (6.5) ... Configuration file '/etc/protocols' ==> File on system created by you or by a script. ==> File also in package provided by package maintainer. ==> Using current old file as you requested. Configuration file '/etc/services' ==> File on system created by you or by a script. ==> File also in package provided by package maintainer. ==> Using current old file as you requested. Setting up libdevel-stacktrace-perl (2.0500-1) ... Setting up libbio-perl-perl (1.7.8-4) ... Setting up libmbedcrypto16:amd64 (3.6.6-0.1) ... Setting up libhmmer2-dev:amd64 (2.3.2+dfsg-12+b3) ... Setting up libmodhmm-dev:amd64 (1.0+dfsg-7+b2) ... Setting up libpython3.13-stdlib:amd64 (3.13.14-1) ... Setting up libsquid1t64:amd64 (1.9g+cvs20050121-16+b1) ... Setting up libsvm3:amd64 (3.24+ds-6.1+b2) ... Setting up libpython3-stdlib:amd64 (3.13.9-3+b1) ... Setting up automake (1:1.18.1-4) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.1-1) ... Setting up gettext (1.0-1) ... Setting up libtool (2.5.4-11) ... Setting up python3.13 (3.13.14-1) ... Setting up libtest-warn-perl (0.37-2) ... Setting up libtest-differences-perl (0.72-1) ... Setting up libperl-dev:amd64 (5.44.0~rc1-1) ... Setting up python3 (3.13.9-3+b1) ... Setting up libexception-class-perl (1.45-1) ... Setting up libsquid-dev (1.9g+cvs20050121-16+b1) ... Setting up pkgconf:amd64 (2.5.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (22) ... Setting up libmbedx509-7:amd64 (3.6.6-0.1) ... Setting up libtest-exception-perl (0.43-3) ... Setting up libsvmloc0:amd64 (1.0+dfsg-7+b2) ... Setting up libsvm-dev:amd64 (3.24+ds-6.1+b2) ... Setting up libmbedtls21:amd64 (3.6.6-0.1) ... Setting up dh-strip-nondeterminism (1.15.1-1) ... 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Processing triggers for libc-bin (2.42-17) ... +------------------------------------------------------------------------------+ | Check architectures Sat, 27 Jun 2026 03:08:26 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment Sat, 27 Jun 2026 03:08:26 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 7.0.10+deb14-amd64 #1 SMP PREEMPT_DYNAMIC Debian 7.0.10-1 (2026-05-27) amd64 (x86_64) Toolchain package versions: binutils_2.46.50.20260617-1 dpkg-dev_1.23.7 g++-15_15.3.0-1 gcc-15_15.3.0-1 libc6-dev_2.42-17 libstdc++-15-dev_15.3.0-1 libstdc++6_16.1.0-2 linux-libc-dev_7.0.13-1 Package versions: apt_3.3.1 autoconf_2.73-2 automake_1:1.18.1-4 autopoint_1.0-1 autotools-dev_20240727.1+nmu1 base-files_14.2 base-passwd_3.6.8 bash_5.3-3 binutils_2.46.50.20260617-1 binutils-common_2.46.50.20260617-1 binutils-x86-64-linux-gnu_2.46.50.20260617-1 bioperl_1.7.8-4 bsdextrautils_2.42.2-1 build-essential_12.12 bzip2_1.0.8-6+b2 coreutils_9.10-1 cpp_4:15.2.0-5+b1 cpp-15_15.3.0-1 cpp-15-x86-64-linux-gnu_15.3.0-1 cpp-x86-64-linux-gnu_4:15.2.0-5+b1 dash_0.5.12-12 debconf_1.5.92 debhelper_14.2 debian-archive-keyring_2025.1 debianutils_5.23.2 dh-autoreconf_22 dh-strip-nondeterminism_1.15.1-1 diffutils_1:3.12-1 dirmngr_2.4.9-5 dpkg_1.23.7 dpkg-dev_1.23.7 dwz_0.16-4 eatmydata_131-2 file_1:5.47-4 findutils_4.10.0-4 g++_4:15.2.0-5+b1 g++-15_15.3.0-1 g++-15-x86-64-linux-gnu_15.3.0-1 g++-x86-64-linux-gnu_4:15.2.0-5+b1 gcc_4:15.2.0-5+b1 gcc-15_15.3.0-1 gcc-15-base_15.3.0-1 gcc-15-x86-64-linux-gnu_15.3.0-1 gcc-16-base_16.1.0-2 gcc-x86-64-linux-gnu_4:15.2.0-5+b1 gettext_1.0-1 gettext-base_1.0-1 gnupg_2.4.9-5 gnupg-l10n_2.4.9-5 gpg_2.4.9-5 gpg-agent_2.4.9-5 gpgconf_2.4.9-5 gpgsm_2.4.9-5 grep_3.12-1 groff-base_1.24.1-1 gzip_1.13-1 hostname_3.25 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 isa-support_27+b1 libacl1_2.3.2-3 libalgorithm-diff-perl_1.201-1 libapt-pkg7.0_3.3.1 libarchive-zip-perl_1.68-1 libasan8_16.1.0-2 libassuan9_3.0.2-2+b2 libatomic1_16.1.0-2 libattr1_1:2.5.2-4 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1+b1 libbinutils_2.46.50.20260617-1 libbio-perl-perl_1.7.8-4 libblkid1_2.42.2-1 libbz2-1.0_1.0.8-6+b2 libc-bin_2.42-17 libc-dev-bin_2.42-17 libc-gconv-modules-extra_2.42-17 libc6_2.42-17 libc6-dev_2.42-17 libcap-ng0_0.9.3-1 libcapture-tiny-perl_0.50-1 libcc1-0_16.1.0-2 libclass-data-inheritable-perl_0.10-1 libcrypt-dev_1:4.5.1-1+b1 libcrypt1_1:4.5.1-1+b1 libctf-nobfd0_2.46.50.20260617-1 libctf0_2.46.50.20260617-1 libdata-stag-perl_0.14-4 libdb5.3t64_5.3.28+dfsg2-11+b1 libdebconfclient0_0.283 libdebhelper-perl_14.2 libdevel-stacktrace-perl_2.0500-1 libdpkg-perl_1.23.7 libeatmydata1_131-2+b2 libelf1t64_0.195-1 libexception-class-perl_1.45-1 libexpat1_2.8.2-1 libffi8_3.5.2-4 libfile-slurp-perl_9999.32-2.1 libfile-stripnondeterminism-perl_1.15.1-1 libgcc-15-dev_15.3.0-1 libgcc-s1_16.1.0-2 libgcrypt20_1.12.2-1 libgdbm-compat4t64_1.26-1+b2 libgdbm6t64_1.26-1+b2 libgfortran5_16.1.0-2 libgmp10_2:6.3.0+dfsg-5+b2 libgnutls30t64_3.8.13-1 libgomp1_16.1.0-2 libgpg-error0_1.61-3 libgprofng0_2.46.50.20260617-1 libhmmer2-dev_2.3.2+dfsg-12+b3 libhogweed6t64_3.10.2-1+b1 libhwasan0_16.1.0-2 libidn2-0_2.3.8-5 libio-string-perl_1.08-4 libisl23_0.27-2 libitm1_16.1.0-2 libjansson4_2.15.0-1 libksba8_1.8.0-3 libldap2_2.6.13+dfsg-1+b1 liblmdb0_0.9.31-1+b3 liblsan0_16.1.0-2 liblz4-1_1.10.0-10 liblzma5_5.8.3-1 libmagic-mgc_1:5.47-4 libmagic1t64_1:5.47-4 libmbedcrypto16_3.6.6-0.1 libmbedtls21_3.6.6-0.1 libmbedx509-7_3.6.6-0.1 libmd0_1.2.0-2 libmodhmm-dev_1.0+dfsg-7+b2 libmodhmm0_1.0+dfsg-7+b2 libmount1_2.42.2-1 libmpc3_1.3.1-3 libmpfr6_4.2.2-3 libncbi-vdb3_3.2.1+dfsg-2+b1 libncursesw6_6.6+20251231-1+b1 libnettle8t64_3.10.2-1+b1 libnghttp2-14_1.69.0-1 libnpth0t64_1.8-3+b2 libp11-kit0_0.26.2-3 libpam-modules_1.7.0-6 libpam-modules-bin_1.7.0-6 libpam-runtime_1.7.0-6 libpam0g_1.7.0-6 libpcre2-8-0_10.46-1+b2 libperl-dev_5.44.0~rc1-1 libperl5.40_5.40.1-8 libperl5.44_5.44.0~rc1-1 libpipeline1_1.5.8-3 libpkgconf7_2.5.1-4 libpython3-stdlib_3.13.9-3+b1 libpython3.13-minimal_3.13.14-1 libpython3.13-stdlib_3.13.14-1 libquadmath0_16.1.0-2 libreadline8t64_8.3-4 libsasl2-2_2.1.28+dfsg1-11 libsasl2-modules-db_2.1.28+dfsg1-11 libseccomp2_2.6.0-2+b1 libselinux1_3.10-1 libsframe3_2.46.50.20260617-1 libsmartcols1_2.42.2-1 libsqlite3-0_3.53.2-1 libsquid-dev_1.9g+cvs20050121-16+b1 libsquid1t64_1.9g+cvs20050121-16+b1 libssl3t64_3.6.3-1 libstdc++-15-dev_15.3.0-1 libstdc++6_16.1.0-2 libsub-uplevel-perl_0.2800-3 libsvm-dev_3.24+ds-6.1+b2 libsvm3_3.24+ds-6.1+b2 libsvmloc-dev_1.0+dfsg-7+b2 libsvmloc0_1.0+dfsg-7+b2 libsystemd0_261.1-1 libtasn1-6_4.21.0-2+b1 libtest-deep-perl_1.205-1 libtest-differences-perl_0.72-1 libtest-exception-perl_0.43-3 libtest-most-perl_0.42-1 libtest-warn-perl_0.37-2 libtext-diff-perl_1.45-2 libtinfo6_6.6+20251231-1+b1 libtool_2.5.4-11 libtsan2_16.1.0-2 libubsan1_16.1.0-2 libuchardet0_0.0.8-2+b2 libudev1_261.1-1 libunistring5_1.4.2-1 libuuid1_2.42.2-1 libuv1t64_1.52.1-4 libxml2-16_2.15.3+dfsg-1 libxxhash0_0.8.3-2+b2 libzstd1_1.5.7+dfsg-3+b2 linux-libc-dev_7.0.13-1 