sbuild (Debian sbuild) 0.91.10 (27 June 2026) on carme.larted.org.uk +==============================================================================+ | allelecount 4.3.0-4 (amd64) Thu, 09 Jul 2026 01:48:38 +0000 | +==============================================================================+ Package: allelecount Version: 4.3.0-4 Source Version: 4.3.0-4 Distribution: perl-5.44-throwaway Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: full I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... +------------------------------------------------------------------------------+ | Chroot Setup Commands Thu, 09 Jul 2026 01:48:39 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup allelecount_4.3.0-4 perl-5.44-throwaway amd64 -------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup allelecount_4.3.0-4 perl-5.44-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: Setting up apt archive... +------------------------------------------------------------------------------+ | Update chroot Thu, 09 Jul 2026 01:48:40 +0000 | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.44 InRelease [3039 B] Hit:2 http://deb.debian.org/debian unstable InRelease Hit:3 http://deb.debian.org/debian sid InRelease Get:1 file:/srv/reprepro perl-5.44 InRelease [3039 B] Get:4 file:/srv/reprepro perl-5.44/main amd64 Packages [606 kB] 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 Thu, 09 Jul 2026 01:48:41 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/allelecount_4.3.0-4.dsc exists in /srv/debomatic/incoming; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Thu, 09 Jul 2026 01:48:42 +0000 | +------------------------------------------------------------------------------+ 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 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 dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/allelecount-qC4bIn/resolver-sYOkxL/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/build/allelecount-qC4bIn/resolver-sYOkxL/apt_archive ./ InRelease Get:2 copy:/build/allelecount-qC4bIn/resolver-sYOkxL/apt_archive ./ Release [609 B] Ign:3 copy:/build/allelecount-qC4bIn/resolver-sYOkxL/apt_archive ./ Release.gpg Get:4 copy:/build/allelecount-qC4bIn/resolver-sYOkxL/apt_archive ./ Sources [911 B] Get:5 copy:/build/allelecount-qC4bIn/resolver-sYOkxL/apt_archive ./ Packages [851 B] Fetched 2371 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 bsdextrautils comerr-dev debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian krb5-multidev libarchive-zip-perl libbrotli-dev libbrotli1 libbz2-dev libcom-err2 libconst-fast-perl libcurl3t64-gnutls libcurl4-gnutls libcurl4-gnutls-dev libdata-optlist-perl libdebhelper-perl libdeflate-dev libdeflate0 libdevel-cover-perl libdevel-symdump-perl libelf1t64 libevent-2.1-7t64 libfile-slurp-perl libfile-stripnondeterminism-perl libfile-which-perl libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls28-dev libgssapi-krb5-2 libgssrpc4t64 libhtml-parser-perl libhtml-tagset-perl libhts-dev libhts3t64 libhtscodecs2 libidn2-dev libipc-system-simple-perl libjson-perl libk5crypto3 libkadm5clnt-mit12 libkadm5srv-mit12 libkdb5-10t64 libkeyutils1 libkrb5-3 libkrb5-dev libkrb5support0 libldap-dev liblzma-dev libmagic-mgc libmagic1t64 libnghttp2-14 libnghttp2-dev libnghttp3-9 libnghttp3-dev libngtcp2-16 libngtcp2-crypto-gnutls-dev libngtcp2-crypto-gnutls8 libngtcp2-dev libp11-kit-dev libparams-util-perl libpipeline1 libpkgconf7 libpod-coverage-perl