sbuild (Debian sbuild) 0.85.9 (29 May 2024) on carme.larted.org.uk +==============================================================================+ | allelecount 4.3.0-2 (amd64) Sun, 02 Jun 2024 23:04:30 +0000 | +==============================================================================+ Package: allelecount Version: 4.3.0-2 Source Version: 4.3.0-2 Distribution: perl-5.40-throwaway Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: full I: NOTICE: Log filtering will replace 'var/run/schroot/mount/perl-5.40-amd64-debomatic-0abb2e56-5fed-4402-8fa9-66d63dde6340' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup allelecount_4.3.0-2 perl-5.40-throwaway amd64 -------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup allelecount_4.3.0-2 perl-5.40-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: NOTICE: Log filtering will replace 'build/allelecount-7SSQsR/resolver-fADDQ1' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.40 InRelease [3039 B] Get:1 file:/srv/reprepro perl-5.40 InRelease [3039 B] Get:2 file:/srv/reprepro perl-5.40/main amd64 Packages [598 kB] Hit:3 http://localhost:3142/debian unstable InRelease Hit:4 http://localhost:3142/debian sid InRelease Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/allelecount_4.3.0-2.dsc exists in /srv/debomatic/incoming; copying to chroot I: NOTICE: Log filtering will replace 'build/allelecount-7SSQsR/allelecount-4.3.0' with '<>' I: NOTICE: Log filtering will replace 'build/allelecount-7SSQsR' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libhts-dev, libbz2-dev, libconst-fast-perl, libdevel-cover-perl, libfile-slurp-perl, libfile-which-perl, libipc-system-simple-perl, libjson-perl, libpod-coverage-perl, libtest-fatal-perl, libtry-tiny-perl, perl, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), libhts-dev, libbz2-dev, libconst-fast-perl, libdevel-cover-perl, libfile-slurp-perl, libfile-which-perl, libipc-system-simple-perl, libjson-perl, libpod-coverage-perl, libtest-fatal-perl, libtry-tiny-perl, perl, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [928 B] Get:5 copy:/<>/apt_archive ./ Packages [861 B] Fetched 2398 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... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbrotli1 libbz2-dev libcom-err2 libconst-fast-perl libcurl3t64-gnutls libcurl4-gnutls-dev libdata-optlist-perl libdebhelper-perl libdeflate-dev libdeflate0 libdevel-cover-perl libdevel-symdump-perl libelf1t64 libfakeroot libfile-slurp-perl libfile-stripnondeterminism-perl libfile-which-perl libgssapi-krb5-2 libhtml-parser-perl libhtml-tagset-perl libhts-dev libhts3t64 libhtscodecs2 libicu72 libipc-system-simple-perl libjson-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblzma-dev libmagic-mgc libmagic1t64 libnghttp2-14 libparams-util-perl libpipeline1 libpod-coverage-perl libpod-parser-perl libpsl5t64 librtmp1 libssh2-1t64 libsub-exporter-perl libsub-exporter-progressive-perl libsub-install-perl libtest-fatal-perl libtool libtry-tiny-perl libuchardet0 liburi-perl libxml2 m4 man-db po-debconf sensible-utils zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libcurl4-doc libgnutls28-dev libidn-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev pkgconf libbrowser-open-perl libcapture-tiny-perl libclass-xsaccessor-perl libjson-maybexs-perl libmoo-perl libnamespace-clean-perl libppi-html-perl | perltidy libsereal-decoder-perl libsereal-encoder-perl libterm-size-perl libtest-differences-perl krb5-doc krb5-user libdata-dump-perl liblzma-doc libtool-doc gfortran | fortran95-compiler gcj-jdk libsub-name-perl libbusiness-isbn-perl libregexp-ipv6-perl libwww-perl m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx bzip2-doc ca-certificates libtemplate-perl libarchive-cpio-perl libhttp-message-perl libjson-xs-perl krb5-locales publicsuffix libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbrotli1 libbz2-dev libcom-err2 libconst-fast-perl libcurl3t64-gnutls libcurl4-gnutls-dev libdata-optlist-perl libdebhelper-perl libdeflate-dev libdeflate0 libdevel-cover-perl libdevel-symdump-perl libelf1t64 libfakeroot libfile-slurp-perl libfile-stripnondeterminism-perl libfile-which-perl libgssapi-krb5-2 libhtml-parser-perl libhtml-tagset-perl libhts-dev libhts3t64 libhtscodecs2 libicu72 libipc-system-simple-perl libjson-perl libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblzma-dev libmagic-mgc libmagic1t64 libnghttp2-14 libparams-util-perl libpipeline1 libpod-coverage-perl libpod-parser-perl libpsl5t64 librtmp1 libssh2-1t64 libsub-exporter-perl libsub-exporter-progressive-perl libsub-install-perl libtest-fatal-perl libtool libtry-tiny-perl libuchardet0 liburi-perl libxml2 m4 man-db po-debconf sbuild-build-depends-main-dummy sensible-utils zlib1g-dev 0 upgraded, 72 newly installed, 0 to remove and 0 not upgraded. Need to get 25.5 MB/25.8 MB of archives. After this operation, 94.1 MB of additional disk space will be used. Get:1 file:/srv/reprepro perl-5.40/main amd64 libparams-util-perl amd64 1.102-3+b1 [24.3 kB] Get:2 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [968 B] Get:3 file:/srv/reprepro perl-5.40/main amd64 libhtml-parser-perl amd64 3.82-1+b1 [99.2 kB] Get:4 file:/srv/reprepro perl-5.40/main amd64 libdevel-cover-perl amd64 1.42-1+b1 [186 kB] Get:5 http://localhost:3142/debian unstable/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get:6 http://localhost:3142/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get:7 http://localhost:3142/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get:8 http://localhost:3142/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get:9 http://localhost:3142/debian unstable/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get:10 http://localhost:3142/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get:11 http://localhost:3142/debian unstable/main amd64 groff-base amd64 1.23.0-4 [1180 kB] Get:12 http://localhost:3142/debian unstable/main amd64 bsdextrautils amd64 2.40.1-7 [95.9 kB] Get:13 http://localhost:3142/debian unstable/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get:14 http://localhost:3142/debian unstable/main amd64 man-db amd64 2.12.1-1 [1411 kB] Get:15 http://localhost:3142/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get:16 http://localhost:3142/debian unstable/main amd64 autoconf all 2.71-3 [332 kB] Get:17 http://localhost:3142/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:18 http://localhost:3142/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:19 http://localhost:3142/debian unstable/main amd64 autopoint all 0.21-14 [496 kB] Get:20 http://localhost:3142/debian unstable/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get:21 http://localhost:3142/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get:22 http://localhost:3142/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get:23 http://localhost:3142/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:24 