m4_1.4.21-1 make_4.4.1-3 man-db_2.13.1-1 mawk_1.3.4.20260302-1 media-types_14.0.0 ncbi-blast+_2.17.0+ds-7 ncbi-blast+-legacy_2.17.0+ds-7 ncbi-data_6.1.20170106+dfsg2-7 ncbi-vdb-data_3.2.1+dfsg-2 ncurses-base_6.6+20251231-1 ncurses-bin_6.6+20251231-1+b1 netbase_6.5 openssl-provider-legacy_3.6.3-1 patch_2.8-2 perl_5.44.0~rc1-1 perl-base_5.44.0~rc1-1 perl-modules-5.40_5.40.1-8 perl-modules-5.44_5.44.0~rc1-1 pftools_3.2.12-3 pinentry-curses_1.3.2-4 pkgconf_2.5.1-4 pkgconf-bin_2.5.1-4 po-debconf_1.0.22 python3_3.13.9-3+b1 python3-minimal_3.13.9-3+b1 python3.13_3.13.14-1 python3.13-minimal_3.13.14-1 readline-common_8.3-4 rpcsvc-proto_1.4.4-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-3 sensible-utils_0.0.26 sqv_1.3.0-5+b2 sse4.2-support_27+b1 sysvinit-utils_3.18-1 tar_1.35+dfsg-4 tzdata_2026b-1 util-linux_2.42.2-1 xz-utils_5.8.3-1 zlib1g_1:1.3.dfsg+really1.3.2-3 +------------------------------------------------------------------------------+ | Build Sat, 27 Jun 2026 03:08:26 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: psortb Binary: psortb Architecture: any Version: 3.0.6+dfsg-5 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://www.psort.org/ Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/med-team/psortb Vcs-Git: https://salsa.debian.org/med-team/psortb.git Testsuite: autopkgtest-pkg-perl Build-Depends: debhelper-compat (= 13), libsvm-dev, bioperl, ncbi-blast+-legacy, libsquid-dev, libhmmer2-dev, libsvmloc-dev, libmodhmm-dev, perl-xs-dev, pkgconf, pftools Package-List: psortb deb science optional arch=any Checksums-Sha1: c47d0ec328df75f2151dd6d5b5840768006519f8 17036876 psortb_3.0.6+dfsg.orig.tar.xz 23a4a1c3c11d2a498287aa38dc1b714ea5ef8d3f 7700 psortb_3.0.6+dfsg-5.debian.tar.xz Checksums-Sha256: ed32aa0240bb03daed228b32614a53c146afba6ca66fd087702315d75e23f751 17036876 psortb_3.0.6+dfsg.orig.tar.xz f521aa299d3eceeaba793784ef13c889c2ff3d94181a97836cc0b7c7898ad7bd 7700 psortb_3.0.6+dfsg-5.debian.tar.xz Files: c4feab06d3031fecac1ab90258550209 17036876 psortb_3.0.6+dfsg.orig.tar.xz b02b06330828080f99283860b6b7cc9b 7700 psortb_3.0.6+dfsg-5.debian.tar.xz Dgit: ef4839fd1295092a55355a6910e5a298cb805ae3 debian archive/debian/3.0.6+dfsg-5 https://git.dgit.debian.org/psortb -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmkWJusUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdrVQA//Qt+beIEqdmM9y0OuPUyfnBe5RmHt WePN3sHbGJtNYiouJWX2xWYjKE7wj3PutRjN1b/plQx1MfsdOtY2TXvAUab0ccYO 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absent keyring /usr/share/keyrings/debian-nonupload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-maintainers.pgp dpkg-source: info: extracting psortb in /build/psortb-wfo2Lh/psortb-3.0.6+dfsg dpkg-source: info: unpacking psortb_3.0.6+dfsg.orig.tar.xz dpkg-source: info: unpacking psortb_3.0.6+dfsg-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying biosquid_includes.patch dpkg-source: info: applying fix_hmmer_interface.patch dpkg-source: info: applying fix_build_Algorithm-SVM.patch dpkg-source: info: applying remove-bundled-party-libsvm.patch dpkg-source: info: applying path_to_conf.patch dpkg-source: info: applying fix_module_path.patch dpkg-source: info: applying add_missing_header.patch clean up apt cache ------------------ Check disk space ---------------- Sufficient free space for build Hack binNMU version ------------------- Created changelog entry for binNMU version 3.0.6+dfsg-5+b1 +------------------------------------------------------------------------------+ | Starting Time Build Commands Sat, 27 Jun 2026 03:08:28 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network psortb_3.0.6+dfsg-5 perl-5.44 amd64 ---------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network psortb_3.0.6+dfsg-5 perl-5.44 amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANGUAGE=en_GB:en LC_ALL=C.UTF-8 LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so LOGNAME=debomatic PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg SCHROOT_ALIAS_NAME=perl-5.44-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.44-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.44-amd64-debomatic-0117b594-75d9-4453-8ee6-35eb0564132f SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -mDebian Perl autobuilder -B -Zxz dpkg-buildpackage: info: source package psortb dpkg-buildpackage: info: source version 3.0.6+dfsg-5+b1 dpkg-buildpackage: info: source distribution perl-5.44 dpkg-source -Zxz --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' dh_auto_clean if [ -x psort/bin/psort.debsave ] ; then \ mv psort/bin/psort.debsave psort/bin/psort ; \ fi make[1]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' cp -a psort/bin/psort psort/bin/psort.debsave dh_auto_configure /usr/bin/perl Makefile.PL INSTALLDIRS=vendor OPTIMIZE="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2" LD="x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro -Wl,-z,now" External Module XML::RPC, XML Based RPC client, is not installed on this computer. The XML::RPC in PSortb needs it for making calls to remote PSortb servers, if you don't plan to do this, ignore this warning We think we've found blastall, please enter the path if this isn't correct [/usr/bin/] /usr/bin/ We think we've found pfscan, please enter the path if this isn't correct [/usr/bin/] /usr/bin/ Where do you plan to install the psort configuration files? [/usr/local/psortb] /usr/local/psortb Checking if your kit is complete... Looks good hmmer was not found in the dynamic linker path, is there somewhere else we should check? [/usr/local/lib64] /usr/local/lib64 We're still not finding hmmer either in your dynamic linker path (/etc/ld.so.conf) or in /usr/local/lib64. Do you want to continue anyways? [Y/n] [Y] Y squid was not found in the dynamic linker path, is there somewhere else we should check? [/usr/local/lib64] /usr/local/lib64 We're still not finding squid either in your dynamic linker path (/etc/ld.so.conf) or in /usr/local/lib64. Do you want to continue anyways? [Y/n] [Y] Y Checking if your kit is complete... Looks good Writing MYMETA.yml and MYMETA.json svmloc was not found in the dynamic linker path, is there somewhere else we should check? [/usr/local/lib64] /usr/local/lib64 We're still not finding svmloc either in your dynamic linker path (/etc/ld.so.conf) or in /usr/local/lib64. Do you want to continue anyways? [Y/n] [Y] Y Checking if your kit is complete... Looks good Writing MYMETA.yml and MYMETA.json modhmm was not found in the dynamic linker path, is there somewhere else we should check? [/usr/local/lib64] /usr/local/lib64 We're still not finding modhmm either in your dynamic linker path (/etc/ld.so.conf) or in /usr/local/lib64. Do you want to continue anyways? [Y/n] [Y] Y Writing MYMETA.yml and MYMETA.json Generating a Unix-style Makefile Writing