libpod-parser-perl libpsl-dev libpsl5t64 librtmp-dev librtmp1 libssh2-1-dev libssh2-1t64 libssl-dev libsub-exporter-perl libsub-exporter-progressive-perl libsub-install-perl libtasn1-6-dev libtest-fatal-perl libtool libtry-tiny-perl libuchardet0 libunbound8 libunistring-dev liburi-perl libxml2-16 libzstd-dev m4 man-db nettle-dev pkgconf pkgconf-bin po-debconf sensible-utils zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc doc-base dh-make gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff krb5-doc libcurl4-doc libidn-dev 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 gmp-doc libgmp10-doc libmpfr-dev dns-root-data gnutls-bin gnutls-doc krb5-user libdata-dump-perl liblzma-doc libnghttp2-doc p11-kit-doc libssl-doc libtool-doc gfortran | fortran95-compiler libsub-name-perl libbusiness-isbn-perl libmime-base32-perl libregexp-ipv6-perl libwww-perl m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx python3:any bzip2-doc ca-certificates libtemplate-perl libarchive-cpio-perl libhttp-message-perl libjson-xs-perl krb5-locales publicsuffix libtasn1-doc libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils comerr-dev debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian krb5-multidev libarchive-zip-perl libbrotli-dev libbrotli1 libbz2-dev libcom-err2 libconst-fast-perl libcurl3t64-gnutls libcurl4-gnutls libcurl4-gnutls-dev libdata-optlist-perl libdebhelper-perl libdeflate-dev libdeflate0 libdevel-cover-perl libdevel-symdump-perl libelf1t64 libevent-2.1-7t64 libfile-slurp-perl libfile-stripnondeterminism-perl libfile-which-perl libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls28-dev libgssapi-krb5-2 libgssrpc4t64 libhtml-parser-perl libhtml-tagset-perl libhts-dev libhts3t64 libhtscodecs2 libidn2-dev libipc-system-simple-perl libjson-perl libk5crypto3 libkadm5clnt-mit12 libkadm5srv-mit12 libkdb5-10t64 libkeyutils1 libkrb5-3 libkrb5-dev libkrb5support0 libldap-dev liblzma-dev libmagic-mgc libmagic1t64 libnghttp2-14 libnghttp2-dev libnghttp3-9 libnghttp3-dev libngtcp2-16 libngtcp2-crypto-gnutls-dev libngtcp2-crypto-gnutls8 libngtcp2-dev libp11-kit-dev libparams-util-perl libpipeline1 libpkgconf7 libpod-coverage-perl libpod-parser-perl libpsl-dev libpsl5t64 librtmp-dev librtmp1 libssh2-1-dev libssh2-1t64 libssl-dev libsub-exporter-perl libsub-exporter-progressive-perl libsub-install-perl libtasn1-6-dev libtest-fatal-perl libtool libtry-tiny-perl libuchardet0 libunbound8 libunistring-dev liburi-perl libxml2-16 libzstd-dev m4 man-db nettle-dev pkgconf pkgconf-bin po-debconf sbuild-build-depends-main-dummy sensible-utils zlib1g-dev 0 upgraded, 105 newly installed, 0 to remove and 0 not upgraded. Need to get 30.1 MB/30.7 MB of archives. After this operation, 122 MB of additional disk space will be used. Get:1 file:/srv/reprepro perl-5.44/main amd64 libparams-util-perl amd64 1.102-3+b2 [24.8 kB] Get:2 copy:/build/allelecount-qC4bIn/resolver-sYOkxL/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [944 B] Get:3 file:/srv/reprepro perl-5.44/main amd64 libldap-dev amd64 2.6.13+dfsg-1+b1 [308 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.47-4 [345 kB] Get:6 file:/srv/reprepro perl-5.44/main amd64 libhtml-parser-perl amd64 3.83-2+b1 [99.4 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.47-4 [111 kB] Get:8 file:/srv/reprepro perl-5.44/main amd64 libdevel-cover-perl amd64 1.52-1+b1 [202 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.47-4 [43.0 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 