http://localhost:3142/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get:25 http://localhost:3142/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get:26 http://localhost:3142/debian unstable/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get:27 http://localhost:3142/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:28 http://localhost:3142/debian unstable/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get:29 http://localhost:3142/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg-2 [670 kB] Get:30 http://localhost:3142/debian unstable/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get:31 http://localhost:3142/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:32 http://localhost:3142/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:33 http://localhost:3142/debian unstable/main amd64 debhelper all 13.15.3 [901 kB] Get:34 http://localhost:3142/debian unstable/main amd64 libfakeroot amd64 1.34-1 [28.9 kB] Get:35 http://localhost:3142/debian unstable/main amd64 fakeroot amd64 1.34-1 [74.0 kB] Get:36 http://localhost:3142/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b3 [305 kB] Get:37 http://localhost:3142/debian unstable/main amd64 libbz2-dev amd64 1.0.8-5.1 [31.3 kB] Get:38 http://localhost:3142/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get:39 http://localhost:3142/debian unstable/main amd64 libsub-install-perl all 0.929-1 [10.5 kB] Get:40 http://localhost:3142/debian unstable/main amd64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get:41 http://localhost:3142/debian unstable/main amd64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get:42 http://localhost:3142/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get:43 http://localhost:3142/debian unstable/main amd64 libconst-fast-perl all 0.014-2 [8792 B] Get:44 http://localhost:3142/debian unstable/main amd64 libkrb5support0 amd64 1.20.1-6+b1 [33.3 kB] Get:45 http://localhost:3142/debian unstable/main amd64 libk5crypto3 amd64 1.20.1-6+b1 [79.8 kB] Get:46 http://localhost:3142/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:47 http://localhost:3142/debian unstable/main amd64 libkrb5-3 amd64 1.20.1-6+b1 [333 kB] Get:48 http://localhost:3142/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.20.1-6+b1 [135 kB] Get:49 http://localhost:3142/debian unstable/main amd64 libnghttp2-14 amd64 1.61.0-1+b1 [75.6 kB] Get:50 http://localhost:3142/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:51 http://localhost:3142/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:52 http://localhost:3142/debian unstable/main amd64 libssh2-1t64 amd64 1.11.0-5 [215 kB] Get:53 http://localhost:3142/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.8.0-1 [434 kB] Get:54 http://localhost:3142/debian unstable/main amd64 libcurl4-gnutls-dev amd64 8.8.0-1 [540 kB] Get:55 http://localhost:3142/debian unstable/main amd64 libdeflate0 amd64 1.20-1 [46.0 kB] Get:56 http://localhost:3142/debian unstable/main amd64 libdeflate-dev amd64 1.20-1 [54.5 kB] Get:57 http://localhost:3142/debian unstable/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get:58 http://localhost:3142/debian unstable/main amd64 liburi-perl all 5.28-1 [98.6 kB] Get:59 http://localhost:3142/debian unstable/main amd64 libdevel-symdump-perl all 2.18-5 [15.8 kB] Get:60 http://localhost:3142/debian unstable/main amd64 libfile-slurp-perl all 9999.32-2 [26.7 kB] Get:61 http://localhost:3142/debian unstable/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get:62 http://localhost:3142/debian unstable/main amd64 libhtscodecs2 amd64 1.6.0-1+b1 [93.0 kB] Get:63 http://localhost:3142/debian unstable/main amd64 libhts3t64 amd64 1.20+ds-1 [452 kB] Get:64 http://localhost:3142/debian unstable/main amd64 liblzma-dev amd64 5.6.1+really5.4.5-1 [293 kB] Get:65 http://localhost:3142/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get:66 http://localhost:3142/debian unstable/main amd64 libhts-dev amd64 1.20+ds-1 [1684 kB] Get:67 http://localhost:3142/debian unstable/main amd64 libipc-system-simple-perl all 1.30-2 [26.8 kB] Get:68 http://localhost:3142/debian unstable/main amd64 libjson-perl all 4.10000-1 [87.5 kB] Get:69 http://localhost:3142/debian unstable/main amd64 libpod-parser-perl all 1.67-1 [94.1 kB] Get:70 http://localhost:3142/debian unstable/main amd64 libpod-coverage-perl all 0.23-2 [22.1 kB] Get:71 http://localhost:3142/debian unstable/main amd64 libtry-tiny-perl all 0.31-2 [22.6 kB] Get:72 http://localhost:3142/debian unstable/main amd64 libtest-fatal-perl all 0.017-1 [13.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 25.5 MB in 0s (117 MB/s) Selecting previously unselected package sensible-utils. (Reading database ... 21779 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-14+b1_amd64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-4_amd64.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.1-7_amd64.deb ... Unpacking bsdextrautils (2.40.1-7) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.7-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.12.1-1_amd64.deb ... Unpacking man-db (2.12.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.191-1+b1_amd64.deb ... Unpacking libelf1t64:amd64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../23-libicu72_72.1-4+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-4+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../24-libxml2_2.12.7+dfsg-2_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg-2) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.21-14+b1_amd64.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Selecting previously unselected package libfakeroot:amd64. Preparing to unpack .../29-libfakeroot_1.34-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.34-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../30-fakeroot_1.34-1_amd64.deb ... Unpacking fakeroot (1.34-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../31-libbrotli1_1.1.0-2+b3_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b3) ... Selecting previously unselected package libbz2-dev:amd64. Preparing to unpack .../32-libbz2-dev_1.0.8-5.1_amd64.deb ... Unpacking libbz2-dev:amd64 (1.0.8-5.1) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../33-libcom-err2_1.47.1-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1) ... Selecting previously unselected package libparams-util-perl. Preparing to unpack .../34-libparams-util-perl_1.102-3+b1_amd64.deb ... Unpacking libparams-util-perl (1.102-3+b1) ... Selecting previously unselected package libsub-install-perl. Preparing to unpack .../35-libsub-install-perl_0.929-1_all.deb ... Unpacking libsub-install-perl (0.929-1) ... Selecting previously unselected package libdata-optlist-perl. Preparing to unpack .../36-libdata-optlist-perl_0.114-1_all.deb ... Unpacking libdata-optlist-perl (0.114-1) ... Selecting previously unselected