Makefile for Bio::Tools::PSort Writing MYMETA.yml and MYMETA.json Updating psort/bin/psort with path hints Making sclblast databases Building a new DB, current time: 06/27/2026 03:08:32 New DB name: /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/psort/conf/analysis/sclblast/gramneg/sclblast New DB title: sclblast Sequence type: Protein Keep MBits: T Maximum file size: 3000000000B BLAST Database creation error: Error: Duplicate seq_ids are found: LCL|6226665 Program failed, try executing the command manually. Building a new DB, current time: 06/27/2026 03:08:32 New DB name: /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/psort/conf/analysis/sclblast/grampos/sclblast New DB title: sclblast Sequence type: Protein Keep MBits: T Maximum file size: 3000000000B BLAST Database creation error: Error: Duplicate seq_ids are found: LCL|145559529 Program failed, try executing the command manually. Building a new DB, current time: 06/27/2026 03:08:33 New DB name: /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/psort/conf/analysis/sclblast/archaea/sclblast New DB title: sclblast Sequence type: Protein Keep MBits: T Maximum file size: 3000000000B FASTA-Reader: Ignoring invalid residues at position(s): On line 46049: 38 FASTA-Reader: Ignoring invalid residues at position(s): On line 87237: 23 FASTA-Reader: Title ends with at least 50 valid amino acid characters. Was the sequence accidentally put in the title line? FASTA-Reader: Ignoring invalid residues at position(s): On line 87252: 4 FASTA-Reader: Ignoring invalid residues at position(s): On line 87263: 8 BLAST Database creation error: Error: Duplicate seq_ids are found: LCL|15596641 Program failed, try executing the command manually. Ready for make, next steps you must run: $ make $ make test $ make install RECOMMENDED: cp -r psort /usr/local/psortb PSortb will then be available at /usr/local/psortb/bin/psort or in your path depending on your configuration make[1]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' # hack around the issue that configure injects wrong root dir /usr/local/psortb mv psort/bin/psort.debsave psort/bin/psort dh_auto_build make -j2 make[2]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' cp lib/Bio/Tools/PSort/Module/Motif.pm blib/lib/Bio/Tools/PSort/Module/Motif.pm cp lib/Bio/Tools/PSort/Constants.pm blib/lib/Bio/Tools/PSort/Constants.pm cp lib/Bio/Tools/Motif/Pattern.pm blib/lib/Bio/Tools/Motif/Pattern.pm cp lib/Bio/Tools/PSort/Module/SVMLoc.pm blib/lib/Bio/Tools/PSort/Module/SVMLoc.pm cp lib/Bio/Tools/PSort/Report/Formatter/long.pm blib/lib/Bio/Tools/PSort/Report/Formatter/long.pm cp lib/Bio/Tools/PSort/Module/ModHMM.pm blib/lib/Bio/Tools/PSort/Module/ModHMM.pm cp lib/Bio/Tools/PSort/Profile.pm blib/lib/Bio/Tools/PSort/Profile.pm cp lib/Bio/Tools/PSort/Module/AnalysisI.pm blib/lib/Bio/Tools/PSort/Module/AnalysisI.pm cp lib/Bio/Tools/PSort/Module/InputI.pm blib/lib/Bio/Tools/PSort/Module/InputI.pm cp lib/Bio/Tools/PSort/Module/Bayesian.pm blib/lib/Bio/Tools/PSort/Module/Bayesian.pm cp lib/Bio/Tools/PSort/Report/Formatter/html.pm blib/lib/Bio/Tools/PSort/Report/Formatter/html.pm cp lib/Bio/Tools/PSort/Module/HMMTOP.pm blib/lib/Bio/Tools/PSort/Module/HMMTOP.pm cp lib/Bio/Tools/PSort/Module/SVMLocApache.pm blib/lib/Bio/Tools/PSort/Module/SVMLocApache.pm cp lib/Bio/Tools/PSort/Module/Signal.pm blib/lib/Bio/Tools/PSort/Module/Signal.pm cp lib/Bio/Tools/PSort/Module/OutputI.pm blib/lib/Bio/Tools/PSort/Module/OutputI.pm cp lib/Bio/Tools/PSort/Module/Rules.pm blib/lib/Bio/Tools/PSort/Module/Rules.pm cp lib/Bio/Tools/Motif/Match.pm blib/lib/Bio/Tools/Motif/Match.pm cp lib/Bio/Tools/PSort/Install.pm blib/lib/Bio/Tools/PSort/Install.pm cp lib/Bio/Tools/PSort/Module/Profile.pm blib/lib/Bio/Tools/PSort/Module/Profile.pm cp lib/Bio/Tools/PSort/ModuleI.pm blib/lib/Bio/Tools/PSort/ModuleI.pm cp lib/Bio/Tools/PSort/Report/Formatter.pm blib/lib/Bio/Tools/PSort/Report/Formatter.pm cp lib/Bio/Tools/PSort/Module/Null.pm blib/lib/Bio/Tools/PSort/Module/Null.pm cp lib/Bio/Tools/PSort/Pathway.pm blib/lib/Bio/Tools/PSort/Pathway.pm cp lib/Bio/Tools/PSort/Profile/Match.pm blib/lib/Bio/Tools/PSort/Profile/Match.pm cp lib/Bio/Tools/PSort/Module/SCLBlast.pm blib/lib/Bio/Tools/PSort/Module/SCLBlast.pm cp lib/Bio/Tools/PSort/Report.pm blib/lib/Bio/Tools/PSort/Report.pm cp lib/Bio/Tools/Motif.pm blib/lib/Bio/Tools/Motif.pm cp lib/Bio/Tools/PSort.pm blib/lib/Bio/Tools/PSort.pm cp lib/Bio/Tools/PSort/Module/OMPMotif.pm blib/lib/Bio/Tools/PSort/Module/OMPMotif.pm cp lib/Bio/Tools/Run/HMMTOP.pm blib/lib/Bio/Tools/Run/HMMTOP.pm cp lib/Bio/Tools/Run/HMMTOP/Helix.pm blib/lib/Bio/Tools/Run/HMMTOP/Helix.pm cp lib/Bio/Tools/PSort/XMLRPC/Client.pm blib/lib/Bio/Tools/PSort/XMLRPC/Client.pm cp lib/Bio/Tools/SVMLoc.pm blib/lib/Bio/Tools/SVMLoc.pm cp lib/Bio/Tools/Run/HMMTOP/Report.pm blib/lib/Bio/Tools/Run/HMMTOP/Report.pm cp lib/Bio/Tools/Run/SCLBlastLocal.pm blib/lib/Bio/Tools/Run/SCLBlastLocal.pm cp lib/Bio/Tools/Run/SCLBlast/Hit.pm blib/lib/Bio/Tools/Run/SCLBlast/Hit.pm cp lib/Bio/Tools/Signal.pm blib/lib/Bio/Tools/Signal.pm cp lib/Bio/Tools/Signal/Report.pm blib/lib/Bio/Tools/Signal/Report.pm cp lib/Bio/Tools/Run/SCLBlast.pm blib/lib/Bio/Tools/Run/SCLBlast.pm cp lib/Bio/Tools/PSort/Report/Formatter/terse.pm blib/lib/Bio/Tools/PSort/Report/Formatter/terse.pm cp lib/Bio/Tools/Run/SCLBlast/Report.pm blib/lib/Bio/Tools/Run/SCLBlast/Report.pm cp lib/Bio/Tools/PSort/Report/Result.pm blib/lib/Bio/Tools/PSort/Report/Result.pm cp lib/Bio/Tools/PSort/Report/Formatter/normal.pm blib/lib/Bio/Tools/PSort/Report/Formatter/normal.pm make[3]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/algorithm-hmm' Running Mkbootstrap for HMM () chmod 644 "HMM.bs" "/usr/bin/perl" "/usr/share/perl/5.44.0/ExtUtils/xsubpp" -noprototypes -C++ -typemap '/usr/share/perl/5.44/ExtUtils/typemap' -typemap '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/algorithm-hmm/typemap' HMM.xs > HMM.xsc cp lib/Algorithm/HMM.pm ../blib/lib/Algorithm/HMM.pm AutoSplitting ../blib/lib/Algorithm/HMM.pm (../blib/lib/auto/Algorithm/HMM) cp lib/Algorithm/HMM/Hit/Domain.pm ../blib/lib/Algorithm/HMM/Hit/Domain.pm cp lib/Algorithm/HMM/Hit.pm ../blib/lib/Algorithm/HMM/Hit.pm cp lib/Algorithm/HMM/Hit/Global.pm ../blib/lib/Algorithm/HMM/Hit/Global.pm cp lib/Algorithm/HMM/Report.pm ../blib/lib/Algorithm/HMM/Report.pm g++ -c -Isrc/include `pkg-config --cflags libsquid` `pkg-config --cflags libhmmer2` -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DVERSION=\"0.02\" -DXS_VERSION=\"0.02\" -fPIC "-I/usr/lib/x86_64-linux-gnu/perl/5.44/CORE" hmm-binding.