1.0-3 [332 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2+b2 [69.0 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.24.1-1 [1336 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.42.2-1 [100.0 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-3 [49.2 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.21-1 [332 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.73-2 [516 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1+nmu1 [60.0 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-4 [877 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 autopoint all 1.0-3 [820 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.4-1 [19.2 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 comerr-dev amd64 2.1-1.47.4-1 [50.9 kB] Get:23 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 14.3 [77.3 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-11 [539 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 22 [12.2 kB] Get:26 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:27 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.1-1 [17.1 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.1-1 [6020 B] Get:29 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.195-1 [58.1 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-4 [108 kB] Get:31 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.3+dfsg-1 [642 kB] Get:32 http://deb.debian.org/debian unstable/main amd64 gettext amd64 1.0-3 [2658 kB] Get:33 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:34 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.22 [216 kB] Get:35 http://deb.debian.org/debian unstable/main amd64 debhelper all 14.3 [934 kB] Get:36 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.22.1-3 [31.1 kB] Get:37 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.22.1-3 [79.0 kB] Get:38 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-6+b2 [9348 B] Get:39 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.22.1-3 [335 kB] Get:40 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.22.1-3 [137 kB] Get:41 http://deb.debian.org/debian unstable/main amd64 libgssrpc4t64 amd64 1.22.1-3 [58.3 kB] Get:42 http://deb.debian.org/debian unstable/main amd64 libkadm5clnt-mit12 amd64 1.22.1-3 [40.3 kB] Get:43 http://deb.debian.org/debian unstable/main amd64 libkdb5-10t64 amd64 1.22.1-3 [41.3 kB] Get:44 http://deb.debian.org/debian unstable/main amd64 libkadm5srv-mit12 amd64 1.22.1-3 [54.1 kB] Get:45 http://deb.debian.org/debian unstable/main amd64 krb5-multidev amd64 1.22.1-3 [125 kB] Get:46 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.2.0-3 [320 kB] Get:47 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.2.0-3 [324 kB] Get:48 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-6+b2 [33.6 kB] Get:49 http://deb.debian.org/debian unstable/main amd64 libsub-install-perl all 0.929-1 [10.5 kB] Get:50 http://deb.debian.org/debian unstable/main amd64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get:51 http://deb.debian.org/debian unstable/main amd64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get:52 http://deb.debian.org/debian unstable/main amd64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get:53 http://deb.debian.org/debian unstable/main amd64 libconst-fast-perl all 0.014-2 [8792 B] Get:54 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.15.0-1 [67.2 kB] Get:55 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.22.1-1 [133 kB] Get:56 