package libsub-exporter-perl. Preparing to unpack .../37-libsub-exporter-perl_0.990-1_all.deb ... Unpacking libsub-exporter-perl (0.990-1) ... Selecting previously unselected package libsub-exporter-progressive-perl. Preparing to unpack .../38-libsub-exporter-progressive-perl_0.001013-3_all.deb ... Unpacking libsub-exporter-progressive-perl (0.001013-3) ... Selecting previously unselected package libconst-fast-perl. Preparing to unpack .../39-libconst-fast-perl_0.014-2_all.deb ... Unpacking libconst-fast-perl (0.014-2) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../40-libkrb5support0_1.20.1-6+b1_amd64.deb ... Unpacking libkrb5support0:amd64 (1.20.1-6+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../41-libk5crypto3_1.20.1-6+b1_amd64.deb ... Unpacking libk5crypto3:amd64 (1.20.1-6+b1) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../42-libkeyutils1_1.6.3-3_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-3) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../43-libkrb5-3_1.20.1-6+b1_amd64.deb ... Unpacking libkrb5-3:amd64 (1.20.1-6+b1) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../44-libgssapi-krb5-2_1.20.1-6+b1_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.20.1-6+b1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../45-libnghttp2-14_1.61.0-1+b1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.61.0-1+b1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../46-libpsl5t64_0.21.2-1.1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../47-librtmp1_2.4+20151223.gitfa8646d.1-2+b4_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../48-libssh2-1t64_1.11.0-5_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.0-5) ... Selecting previously unselected package libcurl3t64-gnutls:amd64. Preparing to unpack .../49-libcurl3t64-gnutls_8.8.0-1_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.8.0-1) ... Selecting previously unselected package libcurl4-gnutls-dev:amd64. Preparing to unpack .../50-libcurl4-gnutls-dev_8.8.0-1_amd64.deb ... Unpacking libcurl4-gnutls-dev:amd64 (8.8.0-1) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../51-libdeflate0_1.20-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.20-1) ... Selecting previously unselected package libdeflate-dev:amd64. Preparing to unpack .../52-libdeflate-dev_1.20-1_amd64.deb ... Unpacking libdeflate-dev:amd64 (1.20-1) ... Selecting previously unselected package libhtml-tagset-perl. Preparing to unpack .../53-libhtml-tagset-perl_3.24-1_all.deb ... Unpacking libhtml-tagset-perl (3.24-1) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../54-liburi-perl_5.28-1_all.deb ... Unpacking liburi-perl (5.28-1) ... Selecting previously unselected package libhtml-parser-perl:amd64. Preparing to unpack .../55-libhtml-parser-perl_3.82-1+b1_amd64.deb ... Unpacking libhtml-parser-perl:amd64 (3.82-1+b1) ... Selecting previously unselected package libdevel-cover-perl. Preparing to unpack .../56-libdevel-cover-perl_1.42-1+b1_amd64.deb ... Unpacking libdevel-cover-perl (1.42-1+b1) ... Selecting previously unselected package libdevel-symdump-perl. Preparing to unpack .../57-libdevel-symdump-perl_2.18-5_all.deb ... Unpacking libdevel-symdump-perl (2.18-5) ... Selecting previously unselected package libfile-slurp-perl. Preparing to unpack .../58-libfile-slurp-perl_9999.32-2_all.deb ... Unpacking libfile-slurp-perl (9999.32-2) ... Selecting previously unselected package libfile-which-perl. Preparing to unpack .../59-libfile-which-perl_1.27-2_all.deb ... Unpacking libfile-which-perl (1.27-2) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../60-libhtscodecs2_1.6.0-1+b1_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.0-1+b1) ... Selecting previously unselected package libhts3t64:amd64. Preparing to unpack .../61-libhts3t64_1.20+ds-1_amd64.deb ... Unpacking libhts3t64:amd64 (1.20+ds-1) ... Selecting previously unselected package liblzma-dev:amd64. Preparing to unpack .../62-liblzma-dev_5.6.1+really5.4.5-1_amd64.deb ... Unpacking liblzma-dev:amd64 (5.6.1+really5.4.5-1) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../63-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) ... Selecting previously unselected package libhts-dev:amd64. Preparing to unpack .../64-libhts-dev_1.20+ds-1_amd64.deb ... Unpacking libhts-dev:amd64 (1.20+ds-1) ... Selecting previously unselected package libipc-system-simple-perl. Preparing to unpack .../65-libipc-system-simple-perl_1.30-2_all.deb ... Unpacking libipc-system-simple-perl (1.30-2) ... Selecting previously unselected package libjson-perl. Preparing to unpack .../66-libjson-perl_4.10000-1_all.deb ... Unpacking libjson-perl (4.10000-1) ... Selecting previously unselected package libpod-parser-perl. Preparing to unpack .../67-libpod-parser-perl_1.67-1_all.deb ... Adding 'diversion of /usr/bin/podselect to /usr/bin/podselect.bundled by libpod-parser-perl' Adding 'diversion of /usr/share/man/man1/podselect.1.gz to /usr/share/man/man1/podselect.bundled.1.gz by libpod-parser-perl' Unpacking libpod-parser-perl (1.67-1) ... Selecting previously unselected package libpod-coverage-perl. Preparing to unpack .../68-libpod-coverage-perl_0.23-2_all.deb ... Unpacking libpod-coverage-perl (0.23-2) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../69-libtry-tiny-perl_0.31-2_all.deb ... Unpacking libtry-tiny-perl (0.31-2) ... Selecting previously unselected package libtest-fatal-perl. Preparing to unpack .../70-libtest-fatal-perl_0.017-1_all.deb ... Unpacking libtest-fatal-perl (0.017-1) ... Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../71-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libhtscodecs2:amd64 (1.6.0-1+b1) ... Setting up libpipeline1:amd64 (1.5.7-2) ... Setting up libfile-which-perl (1.27-2) ... Setting up libkeyutils1:amd64 (1.6.3-3) ... Setting up libfile-slurp-perl (9999.32-2) ... Setting up libicu72:amd64 (72.1-4+b1) ... Setting up bsdextrautils (2.40.1-7) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libhtml-tagset-perl (3.24-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libbrotli1:amd64 (1.1.0-2+b3) ... Setting up libmagic1t64:amd64 (1:5.45-3) ... Setting up libtry-tiny-perl (0.31-2) ... Setting up libpsl5t64:amd64 (0.21.2-1.1) ... Setting up libnghttp2-14:amd64 (1.61.0-1+b1) ... Setting up libtest-fatal-perl (0.017-1) ... Setting up libdeflate0:amd64 (1.20-1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up libcom-err2:amd64 (1.47.1-1) ... Setting up file (1:5.45-3) ... Setting up libfakeroot:amd64 (1.34-1) ... Setting up libsub-install-perl (0.929-1) ... Setting up libelf1t64:amd64 (0.191-1+b1) ... Setting up libkrb5support0:amd64 (1.20.1-6+b1) ... Setting up fakeroot (1.34-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up autotools-dev (20220109.1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Setting up libipc-system-simple-perl (1.30-2) ... Setting up