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ mv HMM.xsc HMM.c "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- HMM.bs ../blib/arch/auto/Algorithm/HMM/HMM.bs 644 g++ -c -Isrc/include `pkg-config --cflags libsquid` `pkg-config --cflags libhmmer2` -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DVERSION=\"0.02\" -DXS_VERSION=\"0.02\" -fPIC "-I/usr/lib/x86_64-linux-gnu/perl/5.44/CORE" HMM.c cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ hmm-binding.cpp: In member function ‘HMMReport* HMM::search(char*)’: hmm-binding.cpp:136:71: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] 136 | PostprocessSignificantHit(ghit, dhit, trace, model, dseq, seqlen, "SEQ", | ^~~~~ rm -f ../blib/arch/auto/Algorithm/HMM/HMM.so x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro -Wl,-z,now -shared -L/usr/local/lib -fstack-protector-strong HMM.o hmm-binding.o -o ../blib/arch/auto/Algorithm/HMM/HMM.so \ -lm -lpthread -lstdc++ -lhmmer -lsquid \ chmod 755 ../blib/arch/auto/Algorithm/HMM/HMM.so Manifying 5 pod documents make[3]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/algorithm-hmm' make[3]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-svmloc' cp lib/Bio/Tools/PSort/SVMLoc/DataSet.pm ../blib/lib/Bio/Tools/PSort/SVMLoc/DataSet.pm cp lib/Bio/Tools/PSort/SVMLoc.pm ../blib/lib/Bio/Tools/PSort/SVMLoc.pm AutoSplitting ../blib/lib/Bio/Tools/PSort/SVMLoc.pm (../blib/lib/auto/Bio/Tools/PSort/SVMLoc) Running Mkbootstrap for SVMLoc () chmod 644 "SVMLoc.bs" "/usr/bin/perl" "/usr/share/perl/5.44.0/ExtUtils/xsubpp" -noprototypes -C++ -typemap '/usr/share/perl/5.44/ExtUtils/typemap' -typemap '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-svmloc/typemap' SVMLoc.xs > SVMLoc.xsc "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- SVMLoc.bs ../blib/arch/auto/Bio/Tools/PSort/SVMLoc/SVMLoc.bs 644 mv SVMLoc.xsc SVMLoc.c g++ -c -Wall -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DVERSION=\"0.01\" -DXS_VERSION=\"0.01\" -fPIC "-I/usr/lib/x86_64-linux-gnu/perl/5.44/CORE" SVMLoc.c cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ rm -f ../blib/arch/auto/Bio/Tools/PSort/SVMLoc/SVMLoc.so x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro -Wl,-z,now -shared -L/usr/local/lib -fstack-protector-strong SVMLoc.o -o ../blib/arch/auto/Bio/Tools/PSort/SVMLoc/SVMLoc.so \ -lsvmloc -lm -lsvm -lstdc++ \ chmod 755 ../blib/arch/auto/Bio/Tools/PSort/SVMLoc/SVMLoc.so Manifying 2 pod documents make[3]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-svmloc' make[3]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-modhmm' cp lib/Bio/Tools/PSort/ModHMM.pm ../blib/lib/Bio/Tools/PSort/ModHMM.pm AutoSplitting ../blib/lib/Bio/Tools/PSort/ModHMM.pm (../blib/lib/auto/Bio/Tools/PSort/ModHMM) Running Mkbootstrap for ModHMM () chmod 644 "ModHMM.bs" "/usr/bin/perl" "/usr/share/perl/5.44.0/ExtUtils/xsubpp" -noprototypes -typemap '/usr/share/perl/5.44/ExtUtils/typemap' -typemap '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-modhmm/typemap' modhmm.xs > modhmm.xsc cc -c -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DVERSION=\"0.01\" -DXS_VERSION=\"0.01\" -fPIC "-I/usr/lib/x86_64-linux-gnu/perl/5.44/CORE" binding.c mv modhmm.xsc modhmm.c "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- ModHMM.bs ../blib/arch/auto/Bio/Tools/PSort/ModHMM/ModHMM.bs 644 cc -c -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DVERSION=\"0.01\" -DXS_VERSION=\"0.01\" -fPIC "-I/usr/lib/x86_64-linux-gnu/perl/5.44/CORE" modhmm.c rm -f ../blib/arch/auto/Bio/Tools/PSort/ModHMM/ModHMM.so x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/psortb-wfo2Lh/psortb-3.0.6+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro -Wl,-z,now -shared -L/usr/local/lib -fstack-protector-strong modhmm.o binding.o -o ../blib/arch/auto/Bio/Tools/PSort/ModHMM/ModHMM.so \ -lm -lstdc++ -lmodhmm \ chmod 755 ../blib/arch/auto/Bio/Tools/PSort/ModHMM/ModHMM.so Manifying 1 pod document make[3]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-modhmm' Manifying 18 pod documents make[2]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' make[1]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' dh_auto_test -a make -j2 test TEST_VERBOSE=1 make[1]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' make[2]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/algorithm-hmm' "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- HMM.bs ../blib/arch/auto/Algorithm/HMM/HMM.bs 644 Manifying 5 pod documents make[2]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/algorithm-hmm' make[2]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-svmloc' "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- SVMLoc.bs ../blib/arch/auto/Bio/Tools/PSort/SVMLoc/SVMLoc.bs 644 Manifying 2 pod documents make[2]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-svmloc' make[2]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-modhmm' "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- ModHMM.bs ../blib/arch/auto/Bio/Tools/PSort/ModHMM/ModHMM.bs 644 Manifying 1 pod document make[2]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-modhmm' make[2]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/algorithm-hmm' "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- HMM.bs ../blib/arch/auto/Algorithm/HMM/HMM.bs 644 PERL_DL_NONLAZY=1 "/usr/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(1, '../blib/lib', '../blib/arch')" t/*.t t/hmm.t .. 1..5 ok 1 - use Algorithm::HMM; ok 2 Creating new Algorithm::HMM ok 3 - Ensuring we could load a model Saving model... ok 4 - Testing saving a model Loading saved model... ok 5 - Testing reloading a model ok All tests successful. Files=1, Tests=5, 0 wallclock secs ( 0.01 usr 0.01 sys + 0.04 cusr 0.00 csys = 0.06 CPU) Result: PASS make[2]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/algorithm-hmm' make[2]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-svmloc' "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- SVMLoc.bs ../blib/arch/auto/Bio/Tools/PSort/SVMLoc/SVMLoc.bs 644 PERL_DL_NONLAZY=1 "/usr/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(1, '../blib/lib', '../blib/arch')" t/*.t t/svmloc.t .. 1..15 ok 1 - use Bio::Tools::PSort::SVMLoc; ok 2 - use Bio::Tools::PSort::SVMLoc::DataSet; ok 3 - Loaded SVMLoc Creating new Bio::Tools::PSort::SVMLoc ok 4 - Creating SVMLoc object Checking predictions on loaded model ok 5 - Classify seq 1 ok 6 - Classify seq 2 ok 7 - Classify seq 3 Creating second Bio::Tools::PSort::SVMLoc ok 8 - Creating SVMLoc object 2 Creating new Bio::Tools::PSort::SVMLoc::DataSet objects ok 9 - Dataset 1 created ok 10 - Dataset 2 created ok 11 - Dataset 3 created Adding attributes to Bio::Tools::PSort::SVMLoc::DataSet objects ok 12 Checking predictions on second loaded model ok 13 - Classify seq 1 on model 2 ok 14 - Classify seq 2 on model 2 ok 15 - Classify seq 3 on model 2 Everything looks ok! ok All tests successful. Files=1, Tests=15, 0 wallclock secs ( 0.01 usr 0.01 sys + 0.13 cusr 0.02 csys = 0.17 CPU) Result: PASS make[2]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-svmloc' make[2]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-modhmm' "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- ModHMM.bs ../blib/arch/auto/Bio/Tools/PSort/ModHMM/ModHMM.bs 644 PERL_DL_NONLAZY=1 "/usr/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(1, '../blib/lib', '../blib/arch')" t/*.t t/modhmm.t .. 