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.69.0-1 [89.0 kB] Get:57 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls8 amd64 1.22.1-1 [20.8 kB] Get:58 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.22.0-1 [60.7 kB] Get:59 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-4 [244 kB] Get:60 http://deb.debian.org/debian unstable/main amd64 libcurl4-gnutls amd64 8.21.0-2 [416 kB] Get:61 http://deb.debian.org/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.21.0-2 [17.0 kB] Get:62 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.13-stable-1 [183 kB] Get:63 http://deb.debian.org/debian unstable/main amd64 libunbound8 amd64 1.25.1-1+b1 [619 kB] Get:64 http://deb.debian.org/debian unstable/main amd64 libgnutls-dane0t64 amd64 3.8.13-1 [496 kB] Get:65 http://deb.debian.org/debian unstable/main amd64 libidn2-dev amd64 2.3.8-5 [102 kB] Get:66 http://deb.debian.org/debian unstable/main amd64 libp11-kit-dev amd64 0.26.2-3 [222 kB] Get:67 http://deb.debian.org/debian unstable/main amd64 libtasn1-6-dev amd64 4.21.0-2+b1 [98.6 kB] Get:68 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-5+b2 [328 kB] Get:69 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-5+b2 [641 kB] Get:70 http://deb.debian.org/debian unstable/main amd64 nettle-dev amd64 3.10.2-1+b1 [1321 kB] Get:71 http://deb.debian.org/debian unstable/main amd64 libgnutls28-dev amd64 3.8.13-1 [1479 kB] Get:72 http://deb.debian.org/debian unstable/main amd64 libkrb5-dev amd64 1.22.1-3 [14.0 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 pkgconf-bin amd64 2.5.1-4 [35.9 kB] Get:75 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 2.5.1-4 [33.6 kB] Get:76 http://deb.debian.org/debian unstable/main amd64 libnghttp2-dev amd64 1.69.0-1 [128 kB] Get:77 http://deb.debian.org/debian unstable/main amd64 libnghttp3-dev amd64 1.15.0-1 [94.5 kB] Get:78 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls-dev amd64 1.22.1-1 [20.9 kB] Get:79 http://deb.debian.org/debian unstable/main amd64 libngtcp2-dev amd64 1.22.1-1 [192 kB] Get:80 http://deb.debian.org/debian unstable/main amd64 libunistring-dev amd64 1.4.2-1 [651 kB] Get:81 http://deb.debian.org/debian unstable/main amd64 libpsl-dev amd64 0.22.0-1 [29.8 kB] Get:82 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.6-1 [60.3 kB] Get:83 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.2-3 [918 kB] Get:84 http://deb.debian.org/debian unstable/main amd64 librtmp-dev amd64 2.6-1 [69.7 kB] Get:85 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.6.3-1 [3025 kB] Get:86 http://deb.debian.org/debian unstable/main amd64 libssh2-1-dev amd64 1.11.1-4 [393 kB] Get:87 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.7+dfsg-3+b2 [372 kB] Get:88 http://deb.debian.org/debian unstable/main amd64 libcurl4-gnutls-dev amd64 8.21.0-2 [546 kB] Get:89 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.25-1 [48.0 kB] Get:90 http://deb.debian.org/debian unstable/main amd64 libdeflate-dev amd64 1.25-1 [56.7 kB] Get:91 http://deb.debian.org/debian unstable/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get:92 http://deb.debian.org/debian unstable/main amd64 liburi-perl all 5.35-1 [112 kB] Get:93 http://deb.debian.org/debian unstable/main amd64 libdevel-symdump-perl all 2.18-6 [15.7 kB] Get:94 http://deb.debian.org/debian unstable/main amd64 libfile-slurp-perl all 9999.32-2.1 [26.5 kB] Get:95 http://deb.debian.org/debian unstable/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get:96 