libpod-parser-perl (1.67-1) ... Setting up autopoint (0.21-14) ... Setting up libk5crypto3:amd64 (1.20.1-6+b1) ... Setting up libparams-util-perl (1.102-3+b1) ... Setting up autoconf (2.71-3) ... Setting up libsub-exporter-progressive-perl (0.001013-3) ... Setting up liblzma-dev:amd64 (5.6.1+really5.4.5-1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up libjson-perl (4.10000-1) ... Setting up libkrb5-3:amd64 (1.20.1-6+b1) ... Setting up libdevel-symdump-perl (2.18-5) ... Setting up libssh2-1t64:amd64 (1.11.0-5) ... Setting up libdeflate-dev:amd64 (1.20-1) ... Setting up libxml2:amd64 (2.12.7+dfsg-2) ... Setting up liburi-perl (5.28-1) ... Setting up libbz2-dev:amd64 (1.0.8-5.1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up libpod-coverage-perl (0.23-2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-6+b1) ... Setting up libdata-optlist-perl (0.114-1) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-4) ... Setting up libhtml-parser-perl:amd64 (3.82-1+b1) ... Setting up libsub-exporter-perl (0.990-1) ... Setting up libdevel-cover-perl (1.42-1+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3t64-gnutls:amd64 (8.8.0-1) ... Setting up libcurl4-gnutls-dev:amd64 (8.8.0-1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libconst-fast-perl (0.014-2) ... Setting up libhts3t64:amd64 (1.20+ds-1) ... Setting up libhts-dev:amd64 (1.20+ds-1) ... Setting up debhelper (13.15.3) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.38-12) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) amd64 (x86_64) Toolchain package versions: binutils_2.42-4 dpkg-dev_1.22.6 g++-13_13.2.0-25 gcc-13_13.2.0-25 libc6-dev_2.38-12 libstdc++-13-dev_13.2.0-25 libstdc++6_14.1.0-1 linux-libc-dev_6.8.12-1 Package versions: adduser_3.137 apt_2.9.4 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-14 autotools-dev_20220109.1 base-files_13.2 base-passwd_3.6.3 bash_5.2.21-2+b1 binutils_2.42-4 binutils-common_2.42-4 binutils-x86-64-linux-gnu_2.42-4 bsdextrautils_2.40.1-7 bsdutils_1:2.40.1-7 build-essential_12.10 bzip2_1.0.8-5.1 coreutils_9.4-3.1 cpp_4:13.2.0-7 cpp-13_13.2.0-25 cpp-13-x86-64-linux-gnu_13.2.0-25 cpp-x86-64-linux-gnu_4:13.2.0-7 dash_0.5.12-8 debconf_1.5.86 debhelper_13.15.3 debian-archive-keyring_2023.4 debianutils_5.17 dh-autoreconf_20 dh-strip-nondeterminism_1.14.0-1 diffutils_1:3.10-1 dirmngr_2.2.43-7 dpkg_1.22.6 dpkg-dev_1.22.6 dwz_0.15-1+b1 eatmydata_131-2 fakeroot_1.34-1 file_1:5.45-3 findutils_4.9.0-6 g++_4:13.2.0-7 g++-13_13.2.0-25 g++-13-x86-64-linux-gnu_13.2.0-25 g++-x86-64-linux-gnu_4:13.2.0-7 gcc_4:13.2.0-7 gcc-13_13.2.0-25 gcc-13-base_13.2.0-25 gcc-13-x86-64-linux-gnu_13.2.0-25 gcc-14-base_14.1.0-1 gcc-x86-64-linux-gnu_4:13.2.0-7 gettext_0.21-14+b1 gettext-base_0.21-14+b1 gnupg_2.2.43-7 gnupg-l10n_2.2.43-7 gnupg-utils_2.2.43-7 gpg_2.2.43-7 gpg-agent_2.2.43-7 gpg-wks-client_2.2.43-7 gpgconf_2.2.43-7 gpgsm_2.2.43-7 gpgv_2.2.43-7 grep_3.11-4 groff-base_1.23.0-4 gzip_1.12-1.1 hostname_3.23+nmu2 init-system-helpers_1.66 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-2 libapt-pkg6.0t64_2.9.4 libarchive-zip-perl_1.68-1 libasan8_14.1.0-1 libassuan0_2.5.6-1+b1 libatomic1_14.1.0-1 libattr1_1:2.5.2-1 libaudit-common_1:3.1.2-2.1 libaudit1_1:3.1.2-2.1 libbinutils_2.42-4 libblkid1_2.40.1-7 libbrotli1_1.1.0-2+b3 libbz2-1.0_1.0.8-5.1 libbz2-dev_1.0.8-5.1 libc-bin_2.38-12 libc-dev-bin_2.38-12 libc-l10n_2.38-12 libc6_2.38-12 libc6-dev_2.38-12 libcap-ng0_0.8.5-1 libcap2_1:2.66-5 libcc1-0_14.1.0-1 libcom-err2_1.47.1-1 libconst-fast-perl_0.014-2 libcrypt-dev_1:4.4.36-4 libcrypt1_1:4.4.36-4 libctf-nobfd0_2.42-4 libctf0_2.42-4 libcurl3t64-gnutls_8.8.0-1 libcurl4-gnutls-dev_8.8.0-1 libdata-optlist-perl_0.114-1 libdb5.3t64_5.3.28+dfsg2-7 libdebconfclient0_0.272 libdebhelper-perl_13.15.3 libdeflate-dev_1.20-1 libdeflate0_1.20-1 libdevel-cover-perl_1.42-1+b1 libdevel-symdump-perl_2.18-5 libdpkg-perl_1.22.6 libeatmydata1_131-2 libelf1t64_0.191-1+b1 libfakeroot_1.34-1 libffi8_3.4.6-1 libfile-slurp-perl_9999.32-2 libfile-stripnondeterminism-perl_1.14.0-1 libfile-which-perl_1.27-2 libgcc-13-dev_13.2.0-25 libgcc-s1_14.1.0-1 libgcrypt20_1.10.3-3 libgdbm-compat4t64_1.23-5.1+b1 libgdbm6t64_1.23-5.1+b1 libgmp10_2:6.3.0+dfsg-2+b1 libgnutls30t64_3.8.5-4 libgomp1_14.1.0-1 libgpg-error0_1.49-2 libgprofng0_2.42-4 libgssapi-krb5-2_1.20.1-6+b1 libhogweed6t64_3.9.1-2.2 libhtml-parser-perl_3.82-1+b1 libhtml-tagset-perl_3.24-1 libhts-dev_1.20+ds-1 libhts3t64_1.20+ds-1 libhtscodecs2_1.6.0-1+b1 libhwasan0_14.1.0-1 libicu72_72.1-4+b1 libidn2-0_2.3.7-2 libipc-system-simple-perl_1.30-2 libisl23_0.26-3+b2 libitm1_14.1.0-1 libjansson4_2.14-2+b2 libjson-perl_4.10000-1 libk5crypto3_1.20.1-6+b1 libkeyutils1_1.6.3-3 libkrb5-3_1.20.1-6+b1 libkrb5support0_1.20.1-6+b1 libksba8_1.6.6-1 libldap-2.5-0_2.5.17+dfsg-1+b1 liblsan0_14.1.0-1 liblz4-1_1.9.4-2 liblzma-dev_5.6.1+really5.4.5-1 liblzma5_5.6.1+really5.4.5-1 libmagic-mgc_1:5.45-3 libmagic1t64_1:5.45-3 libmd0_1.1.0-2 libmount1_2.40.1-7 libmpc3_1.3.1-1+b2 libmpfr6_4.2.1-1+b1 libncursesw6_6.5-2 libnettle8t64_3.9.1-2.2 libnghttp2-14_1.61.0-1+b1 libnpth0t64_1.6-3.1 libp11-kit0_0.25.3-5 libpam-modules_1.5.3-7 libpam-modules-bin_1.5.3-7 libpam-runtime_1.5.3-7 libpam0g_1.5.3-7 libparams-util-perl_1.102-3+b1 libpcre2-8-0_10.42-4+b1 libperl5.38t64_5.38.2-5 libperl5.40_5.40.0~rc1-1 libpipeline1_1.5.7-2 libpod-coverage-perl_0.23-2 libpod-parser-perl_1.67-1 libpsl5t64_0.21.2-1.1 libquadmath0_14.1.0-1 libreadline8t64_8.2-4 librtmp1_2.4+20151223.gitfa8646d.1-2+b4 libsasl2-2_2.1.28+dfsg1-6 libsasl2-modules-db_2.1.28+dfsg1-6 libseccomp2_2.5.5-1 libselinux1_3.5-2+b2 libsemanage-common_3.5-1 libsemanage2_3.5-1+b3 libsepol2_3.5-2+b1 libsframe1_2.42-4 libsmartcols1_2.40.1-7 libsqlite3-0_3.46.0-1 libssh2-1t64_1.11.0-5 libssl3t64_3.2.1-3 libstdc++-13-dev_13.2.0-25 libstdc++6_14.1.0-1 libsub-exporter-perl_0.990-1 libsub-exporter-progressive-perl_0.001013-3 libsub-install-perl_0.929-1 libsystemd0_256~rc3-7 libtasn1-6_4.19.0-3+b2 libtest-fatal-perl_0.017-1 libtinfo6_6.5-2 libtool_2.4.7-7 libtry-tiny-perl_0.31-2 libtsan2_14.1.0-1 libubsan1_14.1.0-1 libuchardet0_0.0.8-1+b1 libudev1_256~rc3-7 libunistring5_1.2-1 liburi-perl_5.28-1 libuuid1_2.40.1-7 libxml2_2.12.7+dfsg-2 libxxhash0_0.8.2-2+b1 libzstd1_1.5.5+dfsg2-2 linux-libc-dev_6.8.12-1 locales-all_2.38-12 login_1:4.13+dfsg1-4 m4_1.4.19-4 make_4.3-4.1 man-db_2.12.1-1 mawk_1.3.4.20240123-1 ncurses-base_6.5-2 ncurses-bin_6.5-2 passwd_1:4.13+dfsg1-4 patch_2.7.6-7 perl_5.40.0~rc1-1 perl-base_5.40.0~rc1-1 perl-modules-5.38_5.38.2-5 perl-modules-5.40_5.40.0~rc1-1 pinentry-curses_1.2.1-3+b2 po-debconf_1.0.21+nmu1 readline-common_8.2-4 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.22 sysvinit-utils_3.09-1 tar_1.35+dfsg-3 usr-is-merged_39 util-linux_2.40.1-7 xz-utils_5.6.1+really5.4.5-1 zlib1g_1:1.3.dfsg+really1.3.1-1 zlib1g-dev_1:1.3.dfsg+really1.3.1-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: allelecount Binary: allelecount, liballelecount-perl Architecture: any all Version: 4.3.0-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/cancerit/alleleCount Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/allelecount Vcs-Git: https://salsa.debian.org/med-team/allelecount.git Testsuite: autopkgtest, autopkgtest-pkg-perl Build-Depends: debhelper-compat (= 13), libhts-dev, libbz2-dev, libconst-fast-perl , libdevel-cover-perl , libfile-slurp-perl , libfile-which-perl , libipc-system-simple-perl , libjson-perl , libpod-coverage-perl , libtest-fatal-perl , libtry-tiny-perl , perl Package-List: allelecount deb science optional arch=any liballelecount-perl deb perl optional arch=all Checksums-Sha1: c2e81c130d21010097c4e304d46881f808bf7123 1390569 allelecount_4.3.0.orig.tar.gz 2dc1bdb12fa8a0ebe22e33203eac58a046003168 15344 allelecount_4.3.0-2.debian.tar.xz Checksums-Sha256: 5363ae12c2385c962728336a4498b1a29c9eaa3d4a24492d0debf897771cfd3c 1390569 allelecount_4.3.0.orig.tar.gz 3c91d8a5f47b97d14d3eb1b8d80d0ea59b5af5657ee1241e760d319aa4213484 15344 allelecount_4.3.0-2.debian.tar.xz Files: 331975437e661cab1a950c3b3d2cc5c2 1390569 allelecount_4.3.0.orig.tar.gz 602e9071daaa2fab85405849f1967510 15344 allelecount_4.3.0-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmM2z+gRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEtsw//Qxp7CTLmPsCuhil+XLq5onAbSRiuW5HY zGCqeJ8sVvTu16ReHCYMm6houcgqY1AnNMdBR3Yzu+xMngBx1eBO+NC6lr0549Is rlUAAhAP/Wts1hnoibZ/MtJHgGogitMt91OVAlqhCWNuOG9vUkYCtn3xZ6q82FPj 0Myi4wiepRLS1NlmkIoR+0Z7mG2xCxEzP/oS+54q8H+cX/NZBbW2/tlE5+CQKOfY ewxgF31nBfbEtNsOzDUnKVyZKqMxc3QOqfQDLaUYv2Ev/wkmk3jfjo6/0kuUhqbS TcovOu0KR3MgFjDhCXSkdh34b8SP4qrwUWYiAy50N0tyIMLAcv/NAsAx3jAwrb2V CP/G2QBLKMayeTb8Rj4CuWsxx7h6YuqvonBzIqvivCLhZ4zKLeticz/0whdpCgEw tLSyUxjJhMj7wDycbMhHLxMZYFSmUnW8TeJV8Bd5hPgFuPc4qz135g+0jCEMhsUN FBg+xfs9RDqjMTKyDG+PwCnuvzd7Z7zHwYMU2lQN+Ka9p7AGWiZrRsNfzJnnzscJ UhKOTe453iSvLjbmiAlmSbD8ilw8ULE2f+lJm86hcgzEm/wTgR+bhwJonJWGFvc3 uZOnmFU2MY+0sHPWvlqpDwZfOOyXCqGtjcvopVFuXzHK1KqnHjDtjuHDglcwhD8T 30TIdogJ+Lg= =S+Uj -----END PGP SIGNATURE----- gpgv: Signature made Fri Sep 30 11:15:52 2022 UTC 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 ./allelecount_4.3.0-2.dsc: no acceptable signature found dpkg-source: info: extracting allelecount in /<> dpkg-source: info: unpacking allelecount_4.3.0.orig.tar.gz dpkg-source: info: unpacking allelecount_4.3.0-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Timed Build Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network allelecount_4.3.0-2 perl-5.40-throwaway amd64 -------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network allelecount_4.3.0-2 perl-5.40-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANG=en_GB.UTF-8 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=/<> SCHROOT_ALIAS_NAME=perl-5.40-throwaway-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.40-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.40-amd64-debomatic-0abb2e56-5fed-4402-8fa9-66d63dde6340 SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -rfakeroot -Zxz dpkg-buildpackage: info: source package allelecount dpkg-buildpackage: info: source version 4.3.0-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille 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 '/<>' dh_auto_clean --sourcedirectory=c cd c && make -j2 clean make[2]: Entering directory '/<>/c' rm -f ./src/*.o *~ ./bin/alleleCounter ./bin/* ./tests/tests_log ./tests/bam_access_tests ./src/*.gcda ./src/*.gcov ./src/*.gcno *.gcda *.gcov *.gcno ./tests/*.gcda ./tests/*.gcov ./tests/*.gcno make[2]: Leaving directory '/<>/c' dh_auto_clean --sourcedirectory=perl make[1]: Leaving directory '/<>' dh_clean dpkg-source -Zxz -b . dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building allelecount using existing ./allelecount_4.3.0.orig.tar.gz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: building allelecount in allelecount_4.3.0-2.debian.tar.xz dpkg-source: info: building allelecount in allelecount_4.3.0-2.dsc debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure --sourcedirectory=c dh_auto_configure --sourcedirectory=perl cd perl && /usr/bin/perl Makefile.PL INSTALLDIRS=vendor "OPTIMIZE=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -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=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro -Wl,-z,now" Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for alleleCount Writing MYMETA.yml and MYMETA.json make[1]: Leaving directory '/<>' debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build --sourcedirectory=c cd c && make -j2 "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/c' rm -f ./src/*.o *~ ./bin/alleleCounter ./bin/* ./tests/tests_log ./tests/bam_access_tests ./src/*.gcda ./src/*.gcov ./src/*.gcno *.gcda *.gcov *.gcno ./tests/*.gcda ./tests/*.gcov ./tests/*.gcno mkdir -p ./bin mkdir -p ./htslib_tmp #Do some magic to ensure we compile ALLELECOUNT with the static libhts.a rather than libhts.so ln -fs /libhts.a ./htslib_tmp/libhts.a gcc -O3 -DALLELECOUNTER_VERSION='"4.3.0"' -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -Wall -I/usr/local//include -Isrc/ -I/ -rdynamic -c src/bam_access.c -o src/bam_access.o src/bam_access.c: In function ‘pileupCounts’: src/bam_access.c:132:70: warning: ‘pre_b’ may be used uninitialized [-Wmaybe-uninitialized] 132 | if(!(p->is_del) && qual >= min_base_qual && (absent || pre_b != c)){ | ~~~~~~~~^~~~~~~~~~~~~~ src/bam_access.c:124:25: note: ‘pre_b’ was declared here 124 | uint8_t pre_b; | ^~~~~ gcc -O3 -DALLELECOUNTER_VERSION='"4.3.0"' -I/usr/local//include -Isrc/ -I/ -rdynamic -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -Wall -o ./bin/alleleCounter ./src/bam_access.o -L./htslib_tmp -L/usr/local//lib -lhts -lpthread -lz -lbz2 -llzma -lm -ldl ./src/alleleCounter.c -Wl,-z,relro -Wl,-z,now gcc -O3 -DALLELECOUNTER_VERSION='"4.3.0"' -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -Wall -I/usr/local//include -Isrc/ -I/ -rdynamic ./src/bam_access.o -L./htslib_tmp -lhts -lpthread -lz -lbz2 -llzma -lm -ldl -L/usr/local//lib -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now tests/bam_access_tests.c -o tests/bam_access_tests tests/bam_access_tests.c: In function ‘test_bam_access_get_position_base_counts’: tests/bam_access_tests.c:45:13: warning: variable ‘res’ set but not used [-Wunused-but-set-variable] 45 | int res = bam_access_get_position_base_counts(chr,pos,stats,0,NULL); | ^~~ sh ./tests/runtests.sh Running unit tests: ---- RUNNING: ./tests/bam_access_tests Performing pileup of 11250 reads at 1 198661939 ALL TESTS PASSED Tests run: 1 tests/bam_access_tests PASS remove tmp hts location rm -rf ./htslib_tmp Binaries have been compiled. make[2]: Leaving directory '/<>/c' dh_auto_build --sourcedirectory=perl cd perl && make -j2 make[2]: Entering directory '/<>/perl' cp lib/Sanger/CGP/AlleleCount/Genotype.pm