1..4 ok 1 - use Bio::Tools::PSort::ModHMM; ok 2 - Loading ModHMM Running sequence through Bio::Tools::PSort::ModHMM ok 3 - Running sequence through ModHMM Retreiving TM helix sites ok 4 - Retreiving TM helix sites ok All tests successful. Files=1, Tests=4, 0 wallclock secs ( 0.01 usr 0.00 sys + 0.09 cusr 0.01 csys = 0.11 CPU) Result: PASS make[2]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-modhmm' PERL_DL_NONLAZY=1 "/usr/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(1, 'blib/lib', 'blib/arch')" t/*.t t/psort.t .. 1..2 ok 1 - PSort module loaded Creating new Bio::Tools::PSort ok 2 - PSort object made ok All tests successful. Files=1, Tests=2, 0 wallclock secs ( 0.01 usr 0.00 sys + 0.06 cusr 0.01 csys = 0.08 CPU) Result: PASS make[1]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install --destdir=debian/psortb/ -a make -j2 install DESTDIR=/build/psortb-wfo2Lh/psortb-3.0.6\+dfsg/debian/psortb AM_UPDATE_INFO_DIR=no PREFIX=/usr make[1]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' make[2]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/algorithm-hmm' "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- HMM.bs ../blib/arch/auto/Algorithm/HMM/HMM.bs 644 Manifying 5 pod documents make[2]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/algorithm-hmm' make[2]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-svmloc' "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- SVMLoc.bs ../blib/arch/auto/Bio/Tools/PSort/SVMLoc/SVMLoc.bs 644 Manifying 2 pod documents make[2]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-svmloc' make[2]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-modhmm' "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- ModHMM.bs ../blib/arch/auto/Bio/Tools/PSort/ModHMM/ModHMM.bs 644 Manifying 1 pod document make[2]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg/bio-tools-psort-modhmm' Manifying 18 pod documents Files found in blib/arch: installing files in blib/lib into architecture dependent library tree Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/auto/Bio/Tools/PSort/ModHMM/ModHMM.so Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/auto/Bio/Tools/PSort/SVMLoc/SVMLoc.so Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/auto/Algorithm/HMM/HMM.so Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/auto/Bio/Tools/PSort/ModHMM/autosplit.ix Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/auto/Bio/Tools/PSort/SVMLoc/autosplit.ix Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/auto/Algorithm/HMM/autosplit.ix Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/SVMLoc.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Signal.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Motif.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Run/SCLBlast.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Run/HMMTOP.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Run/SCLBlastLocal.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Run/SCLBlast/Report.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Run/SCLBlast/Hit.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Run/HMMTOP/Report.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Run/HMMTOP/Helix.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/ModHMM.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Install.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Pathway.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Constants.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Report.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/SVMLoc.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Profile.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/ModuleI.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Profile/Match.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/SVMLoc/DataSet.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Report/Formatter.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Report/Result.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Report/Formatter/normal.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Report/Formatter/long.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Report/Formatter/terse.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Report/Formatter/html.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/XMLRPC/Client.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/Null.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/AnalysisI.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/ModHMM.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/SCLBlast.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/OutputI.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/Bayesian.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/SVMLoc.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/HMMTOP.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/Rules.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/Signal.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/Profile.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/OMPMotif.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/SVMLocApache.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/Motif.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/PSort/Module/InputI.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Motif/Match.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Motif/Pattern.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Bio/Tools/Signal/Report.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Algorithm/HMM.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Algorithm/HMM/Report.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Algorithm/HMM/Hit.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Algorithm/HMM/Hit/Domain.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/lib/x86_64-linux-gnu/perl5/5.44/Algorithm/HMM/Hit/Global.pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::ModHMM.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::Module::AnalysisI.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::Run::HMMTOP.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::Signal.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::SVMLoc.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::Pathway.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::Motif.