http://deb.debian.org/debian unstable/main amd64 libhtscodecs2 amd64 1.6.6-1 [101 kB] Get:97 http://deb.debian.org/debian unstable/main amd64 libhts3t64 amd64 1.22.1+ds2-1+b2 [475 kB] Get:98 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.8.3-1 [369 kB] Get:99 http://deb.debian.org/debian unstable/main amd64 libhts-dev amd64 1.22.1+ds2-1+b2 [1784 kB] Get:100 http://deb.debian.org/debian unstable/main amd64 libipc-system-simple-perl all 1.30-2 [26.8 kB] Get:101 http://deb.debian.org/debian unstable/main amd64 libjson-perl all 4.10000-1 [87.5 kB] Get:102 http://deb.debian.org/debian unstable/main amd64 libpod-parser-perl all 1.67-1 [94.1 kB] Get:103 http://deb.debian.org/debian unstable/main amd64 libpod-coverage-perl all 0.23-2 [22.1 kB] Get:104 http://deb.debian.org/debian unstable/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get:105 http://deb.debian.org/debian unstable/main amd64 libtest-fatal-perl all 0.018-1 [13.3 kB] Preconfiguring packages ... Fetched 30.1 MB in 0s (153 MB/s) Selecting previously unselected package sensible-utils. (Reading database ... 14518 files and directories currently installed.) Preparing to unpack .../000-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../001-libmagic-mgc_1%3a5.47-4_amd64.deb ... Unpacking libmagic-mgc (1:5.47-4) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../002-libmagic1t64_1%3a5.47-4_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.47-4) ... Selecting previously unselected package file. Preparing to unpack .../003-file_1%3a5.47-4_amd64.deb ... Unpacking file (1:5.47-4) ... Selecting previously unselected package gettext-base. Preparing to unpack .../004-gettext-base_1.0-3_amd64.deb ... Unpacking gettext-base (1.0-3) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../005-libuchardet0_0.0.8-2+b2_amd64.deb ... 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Setting up bsdextrautils (2.42.2-1) ... Setting up libmagic-mgc (1:5.47-4) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.15.3+dfsg-1) ... Setting up libhtml-tagset-perl (3.24-1) ... Setting up libdebhelper-perl (14.3) ... Setting up libbrotli1:amd64 (1.2.0-3) ... Setting up libpkgconf7:amd64 (2.5.1-4) ... Setting up libmagic1t64:amd64 (1:5.47-4) ... Setting up libtry-tiny-perl (0.32-1) ... Setting up libpsl5t64:amd64 (0.22.0-1) ... Setting up libnghttp2-14:amd64 (1.69.0-1) ... Setting up libtest-fatal-perl (0.018-1) ... Setting up libdeflate0:amd64 (1.25-1) ... Setting up gettext-base (1.0-3) ... Setting up m4 (1.4.21-1) ... Setting up libevent-2.1-7t64:amd64 (2.1.13-stable-1) ... Setting up libcom-err2:amd64 (1.47.4-1) ... Setting up file (1:5.47-4) ... Setting up libsub-install-perl (0.929-1) ... Setting up libelf1t64:amd64 (0.195-1) ... Setting up libkrb5support0:amd64 (1.22.1-3) ... Setting up autotools-dev (20240727.1+nmu1) ... Setting up libunbound8:amd64 (1.25.1-1+b1) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-5+b2) ... Setting up libgnutls-dane0t64:amd64 (3.8.13-1) ... Setting up librtmp1:amd64 (2.6-1) ... Setting up libipc-system-simple-perl (1.30-2) ... Setting up libldap-dev:amd64 (2.6.13+dfsg-1+b1) ... Setting up comerr-dev:amd64 (2.1-1.47.4-1) ... Setting up libssl-dev:amd64 (3.6.3-1) ... Setting up libpod-parser-perl (1.67-1) ... Setting up autopoint (1.0-3) ... Setting up pkgconf-bin (2.5.1-4) ... Setting up libk5crypto3:amd64 (1.22.1-3) ... Setting up libidn2-dev:amd64 (2.3.8-5) ... Setting up libparams-util-perl (1.102-3+b2) ... Setting up