blib/lib/Sanger/CGP/AlleleCount/Genotype.pm cp lib/Sanger/CGP/AlleleCount/ToJson.pm blib/lib/Sanger/CGP/AlleleCount/ToJson.pm cp lib/Sanger/CGP/AlleleCount.pm blib/lib/Sanger/CGP/AlleleCount.pm cp bin/alleleCounter.pl blib/script/alleleCounter.pl cp bin/alleleCounterToJson.pl blib/script/alleleCounterToJson.pl "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/alleleCounter.pl "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/alleleCounterToJson.pl Manifying 2 pod documents Manifying 2 pod documents make[2]: Leaving directory '/<>/perl' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' dh_auto_test --sourcedirectory=c cd c && make -j2 test make[2]: Entering directory '/<>/c' sh ./tests/runtests.sh Running unit tests: ---- RUNNING: ./tests/bam_access_tests Performing pileup of 11250 reads at 1 198661939 ALL TESTS PASSED Tests run: 1 tests/bam_access_tests PASS make[2]: Leaving directory '/<>/c' dh_auto_test --sourcedirectory=perl cd perl && make -j2 test TEST_VERBOSE=1 make[2]: Entering directory '/<>/perl' 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/1_pm_compile.t .. ok 1 - use Sanger::CGP::AlleleCount; ok 2 - use Sanger::CGP::AlleleCount::Genotype; ok 3 - use Sanger::CGP::AlleleCount::ToJson; ok 4 - Check version inheritance exists (Sanger::CGP::AlleleCount) ok 5 - Check version inheritance exists (Sanger::CGP::AlleleCount::Genotype) ok 6 - An object of class 'Sanger::CGP::AlleleCount::Genotype' isa 'Sanger::CGP::AlleleCount::Genotype' ok 7 - Check version inheritance exists (Sanger::CGP::AlleleCount::ToJson) ok 8 - An object of class 'Sanger::CGP::AlleleCount::ToJson' isa 'Sanger::CGP::AlleleCount::ToJson' 1..8 ok t/2_pl_compile.t .. ok 1 - Compilation check: /<>/perl/t/../bin/alleleCounter.pl ok 2 - Compilation check: /<>/perl/t/../bin/alleleCounterToJson.pl 1..2 ok t/genotype.t ...... ok 1 - An object of class 'Sanger::CGP::AlleleCount::Genotype' isa 'Sanger::CGP::AlleleCount::Genotype' ok 2 - An object of class 'Sanger::CGP::AlleleCount::Genotype' isa 'Sanger::CGP::AlleleCount::Genotype' ok 3 - Check execution of loci profile (BAM) ok 4 - Expected result for defaults (BAM) ok 5 - Check execution of loci profile (BAM, pbq=20) ok 6 - Expected result for defaults (BAM, pbq=20) ok 7 - Check execution of loci profile (BAM, mapq=1) ok 8 - Expected result for defaults (BAM, mapq=1) ok 9 - Check execution of snp6 loci profile (BAM) ok 10 - Expected result for defaults (BAM) ok 11 - Check execution of snp6 loci profile (BAM, pbq=20) ok 12 - Expected result for defaults (BAM, pbq=20) ok 13 - Check execution of snp6 loci profile (BAM, mapq=1) ok 14 - Expected result for defaults (BAM, mapq>0) ok 15 - Check execution of loci profile (CRAM) ok 16 - Expected result for defaults (CRAM) ok 17 - Check execution of loci profile (CRAM, pbq=20) ok 18 - Expected result for defaults (CRAM, pbq=20) ok 19 - Check execution of loci profile (CRAM, mapq=1) ok 20 - Expected result for defaults (CRAM, mapq=1) ok 21 - Check execution of snp6 loci profile (CRAM) ok 22 - Expected result for defaults (CRAM) ok 23 - Check execution of snp6 loci profile (CRAM, pbq=20) ok 24 - Expected result for defaults (CRAM, pbq=20) ok 25 - Check execution of snp6 loci profile (CRAM, mapq=1) ok 26 - Expected result for defaults (CRAM, mapq=1) 1..26 ok t/tojson.t ........ ok 1 - An object of class 'Sanger::CGP::AlleleCount::ToJson' isa 'Sanger::CGP::AlleleCount::ToJson' ok 2 - Check conversion to JSON 1..2 ok All tests successful. Files=4, Tests=38, 0 wallclock secs ( 0.03 usr 0.00 sys + 0.50 cusr 0.11 csys = 0.64 CPU) Result: PASS make[2]: Leaving directory '/<>/perl' make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install --sourcedirectory=c dh_auto_install --sourcedirectory=perl cd perl && make -j2 install DESTDIR=/<>/debian/tmp AM_UPDATE_INFO_DIR=no PREFIX=/usr make[2]: Entering directory '/<>/perl' Manifying 2 pod documents Manifying 2 pod documents Installing /<>/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount.pm Installing /<>/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount/Genotype.pm Installing /<>/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount/ToJson.pm Installing /<>/debian/tmp/usr/share/man/man1/alleleCounterToJson.pl.1p Installing /<>/debian/tmp/usr/share/man/man1/alleleCounter.pl.1p Installing /<>/debian/tmp/usr/share/man/man3/Sanger::CGP::AlleleCount::ToJson.3pm Installing /<>/debian/tmp/usr/share/man/man3/Sanger::CGP::AlleleCount::Genotype.3pm Installing /<>/debian/tmp/usr/bin/alleleCounter.pl Installing /<>/debian/tmp/usr/bin/alleleCounterToJson.pl make[2]: Leaving directory '/<>/perl' make[1]: Leaving directory '/<>' dh_install dh_installdocs dh_installchangelogs dh_installman dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'allelecount' in '../allelecount_4.3.0-2_amd64.deb'. dpkg-deb: building package 'liballelecount-perl' in '../liballelecount-perl_4.3.0-2_all.deb'. dpkg-deb: building package 'allelecount-dbgsym' in '../allelecount-dbgsym_4.3.0-2_amd64.deb'. dpkg-genbuildinfo -O../allelecount_4.3.0-2_amd64.buildinfo dpkg-genchanges -O../allelecount_4.3.0-2_amd64.changes dpkg-genchanges: info: not including original source code in upload dpkg-source -Zxz --after-build . dpkg-buildpackage: info: binary and diff upload (original source NOT included) -------------------------------------------------------------------------------- Build finished at 2024-06-02T23:04:53Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ allelecount_4.3.0-2_amd64.changes: ---------------------------------- Format: 1.8 Date: Fri, 30 Sep 2022 13:13:15 +0200 Source: allelecount Binary: allelecount allelecount-dbgsym liballelecount-perl Architecture: source amd64 all Version: 4.3.0-2 Distribution: perl-5.40-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: allelecount - NGS copy number algorithms liballelecount-perl - Perl interface to NGS copy number algorithms Changes: allelecount (4.3.0-2) unstable; urgency=medium . * Fix watch file * Standards-Version: 4.6.1 (routine-update) Checksums-Sha1: d7c82e4c45f6a458a6937d599ba605f71edee316 1501 allelecount_4.3.0-2.dsc e41ca420996def746cded65584d199277f38123f 15352 allelecount_4.3.0-2.debian.tar.xz d19387ce843b357789c68d6591a9de8e2b2b7365 31040 allelecount-dbgsym_4.3.0-2_amd64.deb 248411fe624b6d3cf98660c264d3d1f2ab34be8e 7103 allelecount_4.3.0-2_amd64.buildinfo 321f5897a6d617fb5f69ce48063a3eccc0eb1120 29148 allelecount_4.3.0-2_amd64.deb 1e694ad8161d9202cbd9e8f51dbdb758aa4da7bf 24000 liballelecount-perl_4.3.0-2_all.deb Checksums-Sha256: 0326e749637dd7c7200a3a2ebdd0415f97b562a713a846a1fbfd3a94b6d79b48 1501 allelecount_4.3.0-2.dsc 3d039ad0e22853cb8e63051416858e0b25a8239db5af75d9b0d87193d07cdb20 15352 allelecount_4.3.0-2.debian.tar.xz ce0e7652898e0022a3777eb24766088255f9e402a3f8dcd7aacf790209d146bc 31040 allelecount-dbgsym_4.3.0-2_amd64.deb f4da678115db590d460be83b9fe6ef64cc5bff9acd09a8a5fd4b48b578cbad5a 