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::SVMLoc::DataSet.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Algorithm::HMM::Hit::Domain.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::Module::OutputI.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::Module::InputI.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Algorithm::HMM::Report.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::Module::Motif.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::SVMLoc.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::Module::Null.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::Motif::Pattern.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::Module::Profile.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::Module::OMPMotif.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Algorithm::HMM::Hit::Global.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::Profile::Match.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::Profile.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::PSort::ModuleI.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Algorithm::HMM.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Bio::Tools::Motif::Match.3pm Installing /build/psortb-wfo2Lh/psortb-3.0.6+dfsg/debian/psortb/usr/share/man/man3/Algorithm::HMM::Hit.3pm make[1]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a debian/rules override_dh_fixperms make[1]: Entering directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' dh_fixperms chmod +x debian/psortb/usr/lib/psort/conf/analysis/signal/archaea/check-sig make[1]: Leaving directory '/build/psortb-wfo2Lh/psortb-3.0.6+dfsg' dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'psortb-dbgsym' in '../psortb-dbgsym_3.0.6+dfsg-5+b1_amd64.deb'. dpkg-deb: building package 'psortb' in '../psortb_3.0.6+dfsg-5+b1_amd64.deb'. dpkg-genbuildinfo --build=any -O../psortb_3.0.6+dfsg-5+b1_amd64.buildinfo dpkg-genchanges --build=any -mDebian Perl autobuilder -O../psortb_3.0.6+dfsg-5+b1_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source -Zxz --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2026-06-27T03:09:48Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Sat, 27 Jun 2026 03:09:49 +0000 | +------------------------------------------------------------------------------+ psortb_3.0.6+dfsg-5+b1_amd64.changes: ------------------------------------- Format: 1.8 Date: Thu, 13 Nov 2025 18:38:09 +0000 Source: psortb (3.0.6+dfsg-5) Binary: psortb psortb-dbgsym Binary-Only: yes Architecture: amd64 Version: 3.0.6+dfsg-5+b1 Distribution: perl-5.44 Urgency: low Maintainer: Debian Perl autobuilder Changed-By: Debian Perl autobuilder Description: psortb - bacterial localization prediction tool Changes: psortb (3.0.6+dfsg-5+b1) perl-5.44; urgency=low, binary-only=yes . * Binary-only non-maintainer upload for amd64; no source changes. * Rebuild for Perl 5.44 Checksums-Sha1: 9ab694bc3df40288ca77702e00865a1a9f2fae96 158064 psortb-dbgsym_3.0.6+dfsg-5+b1_amd64.deb c3a5fe728204ae33ac24f74544da5f7946734786 7229 psortb_3.0.6+dfsg-5+b1_amd64.buildinfo 8b567682b1a7b7690afc0ffe128a320ef413daba 16372664 psortb_3.0.6+dfsg-5+b1_amd64.deb Checksums-Sha256: 734a854cc4c6e5cea36ef1099b3b6da5ebbf6609a1c56be749a7f0452d93574b 158064 psortb-dbgsym_3.0.6+dfsg-5+b1_amd64.deb 04dc5219ef2f617993d936c72d2e73415e444abfde1e78a16833e3d5dca974c3 7229 psortb_3.0.6+dfsg-5+b1_amd64.buildinfo 34b846d8b1def945997fbd9b465d80261c2230b5cda9983c1de60a4180b74b69 16372664 psortb_3.0.6+dfsg-5+b1_amd64.deb Files: c5963094c98212475a68f8dc83606493 158064 debug optional psortb-dbgsym_3.0.6+dfsg-5+b1_amd64.deb fbbe8aace39e51613f595908e97f6bf3 7229 science optional psortb_3.0.6+dfsg-5+b1_amd64.buildinfo 77a1a86bc4dc73f504dde46dc96a7832 16372664 science optional psortb_3.0.6+dfsg-5+b1_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo Sat, 27 Jun 2026 03:09:49 +0000 | +------------------------------------------------------------------------------+ Format: 1.0 Source: psortb (3.0.6+dfsg-5) Binary: psortb psortb-dbgsym Architecture: amd64 Version: 3.0.6+dfsg-5+b1 Binary-Only-Changes: psortb (3.0.6+dfsg-5+b1) perl-5.44; urgency=low, binary-only=yes . * Binary-only non-maintainer upload for amd64; no source changes. * Rebuild for Perl 5.44 . -- Debian Perl autobuilder Thu, 13 Nov 2025 18:38:09 +0000 Checksums-Md5: c5963094c98212475a68f8dc83606493 158064 psortb-dbgsym_3.0.6+dfsg-5+b1_amd64.deb 77a1a86bc4dc73f504dde46dc96a7832 16372664 psortb_3.0.6+dfsg-5+b1_amd64.deb Checksums-Sha1: 9ab694bc3df40288ca77702e00865a1a9f2fae96 158064 psortb-dbgsym_3.0.6+dfsg-5+b1_amd64.deb 8b567682b1a7b7690afc0ffe128a320ef413daba 16372664 psortb_3.0.6+dfsg-5+b1_amd64.deb Checksums-Sha256: 734a854cc4c6e5cea36ef1099b3b6da5ebbf6609a1c56be749a7f0452d93574b 158064 psortb-dbgsym_3.0.6+dfsg-5+b1_amd64.deb 34b846d8b1def945997fbd9b465d80261c2230b5cda9983c1de60a4180b74b69 16372664 psortb_3.0.6+dfsg-5+b1_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sat, 27 Jun 2026 03:09:48 +0000 Build-Path: /build/psortb-wfo2Lh/psortb-3.0.6+dfsg Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.73-2), automake (= 1:1.18.1-4), autopoint (= 1.0-1), autotools-dev (= 20240727.1+nmu1), base-files (= 14.2), base-passwd (= 3.6.8), bash (= 5.3-3), binutils (= 2.46.50.20260617-1), binutils-common (= 2.46.50.20260617-1), binutils-x86-64-linux-gnu (= 2.46.50.20260617-1), bioperl (= 1.7.8-4), bsdextrautils (= 2.42.2-1), build-essential (= 12.12), bzip2 (= 1.0.8-6+b2), coreutils (= 9.10-1), cpp (= 4:15.2.0-5+b1), cpp-15 (= 15.3.0-1), cpp-15-x86-64-linux-gnu (= 15.3.0-1), cpp-x86-64-linux-gnu (= 4:15.2.0-5+b1), dash (= 0.5.12-12), debconf (= 1.5.92), debhelper (= 14.2), debianutils (= 5.23.2), dh-autoreconf (= 22), dh-strip-nondeterminism (= 1.15.1-1), diffutils (= 1:3.12-1), dpkg (= 1.23.7), dpkg-dev (= 1.23.7), dwz (= 0.16-4), file (= 1:5.47-4), findutils (= 4.10.0-4), g++ (= 4:15.2.0-5+b1), g++-15 (= 15.3.0-1), g++-15-x86-64-linux-gnu (= 15.3.0-1), g++-x86-64-linux-gnu (= 4:15.2.0-5+b1), gcc (= 4:15.2.0-5+b1), gcc-15 (= 15.3.0-1), gcc-15-base (= 15.3.0-1), gcc-15-x86-64-linux-gnu (= 15.3.0-1), gcc-16-base (= 16.1.0-2), gcc-x86-64-linux-gnu (= 4:15.2.0-5+b1), gettext (= 1.0-1), gettext-base (= 1.0-1), grep (= 3.12-1), groff-base (= 1.24.1-1), gzip (= 1.13-1), hostname (= 3.25), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), isa-support (= 27+b1), libacl1 (= 2.3.2-3), libalgorithm-diff-perl (= 1.201-1), libarchive-zip-perl (= 1.68-1), libasan8 (= 16.1.0-2), libatomic1 (= 16.1.0-2), libattr1 (= 1:2.5.2-4), libaudit-common (= 1:4.1.2-1), libaudit1 (= 1:4.1.2-1+b1), libbinutils (= 2.46.50.20260617-1), libbio-perl-perl (= 1.7.8-4), libblkid1 (= 2.42.2-1), libbz2-1.0 (= 1.0.8-6+b2), libc-bin (= 2.42-17), libc-dev-bin (= 2.42-17), libc-gconv-modules-extra (= 2.42-17), libc6 (= 2.42-17), libc6-dev (= 2.42-17), libcap-ng0 (= 0.9.3-1), libcapture-tiny-perl (= 0.50-1), libcc1-0 (= 16.1.0-2), libclass-data-inheritable-perl (= 0.10-1), libcrypt-dev (= 1:4.5.1-1+b1), libcrypt1 (= 1:4.5.1-1+b1), libctf-nobfd0 (= 2.46.50.20260617-1), libctf0 (= 2.46.50.20260617-1), libdata-stag-perl (= 0.14-4), libdb5.3t64 (= 5.3.28+dfsg2-11+b1), libdebconfclient0 (= 0.283), libdebhelper-perl (= 14.2), libdevel-stacktrace-perl (= 2.0500-1), libdpkg-perl (= 1.23.7), libelf1t64 (= 0.195-1), libexception-class-perl (= 1.45-1), libexpat1 (= 2.8.2-1), libffi8 (= 3.5.2-4), libfile-slurp-perl (= 9999.32-2.1), libfile-stripnondeterminism-perl (= 1.15.1-1), libgcc-15-dev (= 15.3.0-1), libgcc-s1 (= 16.1.0-2), libgdbm-compat4t64 (= 1.26-1+b2), libgdbm6t64 (= 1.26-1+b2), libgfortran5 (= 16.1.0-2), libgmp10 (= 2:6.3.0+dfsg-5+b2), libgomp1 (= 16.1.0-2), libgprofng0 (= 2.46.50.20260617-1), libhmmer2-dev (= 2.3.2+dfsg-12+b3), libhwasan0 (= 16.1.0-2), libio-string-perl (= 1.08-4), libisl23 (= 0.27-2), libitm1 (= 16.1.0-2), libjansson4 (= 2.15.0-1), liblmdb0 (= 0.9.31-1+b3), liblsan0 (= 16.1.0-2), liblzma5 (= 5.8.3-1), libmagic-mgc (= 1:5.47-4), libmagic1t64 (= 1:5.47-4), libmbedcrypto16 (= 3.6.6-0.1), libmbedtls21 (= 3.6.6-0.1), libmbedx509-7 (= 3.6.6-0.1), libmd0 (= 1.2.0-2), libmodhmm-dev (= 1.0+dfsg-7+b2), libmodhmm0 (= 1.0+dfsg-7+b2), libmount1 (= 2.42.2-1), libmpc3 (= 1.3.1-3), libmpfr6 (= 4.2.2-3), libncbi-vdb3 (= 3.2.1+dfsg-2+b1), libncursesw6 (= 6.6+20251231-1+b1), libnghttp2-14 (= 1.69.0-1), libpam-modules (= 1.7.0-6), libpam-modules-bin (= 1.7.0-6), libpam-runtime (= 1.7.0-6), libpam0g (= 1.7.0-6), libpcre2-8-0 (= 10.46-1+b2), libperl-dev (= 5.44.0~rc1-1), libperl5.44 (= 5.44.0~rc1-1), libpipeline1 (= 1.5.8-3), libpkgconf7 (= 2.5.1-4), libpython3-stdlib (= 3.13.9-3+b1), libpython3.13-minimal (= 3.13.14-1), libpython3.13-stdlib (= 3.13.14-1), libquadmath0 (= 16.1.0-2), libreadline8t64 (= 8.3-4), libseccomp2 (= 2.6.0-2+b1), libselinux1 (= 3.10-1), libsframe3 (= 2.46.50.20260617-1), libsmartcols1 (= 2.42.2-1), libsqlite3-0 (= 3.53.2-1), libsquid-dev (= 1.9g+cvs20050121-16+b1), libsquid1t64 (= 1.9g+cvs20050121-16+b1), libssl3t64 (= 3.6.3-1), libstdc++-15-dev (= 15.3.0-1), libstdc++6 (= 16.1.0-2), libsub-uplevel-perl (= 0.2800-3), libsvm-dev (= 3.24+ds-6.1+b2), libsvm3 (= 3.24+ds-6.1+b2), libsvmloc-dev (= 1.0+dfsg-7+b2), libsvmloc0 (= 1.0+dfsg-7+b2), libsystemd0 (= 261.1-1), libtest-deep-perl (= 1.205-1), libtest-differences-perl (= 0.72-1), libtest-exception-perl (= 0.43-3), libtest-most-perl (= 0.42-1), libtest-warn-perl (= 0.37-2), libtext-diff-perl (= 1.45-2), libtinfo6 (= 6.6+20251231-1+b1), libtool (= 2.5.4-11), libtsan2 (= 16.1.0-2), libubsan1 (= 16.1.0-2), libuchardet0 (= 0.0.8-2+b2), libudev1 (= 261.1-1), libunistring5 (= 1.4.2-1), libuuid1 (= 2.42.2-1), libuv1t64 (= 1.52.1-4), libxml2-16 (= 2.15.3+dfsg-1), libzstd1 (= 1.5.7+dfsg-3+b2), linux-libc-dev (= 7.0.13-1), m4 (= 1.4.21-1), make (= 4.4.1-3), man-db (= 2.13.1-1), mawk (= 1.3.4.20260302-1), media-types (= 14.0.0), ncbi-blast+ (= 2.17.0+ds-7), ncbi-blast+-legacy (= 2.17.0+ds-7), ncbi-data (= 6.1.20170106+dfsg2-7), ncbi-vdb-data (= 3.2.1+dfsg-2), ncurses-base (= 6.6+20251231-1), ncurses-bin (= 6.6+20251231-1+b1), netbase (= 6.5), openssl-provider-legacy (= 3.6.3-1), patch (= 2.8-2), perl (= 5.44.0~rc1-1), perl-base (= 5.44.0~rc1-1), perl-modules-5.44 (= 5.44.0~rc1-1), pftools (= 3.2.12-3), pkgconf (= 2.5.1-4), pkgconf-bin (= 2.5.1-4), po-debconf (= 1.0.22), python3 (= 3.13.9-3+b1), python3-minimal (= 3.13.9-3+b1), python3.13 (= 3.13.14-1), python3.13-minimal (= 3.13.14-1), readline-common (= 8.3-4), rpcsvc-proto (= 1.4.4-1), sed (= 4.9-3), sensible-utils (= 0.0.26), sse4.2-support (= 27+b1), sysvinit-utils (= 3.18-1), tar (= 1.35+dfsg-4), tzdata (= 2026b-1), util-linux (= 2.42.2-1), xz-utils (= 5.8.3-1), zlib1g (= 1:1.3.dfsg+really1.3.2-3) Environment: DEB_BUILD_OPTIONS="parallel=2" LANG="C.UTF-8" LANGUAGE="en_GB:en" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" LD_PRELOAD="libeatmydata.so" SOURCE_DATE_EPOCH="1763059089" +------------------------------------------------------------------------------+ | Package contents Sat, 27 Jun 2026 03:09:49 +0000 | +------------------------------------------------------------------------------+ psortb-dbgsym_3.0.6+dfsg-5+b1_amd64.deb --------------------------------------- new Debian package, version 2.0. size 158064 bytes: control archive=696 bytes. 479 bytes, 12 lines control 401 bytes, 4 lines md5sums Package: psortb-dbgsym Source: psortb (3.0.6+dfsg-5) Version: 3.0.6+dfsg-5+b1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 195 Depends: psortb (= 3.0.6+dfsg-5+b1) Section: debug Priority: optional Description: debug symbols for psortb Build-Ids: 1cec8071b89bd258e7c952dcde3e12bd681a5173 54998d2230f637b689bf845c5a21bced2f283044 8407841d63112e162ff3643571be0509ed5b7bd5 drwxr-xr-x root/root 0 2025-11-13 18:38 ./ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/debug/ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/debug/.build-id/1c/ -rw-r--r-- root/root 90904 2025-11-13 18:38 ./usr/lib/debug/.build-id/1c/ec8071b89bd258e7c952dcde3e12bd681a5173.debug drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/debug/.build-id/54/ -rw-r--r-- root/root 25536 2025-11-13 18:38 ./usr/lib/debug/.build-id/54/998d2230f637b689bf845c5a21bced2f283044.debug drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/debug/.build-id/84/ -rw-r--r-- root/root 40048 2025-11-13 18:38 ./usr/lib/debug/.build-id/84/07841d63112e162ff3643571be0509ed5b7bd5.debug drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 27600 2025-11-13 18:38 ./usr/lib/debug/.dwz/x86_64-linux-gnu/psortb.debug drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/share/ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/share/doc/ lrwxrwxrwx root/root 0 2025-11-13 18:38 ./usr/share/doc/psortb-dbgsym -> psortb psortb_3.0.6+dfsg-5+b1_amd64.deb -------------------------------- new Debian package, version 2.0. size 16372664 bytes: control archive=4896 bytes. 