autoconf (2.73-2) ... Setting up libnghttp3-9:amd64 (1.15.0-1) ... Setting up libsub-exporter-progressive-perl (0.001013-3) ... Setting up libnghttp3-dev:amd64 (1.15.0-1) ... Setting up liblzma-dev:amd64 (5.8.3-1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.2-3) ... Setting up dwz (0.16-4) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-2+b2) ... Setting up libjson-perl (4.10000-1) ... Setting up libngtcp2-16:amd64 (1.22.1-1) ... Setting up libkrb5-3:amd64 (1.22.1-3) ... Setting up libdevel-symdump-perl (2.18-6) ... Setting up libssh2-1t64:amd64 (1.11.1-4) ... Setting up libtasn1-6-dev:amd64 (4.21.0-2+b1) ... Setting up libdeflate-dev:amd64 (1.25-1) ... Setting up liburi-perl (5.35-1) ... Setting up libbrotli-dev:amd64 (1.2.0-3) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.22.1-1) ... Setting up libp11-kit-dev:amd64 (0.26.2-3) ... Setting up libbz2-dev:amd64 (1.0.8-6+b2) ... 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 (1.0-3) ... Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-5+b2) ... Setting up nettle-dev:amd64 (3.10.2-1+b1) ... Setting up libtool (2.5.4-11) ... Setting up libpod-coverage-perl (0.23-2) ... Setting up libngtcp2-crypto-gnutls-dev:amd64 (1.22.1-1) ... Setting up libngtcp2-dev:amd64 (1.22.1-1) ... Setting up pkgconf:amd64 (2.5.1-4) ... Setting up libpsl-dev:amd64 (0.22.0-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (22) ... Setting up libgssapi-krb5-2:amd64 (1.22.1-3) ... Setting up libdata-optlist-perl (0.114-1) ... Setting up libssh2-1-dev:amd64 (1.11.1-4) ... Setting up dh-strip-nondeterminism (1.15.1-1) ... Setting up groff-base (1.24.1-1) ... Setting up libhtml-parser-perl:amd64 (3.83-2+b1) ... Setting up libsub-exporter-perl (0.990-1) ... Setting up libgnutls28-dev:amd64 (3.8.13-1) ... Setting up libcurl4-gnutls:amd64 (8.21.0-2) ... Setting up libdevel-cover-perl (1.52-1+b1) ... Setting up libnghttp2-dev:amd64 (1.69.0-1) ... Setting up po-debconf (1.0.22) ... Setting up libcurl3t64-gnutls:amd64 (8.21.0-2) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libgssrpc4t64:amd64 (1.22.1-3) ... Setting up librtmp-dev:amd64 (2.6-1) ... Setting up libconst-fast-perl (0.014-2) ... Setting up libhts3t64:amd64 (1.22.1+ds2-1+b2) ... Setting up libkadm5clnt-mit12:amd64 (1.22.1-3) ... Setting up libkdb5-10t64:amd64 (1.22.1-3) ... Setting up debhelper (14.3) ... Setting up libkadm5srv-mit12:amd64 (1.22.1-3) ... Setting up krb5-multidev:amd64 (1.22.1-3) ... Setting up libkrb5-dev:amd64 (1.22.1-3) ... Setting up libcurl4-gnutls-dev:amd64 (8.21.0-2) ... Setting up libhts-dev:amd64 (1.22.1+ds2-1+b2) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.42-17) ... +------------------------------------------------------------------------------+ | Check architectures Thu, 09 Jul 2026 01:48:52 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment Thu, 09 Jul 2026 01:48:52 +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_7.1.3-1 Package versions: apt_3.3.1 autoconf_2.73-2 automake_1:1.18.1-4 autopoint_1.0-3 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 bsdextrautils_2.42.2-1 build-essential_12.12 bzip2_1.0.8-6+b2 comerr-dev_2.1-1.47.4-1 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_14.3 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_1.0-3 gettext-base_1.0-3 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 krb5-multidev_1.22.1-3 libacl1_2.4.0-1 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_1:2.6.0-1 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1+b1 