7103 allelecount_4.3.0-2_amd64.buildinfo 530fb7b580f983a01869fd4f4cb1ea964456c85408f4347a65d2ae4e472cecd3 29148 allelecount_4.3.0-2_amd64.deb feaa0383edb048e3086cc4b6f8b5e7d19ac901b29da98a0b2ba3faa4dc1b559d 24000 liballelecount-perl_4.3.0-2_all.deb Files: 6260cdb19b279a962ff8d0f061db7665 1501 science optional allelecount_4.3.0-2.dsc c9bbd09657d2aa5ad5cbc5a1f4b88f4e 15352 science optional allelecount_4.3.0-2.debian.tar.xz 41fc0a5bf5a27e7733368542db2150e5 31040 debug optional allelecount-dbgsym_4.3.0-2_amd64.deb 61ade7718625659a672139a2d8b8dc15 7103 science optional allelecount_4.3.0-2_amd64.buildinfo 671a0af767cb568e20ced5d4b760258e 29148 science optional allelecount_4.3.0-2_amd64.deb d5a888edc815ba84d32d1112222604c5 24000 perl optional liballelecount-perl_4.3.0-2_all.deb +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: allelecount Binary: allelecount allelecount-dbgsym liballelecount-perl Architecture: all amd64 source Version: 4.3.0-2 Checksums-Md5: 6260cdb19b279a962ff8d0f061db7665 1501 allelecount_4.3.0-2.dsc 41fc0a5bf5a27e7733368542db2150e5 31040 allelecount-dbgsym_4.3.0-2_amd64.deb 671a0af767cb568e20ced5d4b760258e 29148 allelecount_4.3.0-2_amd64.deb d5a888edc815ba84d32d1112222604c5 24000 liballelecount-perl_4.3.0-2_all.deb Checksums-Sha1: d7c82e4c45f6a458a6937d599ba605f71edee316 1501 allelecount_4.3.0-2.dsc d19387ce843b357789c68d6591a9de8e2b2b7365 31040 allelecount-dbgsym_4.3.0-2_amd64.deb 321f5897a6d617fb5f69ce48063a3eccc0eb1120 29148 allelecount_4.3.0-2_amd64.deb 1e694ad8161d9202cbd9e8f51dbdb758aa4da7bf 24000 liballelecount-perl_4.3.0-2_all.deb Checksums-Sha256: 0326e749637dd7c7200a3a2ebdd0415f97b562a713a846a1fbfd3a94b6d79b48 1501 allelecount_4.3.0-2.dsc ce0e7652898e0022a3777eb24766088255f9e402a3f8dcd7aacf790209d146bc 31040 allelecount-dbgsym_4.3.0-2_amd64.deb 530fb7b580f983a01869fd4f4cb1ea964456c85408f4347a65d2ae4e472cecd3 29148 allelecount_4.3.0-2_amd64.deb feaa0383edb048e3086cc4b6f8b5e7d19ac901b29da98a0b2ba3faa4dc1b559d 24000 liballelecount-perl_4.3.0-2_all.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sun, 02 Jun 2024 23:04:53 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-3), automake (= 1:1.16.5-1.3), autopoint (= 0.21-14), autotools-dev (= 20220109.1), base-files (= 13.2), base-passwd (= 3.6.3), bash (= 5.2.21-2+b1), binutils (= 2.42-4), binutils-common (= 2.42-4), binutils-x86-64-linux-gnu (= 2.42-4), bsdextrautils (= 2.40.1-7), bsdutils (= 1:2.40.1-7), build-essential (= 12.10), bzip2 (= 1.0.8-5.1), coreutils (= 9.4-3.1), cpp (= 4:13.2.0-7), cpp-13 (= 13.2.0-25), cpp-13-x86-64-linux-gnu (= 13.2.0-25), cpp-x86-64-linux-gnu (= 4:13.2.0-7), dash (= 0.5.12-8), debconf (= 1.5.86), debhelper (= 13.15.3), debianutils (= 5.17), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.14.0-1), diffutils (= 1:3.10-1), dpkg (= 1.22.6), dpkg-dev (= 1.22.6), dwz (= 0.15-1+b1), file (= 1:5.45-3), findutils (= 4.9.0-6), g++ (= 4:13.2.0-7), g++-13 (= 13.2.0-25), g++-13-x86-64-linux-gnu (= 13.2.0-25), g++-x86-64-linux-gnu (= 4:13.2.0-7), gcc (= 4:13.2.0-7), gcc-13 (= 13.2.0-25), gcc-13-base (= 13.2.0-25), gcc-13-x86-64-linux-gnu (= 13.2.0-25), gcc-14-base (= 14.1.0-1), gcc-x86-64-linux-gnu (= 4:13.2.0-7), gettext (= 0.21-14+b1), gettext-base (= 0.21-14+b1), grep (= 3.11-4), groff-base (= 1.23.0-4), gzip (= 1.12-1.1), hostname (= 3.23+nmu2), init-system-helpers (= 1.66), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-2), libarchive-zip-perl (= 1.68-1), libasan8 (= 14.1.0-1), libatomic1 (= 14.1.0-1), libattr1 (= 1:2.5.2-1), libaudit-common (= 1:3.1.2-2.1), libaudit1 (= 1:3.1.2-2.1), libbinutils (= 2.42-4), libblkid1 (= 2.40.1-7), libbrotli1 (= 1.1.0-2+b3), libbz2-1.0 (= 1.0.8-5.1), libbz2-dev (= 1.0.8-5.1), libc-bin (= 2.38-12), libc-dev-bin (= 2.38-12), libc6 (= 2.38-12), libc6-dev (= 2.38-12), libcap-ng0 (= 0.8.5-1), libcap2 (= 1:2.66-5), libcc1-0 (= 14.1.0-1), libcom-err2 (= 1.47.1-1), libconst-fast-perl (= 0.014-2), libcrypt-dev (= 1:4.4.36-4), libcrypt1 (= 1:4.4.36-4), libctf-nobfd0 (= 2.42-4), libctf0 (= 2.42-4), libcurl3t64-gnutls (= 8.8.0-1), libcurl4-gnutls-dev (= 8.8.0-1), libdata-optlist-perl (= 0.114-1), libdb5.3t64 (= 5.3.28+dfsg2-7), libdebconfclient0 (= 0.272), libdebhelper-perl (= 13.15.3), libdeflate-dev (= 1.20-1), libdeflate0 (= 1.20-1), libdevel-cover-perl (= 1.42-1+b1), libdevel-symdump-perl (= 2.18-5), libdpkg-perl (= 1.22.6), libelf1t64 (= 0.191-1+b1), libffi8 (= 3.4.6-1), libfile-slurp-perl (= 9999.32-2), libfile-stripnondeterminism-perl (= 1.14.0-1), libfile-which-perl (= 1.27-2), libgcc-13-dev (= 13.2.0-25), libgcc-s1 (= 14.1.0-1), libgdbm-compat4t64 (= 1.23-5.1+b1), libgdbm6t64 (= 1.23-5.1+b1), libgmp10 (= 2:6.3.0+dfsg-2+b1), libgnutls30t64 (= 3.8.5-4), libgomp1 (= 14.1.0-1), libgprofng0 (= 2.42-4), libgssapi-krb5-2 (= 1.20.1-6+b1), libhogweed6t64 (= 3.9.1-2.2), libhtml-parser-perl (= 3.82-1+b1), libhtml-tagset-perl (= 3.24-1), libhts-dev (= 1.20+ds-1), libhts3t64 (= 1.20+ds-1), libhtscodecs2 (= 1.6.0-1+b1), libhwasan0 (= 14.1.0-1), libicu72 (= 72.1-4+b1), libidn2-0 (= 2.3.7-2), libipc-system-simple-perl (= 1.30-2), libisl23 (= 0.26-3+b2), libitm1 (= 14.1.0-1), libjansson4 (= 2.14-2+b2), libjson-perl (= 4.10000-1), libk5crypto3 (= 1.20.1-6+b1), libkeyutils1 (= 1.6.3-3), libkrb5-3 (= 1.20.1-6+b1), libkrb5support0 (= 1.20.1-6+b1), libldap-2.5-0 (= 2.5.17+dfsg-1+b1), liblsan0 (= 14.1.0-1), liblzma-dev (= 5.6.1+really5.4.5-1), liblzma5 (= 5.6.1+really5.4.5-1), libmagic-mgc (= 1:5.45-3), libmagic1t64 (= 1:5.45-3), libmd0 (= 1.1.0-2), libmount1 (= 2.40.1-7), libmpc3 (= 1.3.1-1+b2), libmpfr6 (= 4.2.1-1+b1), libnettle8t64 (= 3.9.1-2.2), libnghttp2-14 (= 1.61.0-1+b1), libp11-kit0 (= 0.25.3-5), libpam-modules (= 1.5.3-7), libpam-modules-bin (= 1.5.3-7), libpam-runtime (= 1.5.3-7), libpam0g (= 1.5.3-7), libparams-util-perl (= 1.102-3+b1), libpcre2-8-0 (= 10.42-4+b1), libperl5.40 (= 5.40.0~rc1-1), libpipeline1 (= 1.5.7-2), libpod-coverage-perl (= 0.23-2), libpod-parser-perl (= 1.67-1), libpsl5t64 (= 0.21.2-1.1), libquadmath0 (= 14.1.0-1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b4), libsasl2-2 (= 2.1.28+dfsg1-6), libsasl2-modules-db (= 2.1.28+dfsg1-6), libseccomp2 (= 2.5.5-1), libselinux1 (= 3.5-2+b2), libsframe1 (= 2.42-4), libsmartcols1 (= 2.40.1-7), libssh2-1t64 (= 1.11.0-5), libssl3t64 (= 3.2.1-3), libstdc++-13-dev (= 13.2.0-25), libstdc++6 (= 14.1.0-1), libsub-exporter-perl (= 0.990-1), libsub-exporter-progressive-perl (= 0.001013-3), libsub-install-perl (= 0.929-1), libsystemd0 (= 256~rc3-7), libtasn1-6 (= 4.19.0-3+b2), libtest-fatal-perl (= 0.017-1), libtinfo6 (= 6.5-2), libtool (= 2.4.7-7), libtry-tiny-perl (= 0.31-2), libtsan2 (= 14.1.0-1), libubsan1 (= 14.1.0-1), libuchardet0 (= 0.0.8-1+b1), libudev1 (= 256~rc3-7), libunistring5 (= 1.2-1), liburi-perl (= 5.28-1), libuuid1 (= 2.40.1-7), libxml2 (= 2.12.7+dfsg-2), libzstd1 (= 1.5.5+dfsg2-2), linux-libc-dev (= 6.8.12-1), login (= 1:4.13+dfsg1-4), m4 (= 1.4.19-4), make (= 4.3-4.1), man-db (= 2.12.1-1), mawk (= 1.3.4.20240123-1), ncurses-base (= 6.5-2), ncurses-bin (= 6.5-2), patch (= 2.7.6-7), perl (= 5.40.0~rc1-1), perl-base (= 5.40.0~rc1-1), perl-modules-5.40 (= 5.40.0~rc1-1), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.22), sysvinit-utils (= 3.09-1), tar (= 1.35+dfsg-3), usr-is-merged (= 39), util-linux (= 2.40.1-7), xz-utils (= 5.6.1+really5.4.5-1), zlib1g (= 1:1.3.dfsg+really1.3.1-1), zlib1g-dev (= 1:1.3.dfsg+really1.3.1-1) Environment: DEB_BUILD_OPTIONS="parallel=2" LANG="en_GB.