955 bytes, 16 lines control 15647 bytes, 166 lines md5sums Package: psortb Source: psortb (3.0.6+dfsg-5) Version: 3.0.6+dfsg-5+b1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 116760 Depends: libc6 (>= 2.38), libgcc-s1 (>= 3.0), libmodhmm0 (>= 1.0+dfsg), libsquid1t64 (>= 1.9g+cvs20050121), libstdc++6 (>= 13.1), libsvmloc0 (>= 1.0+dfsg), perl (>= 5.44.0~rc1-1), perlapi-5.44.0, libbio-perl-perl, libbio-perl-run-perl, libalgorithm-svm-perl, pftools, librpc-xml-perl Section: science Priority: optional Homepage: https://www.psort.org/ Description: bacterial localization prediction tool PSORTb enables prediction of bacterial protein subcellular localization (SCL) and provides a quick and inexpensive means for gaining insight into protein function, verifying experimental results, annotating newly sequenced bacterial genomes, detecting potential cell surface/secreted drug targets, as well as identifying biomarkers for microbes. drwxr-xr-x root/root 0 2025-11-13 18:38 ./ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/bin/ -rwxr-xr-x root/root 17095 2025-11-13 18:38 ./usr/bin/psort drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/psort/ drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/ drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/ drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/modhmm/ -rw-r--r-- root/root 92681 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/modhmm/S_TMHMM_0.92b.hmg -rw-r--r-- root/root 2542 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/modhmm/amino_multi.pri -rw-r--r-- root/root 345 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/modhmm/replacement_letter_multi.rpl drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/motif/ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/motif/archaea/ -rw-r--r-- root/root 98 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/motif/archaea/changes -rw-r--r-- root/root 2974 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/motif/archaea/motifs.txt -rw-r--r-- root/root 47 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/motif/archaea/notes.txt drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/motif/gramneg/ -rw-r--r-- root/root 5132 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/motif/gramneg/motifs.txt drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/motif/grampos/ -rw-r--r-- root/root 2984 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/motif/grampos/motifs.txt drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/omp-motif/ -rw-r--r-- root/root 8272 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/omp-motif/omp-motifs.txt drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/ drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/archaea/ -rw-r--r-- root/root 47 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/archaea/notes.txt -rw-r--r-- root/root 153 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/archaea/profile_ids -rw-r--r-- root/root 196138 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/archaea/ps_ALL drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/gramneg/ -rw-r--r-- root/root 111 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/gramneg/profile_ids -rw-r--r-- root/root 176576 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/gramneg/ps_ALL drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/grampos/ -rw-r--r-- root/root 153 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/grampos/profile_ids -rw-r--r-- root/root 196138 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/profile/grampos/ps_ALL drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/sclblast/ drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/archaea/ -rw-r--r-- root/root 115 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/sclblast/archaea/notes -rw-r--r-- root/root 5037752 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/sclblast/archaea/sclblast -rw-r--r-- root/root 1265601 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/sclblast/archaea/sclblast+swissprot+some_manual -rw-r--r-- root/root 162719 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/archaea/sclblast.pos -rw-r--r-- root/root 117068 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/archaea/sclblast.pot -rw-r--r-- root/root 16384 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/archaea/sclblast.ptf -rw-r--r-- root/root 39024 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/archaea/sclblast.pto drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/gramneg/ -rw-r--r-- root/root 5721279 2017-10-24 22:32 ./usr/lib/psort/conf/analysis/sclblast/gramneg/sclblast -rw-r--r-- root/root 188604 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/gramneg/sclblast.pos -rw-r--r-- root/root 135860 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/gramneg/sclblast.pot -rw-r--r-- root/root 16384 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/gramneg/sclblast.ptf -rw-r--r-- root/root 45288 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/gramneg/sclblast.pto drwxr-xr-x root/root 0 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/grampos/ -rw-r--r-- root/root 4657409 2017-10-24 22:33 ./usr/lib/psort/conf/analysis/sclblast/grampos/sclblast -rw-r--r-- root/root 150493 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/grampos/sclblast.pos -rw-r--r-- root/root 108296 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/grampos/sclblast.pot -rw-r--r-- root/root 16384 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/grampos/sclblast.ptf -rw-r--r-- root/root 36100 2025-11-13 18:38 ./usr/lib/psort/conf/analysis/sclblast/grampos/sclblast.pto -rwxr-xr-x root/root 293 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/sclblast/makedb.sh drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/signal/ drwxr-xr-x root/root 0 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/signal/archaea/ -rwxr-xr-x root/root 458 2017-10-24 22:29 ./usr/lib/psort/conf/analysis/signal/archaea/check-sig -rw-r--r-- root/root 25285 2017-10-24 22:29 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root/root 1282 2025-11-13 18:38 ./usr/share/man/man3/Bio::Tools::PSort::Profile::Match.3pm.gz -rw-r--r-- root/root 1901 2025-11-13 18:38 ./usr/share/man/man3/Bio::Tools::PSort::SVMLoc.3pm.gz -rw-r--r-- root/root 1689 2025-11-13 18:38 ./usr/share/man/man3/Bio::Tools::PSort::SVMLoc::DataSet.3pm.gz -rw-r--r-- root/root 1841 2025-11-13 18:38 ./usr/share/man/man3/Bio::Tools::Run::HMMTOP.3pm.gz -rw-r--r-- root/root 2713 2025-11-13 18:38 ./usr/share/man/man3/Bio::Tools::SVMLoc.3pm.gz -rw-r--r-- root/root 1021 2025-11-13 18:38 ./usr/share/man/man3/Bio::Tools::Signal.3pm.gz +------------------------------------------------------------------------------+ | Post Build Sat, 27 Jun 2026 03:09:50 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Sat, 27 Jun 2026 03:09:50 +0000 | +------------------------------------------------------------------------------+ Purging /build/psortb-wfo2Lh Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Sat, 27 Jun 2026 03:09:50 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: any Build-Space: 259080 Build-Time: 80 Distribution: perl-5.44 Host Architecture: amd64 Install-Time: 12 Job: /srv/debomatic/incoming/psortb_3.0.6+dfsg-5.dsc Machine Architecture: amd64 Package: psortb Package-Time: 100 Source-Version: 3.0.6+dfsg-5 Space: 259080 Status: successful Version: 3.0.6+dfsg-5+b1 -------------------------------------------------------------------------------- Finished at 2026-06-27T03:09:48Z Build needed 00:01:40, 259080k disk space