libbinutils_2.46.50.20260617-1 libblkid1_2.42.2-1 libbrotli-dev_1.2.0-3 libbrotli1_1.2.0-3 libbz2-1.0_1.0.8-6+b2 libbz2-dev_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+b1 libcc1-0_16.1.0-2 libcom-err2_1.47.4-1 libconst-fast-perl_0.014-2 libcrypt1_1:4.5.1-1+b1 libctf-nobfd0_2.46.50.20260617-1 libctf0_2.46.50.20260617-1 libcurl3t64-gnutls_8.21.0-2 libcurl4-gnutls_8.21.0-2 libcurl4-gnutls-dev_8.21.0-2 libdata-optlist-perl_0.114-1 libdb5.3t64_5.3.28+dfsg2-11+b1 libdebconfclient0_0.283 libdebhelper-perl_14.3 libdeflate-dev_1.25-1 libdeflate0_1.25-1 libdevel-cover-perl_1.52-1+b1 libdevel-symdump-perl_2.18-6 libdpkg-perl_1.23.7 libeatmydata1_131-2+b2 libelf1t64_0.195-1 libevent-2.1-7t64_2.1.13-stable-1 libffi8_3.5.2-4 libfile-slurp-perl_9999.32-2.1 libfile-stripnondeterminism-perl_1.15.1-1 libfile-which-perl_1.27-2 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 libgmp-dev_2:6.3.0+dfsg-5+b2 libgmp10_2:6.3.0+dfsg-5+b2 libgmpxx4ldbl_2:6.3.0+dfsg-5+b2 libgnutls-dane0t64_3.8.13-1 libgnutls28-dev_3.8.13-1 libgnutls30t64_3.8.13-1 libgomp1_16.1.0-2 libgpg-error0_1.61-3 libgprofng0_2.46.50.20260617-1 libgssapi-krb5-2_1.22.1-3 libgssrpc4t64_1.22.1-3 libhogweed6t64_3.10.2-1+b1 libhtml-parser-perl_3.83-2+b1 libhtml-tagset-perl_3.24-1 libhts-dev_1.22.1+ds2-1+b2 libhts3t64_1.22.1+ds2-1+b2 libhtscodecs2_1.6.6-1 libhwasan0_16.1.0-2 libidn2-0_2.3.8-5 libidn2-dev_2.3.8-5 libipc-system-simple-perl_1.30-2 libisl23_0.27-2 libitm1_16.1.0-2 libjansson4_2.15.1-1 libjson-perl_4.10000-1 libk5crypto3_1.22.1-3 libkadm5clnt-mit12_1.22.1-3 libkadm5srv-mit12_1.22.1-3 libkdb5-10t64_1.22.1-3 libkeyutils1_1.6.3-6+b2 libkrb5-3_1.22.1-3 libkrb5-dev_1.22.1-3 libkrb5support0_1.22.1-3 libksba8_1.8.0-3 libldap-dev_2.6.13+dfsg-1+b1 libldap2_2.6.13+dfsg-1+b1 liblsan0_16.1.0-2 liblz4-1_1.10.0-10 liblzma-dev_5.8.3-1 liblzma5_5.8.3-1 libmagic-mgc_1:5.47-4 libmagic1t64_1:5.47-4 libmd0_1.2.0-2 libmount1_2.42.2-1 libmpc3_1.3.1-3 libmpfr6_4.2.2-3 libncursesw6_6.6+20260608-2 libnettle8t64_3.10.2-1+b1 libnghttp2-14_1.69.0-1 libnghttp2-dev_1.69.0-1 libnghttp3-9_1.15.0-1 libnghttp3-dev_1.15.0-1 libngtcp2-16_1.22.1-1 libngtcp2-crypto-gnutls-dev_1.22.1-1 libngtcp2-crypto-gnutls8_1.22.1-1 libngtcp2-dev_1.22.1-1 libnpth0t64_1.8-3+b2 libp11-kit-dev_0.26.2-3 libp11-kit0_0.26.2-3 libpam-modules_1.7.0-8 libpam-modules-bin_1.7.0-8 libpam-runtime_1.7.0-8 libpam0g_1.7.0-8 libparams-util-perl_1.102-3+b2 libpcre2-8-0_10.46-1+b2 libperl5.40_5.40.1-8 libperl5.44_5.44.0~rc2-1 libpipeline1_1.5.8-3 libpkgconf7_2.5.1-4 libpod-coverage-perl_0.23-2 libpod-parser-perl_1.67-1 libpsl-dev_0.22.0-1 libpsl5t64_0.22.0-1 libquadmath0_16.1.0-2 libreadline8t64_8.3-4 librtmp-dev_2.6-1 librtmp1_2.6-1 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_3.53.3-1 libssh2-1-dev_1.11.1-4 libssh2-1t64_1.11.1-4 libssl-dev_3.6.3-1 libssl3t64_3.6.3-1 libstdc++-15-dev_15.3.0-1 libstdc++6_16.1.0-2 libsub-exporter-perl_0.990-1 libsub-exporter-progressive-perl_0.001013-3 libsub-install-perl_0.929-1 libsystemd0_261.1-2 libtasn1-6_4.21.0-2+b1 libtasn1-6-dev_4.21.0-2+b1 libtest-fatal-perl_0.018-1 libtinfo6_6.6+20260608-2 libtool_2.5.4-11 libtry-tiny-perl_0.32-1 libtsan2_16.1.0-2 libubsan1_16.1.0-2 libuchardet0_0.0.8-2+b2 libudev1_261.1-2 libunbound8_1.25.1-1+b1 libunistring-dev_1.4.2-1 libunistring5_1.4.2-1 liburi-perl_5.35-1 libuuid1_2.42.2-1 libxml2-16_2.15.3+dfsg-1 libxxhash0_0.8.3-2+b2 libzstd-dev_1.5.7+dfsg-3+b2 libzstd1_1.5.7+dfsg-3+b2 linux-libc-dev_7.1.3-1 m4_1.4.21-1 