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" SOURCE_DATE_EPOCH="1664536395" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ allelecount-dbgsym_4.3.0-2_amd64.deb ------------------------------------ new Debian package, version 2.0. size 31040 bytes: control archive=540 bytes. 385 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: allelecount-dbgsym Source: allelecount Version: 4.3.0-2 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 47 Depends: allelecount (= 4.3.0-2) Section: debug Priority: optional Description: debug symbols for allelecount Build-Ids: 2947ec1e97e198e81f2fd0c9786bba3ac52e3cf6 drwxr-xr-x root/root 0 2022-09-30 11:13 ./ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/lib/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/lib/debug/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/lib/debug/.build-id/29/ -rw-r--r-- root/root 37280 2022-09-30 11:13 ./usr/lib/debug/.build-id/29/47ec1e97e198e81f2fd0c9786bba3ac52e3cf6.debug drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/doc/ lrwxrwxrwx root/root 0 2022-09-30 11:13 ./usr/share/doc/allelecount-dbgsym -> allelecount allelecount_4.3.0-2_amd64.deb ----------------------------- new Debian package, version 2.0. size 29148 bytes: control archive=896 bytes. 672 bytes, 16 lines control 425 bytes, 6 lines md5sums Package: allelecount Version: 4.3.0-2 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 90 Depends: libc6 (>= 2.34), libhts3t64 (>= 1.17) Section: science Priority: optional Homepage: https://github.com/cancerit/alleleCount Description: NGS copy number algorithms Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each allele [ACGT] at that location (given any filter settings). . The alleleCount package primarily exists to prevent code duplication between some other projects, specifically AscatNGS and Battenberg. drwxr-xr-x root/root 0 2022-09-30 11:13 ./ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/bin/ -rwxr-xr-x root/root 39536 2022-09-30 11:13 ./usr/bin/alleleCounter drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/doc/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/doc/allelecount/ -rw-r--r-- root/root 682 2022-09-30 11:13 ./usr/share/doc/allelecount/changelog.Debian.gz -rw-r--r-- root/root 991 2021-07-13 12:57 ./usr/share/doc/allelecount/changelog.gz -rw-r--r-- root/root 35101 2022-09-30 11:13 ./usr/share/doc/allelecount/copyright drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/lintian/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 120 2022-09-30 11:13 ./usr/share/lintian/overrides/allelecount drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/man/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/man/man1/ -rw-r--r-- root/root 1132 2022-09-30 11:13 ./usr/share/man/man1/alleleCounter.1.gz liballelecount-perl_4.3.0-2_all.deb ----------------------------------- new Debian package, version 2.0. size 24000 bytes: control archive=1220 bytes. 975 bytes, 20 lines control 1043 bytes, 13 lines md5sums Package: liballelecount-perl Source: allelecount Version: 4.3.0-2 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 81 Depends: perl:any, libconst-fast-perl, libdevel-cover-perl, libfile-slurp-perl, libfile-which-perl, libipc-system-simple-perl, libpod-coverage-perl, libtest-fatal-perl, libtry-tiny-perl, libjson-perl Section: perl Priority: optional Homepage: https://github.com/cancerit/alleleCount Description: Perl interface to NGS copy number algorithms Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each allele [ACGT] at that location (given any filter settings). . The alleleCount package primarily exists to prevent code duplication between some other projects, specifically AscatNGS and Battenberg. . This package provided the Perl interface to alleleCounter providing Sanger::CGP::AlleleCount::Genotype. drwxr-xr-x root/root 0 2022-09-30 11:13 ./ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/bin/ -rwxr-xr-x root/root 3741 2022-09-30 11:13 ./usr/bin/alleleCounter.pl -rwxr-xr-x root/root 2692 2022-09-30 11:13 ./usr/bin/alleleCounterToJson.pl drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/doc/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/doc/liballelecount-perl/ -rw-r--r-- root/root 682 2022-09-30 11:13 ./usr/share/doc/liballelecount-perl/changelog.Debian.gz -rw-r--r-- root/root 991 2021-07-13 12:57 ./usr/share/doc/liballelecount-perl/changelog.gz -rw-r--r-- root/root 35101 2022-09-30 11:13 ./usr/share/doc/liballelecount-perl/copyright drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/lintian/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 128 2022-09-30 11:13 ./usr/share/lintian/overrides/liballelecount-perl drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/man/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/man/man1/ -rw-r--r-- root/root 1350 2022-09-30 11:13 ./usr/share/man/man1/alleleCounter.pl.1p.gz -rw-r--r-- root/root 1053 2022-09-30 11:13 ./usr/share/man/man1/alleleCounterToJson.pl.1p.gz drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/man/man3/ -rw-r--r-- root/root 1448 2022-09-30 11:13 ./usr/share/man/man3/Sanger::CGP::AlleleCount::Genotype.3pm.gz -rw-r--r-- root/root 1033 2022-09-30 11:13 ./usr/share/man/man3/Sanger::CGP::AlleleCount::ToJson.3pm.gz drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/perl5/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/perl5/Sanger/ drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/perl5/Sanger/CGP/ -rw-r--r-- root/root 972 2021-07-13 12:57 ./usr/share/perl5/Sanger/CGP/AlleleCount.pm drwxr-xr-x root/root 0 2022-09-30 11:13 ./usr/share/perl5/Sanger/CGP/AlleleCount/ -rw-r--r-- root/root 6767 2021-07-13 12:57 ./usr/share/perl5/Sanger/CGP/AlleleCount/Genotype.pm -rw-r--r-- root/root 3478 2021-07-13 12:57 ./usr/share/perl5/Sanger/CGP/AlleleCount/ToJson.pm +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 3024 Build-Time: 10 Distribution: perl-5.40-throwaway Host Architecture: amd64 Install-Time: 6 Job: /srv/debomatic/incoming/allelecount_4.3.0-2.dsc Machine Architecture: amd64 Package: allelecount Package-Time: 23 Source-Version: 4.3.0-2 Space: 3024 Status: successful Version: 4.3.0-2 -------------------------------------------------------------------------------- Finished at 2024-06-02T23:04:53Z Build needed 00:00:23, 3024k disk space