make_4.4.1-3 man-db_2.13.1-1 mawk_1.3.4.20260302-1 ncurses-base_6.6+20260608-2 ncurses-bin_6.6+20260608-2 nettle-dev_3.10.2-1+b1 openssl-provider-legacy_3.6.3-1 patch_2.8-2 perl_5.44.0~rc2-1 perl-base_5.44.0~rc2-1 perl-modules-5.40_5.40.1-8 perl-modules-5.44_5.44.0~rc2-1 pinentry-curses_1.3.2-4 pkgconf_2.5.1-4 pkgconf-bin_2.5.1-4 po-debconf_1.0.22 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_1.4.0-1 sysvinit-utils_3.18-1 tar_1.35+dfsg-4 util-linux_2.42.2-1 xz-utils_5.8.3-1 zlib1g_1:1.3.dfsg+really1.3.2-3 zlib1g-dev_1:1.3.dfsg+really1.3.2-3 +------------------------------------------------------------------------------+ | Build Thu, 09 Jul 2026 01:48:52 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: allelecount Binary: allelecount, liballelecount-perl Architecture: any all Version: 4.3.0-4 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Étienne Mollier Homepage: https://github.com/cancerit/alleleCount Standards-Version: 4.7.3 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 0867a1fbd68c7123999717f1a2868d6cf8161ed6 17472 allelecount_4.3.0-4.debian.tar.xz Checksums-Sha256: 5363ae12c2385c962728336a4498b1a29c9eaa3d4a24492d0debf897771cfd3c 1390569 allelecount_4.3.0.orig.tar.gz 072dc464e963c0e65bfdf5dd3bb53071214fc7a98858549b52af8218b547a6ef 17472 allelecount_4.3.0-4.debian.tar.xz Files: 331975437e661cab1a950c3b3d2cc5c2 1390569 allelecount_4.3.0.orig.tar.gz 9a06fbc370b360713ea37cd76507ad43 17472 allelecount_4.3.0-4.debian.tar.xz Dgit: e4828bf90cc6ac0d973b6cd405a3b8ce19a0da29 debian archive/debian/4.3.0-4 https://git.dgit.debian.org/allelecount -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmmp9fYUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdq0Ag//WE9DGCfhsnRnqzpMrqsfpY4bbx5W fcnz44JLy9gajIrdZIYx8wBzbMahZLpY45n/YiRCdxoWVkbjsShM9hcLHA/80X4q bhxltv0bYW0O68+c+aLVqNDQXL/ShDPJcoh5nXUx1UP/lauF7Kzsm/TA9AFDQynG 6VDpravi7uDB5mFRthpB29Io4nLFMOrhG3N2Fd3iawARUYi7V3kgON9bZG2PlA33 DL/oHSmalYGdOW4bolSmKhH/j+tEvcCmuX+y5m+rDuf4MJEGX764BhwuFCjSIZn0 El+J7m4JakuGQBgypgnk7XVckl3PFuy5ZpmfW+x3z5FuGCqNIjHFRrqsGNL6yJR6 TMOkjfv0gh9A7KGPhINA/lvmBmKURdkcYbugBcw20DBIkqrBK/bAT/RERI1TWbxD oyzbmKoc3izxYWlfff6i0UT5yogXoTlWoIlP6u187rLdAjsJc3KU6Z/jERuI4BxV BBCN1ZdnW8e93mA9rhjiyNdcRs9UrN+Gv805Ee7EO1rjVWMXNkOJxmCAZWHNXKLO d859+7NJaBSgzTIBcQXqsJf9assB9AdeAnBHyKhVKpMgjVt9QOfATRFSlJ6iPpjf VquHkGiuaD0rZHcqiHbmFqPf5iuUCIkNLsd6L6lMaafwnMmZ5Oyhis3PmzFdOt5Z Sbt+mJ3K/p8WAiI= =3a21 -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./allelecount_4.3.0-4.dsc: missing OpenPGP keyrings dpkg-source: info: verifying ./allelecount_4.3.0-4.dsc dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-keyring.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-tag2upload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-nonupload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-maintainers.pgp dpkg-source: info: extracting allelecount in /build/allelecount-qC4bIn/allelecount-4.3.0 dpkg-source: info: unpacking allelecount_4.3.0.orig.tar.gz dpkg-source: info: unpacking allelecount_4.3.0-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying stabilise-makefiles.patch dpkg-source: info: applying perl-fixups.patch clean up apt cache ------------------ Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Time Build Commands Thu, 09 Jul 2026 01:48:53 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network allelecount_4.3.0-4 perl-5.44-throwaway amd64 -------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network allelecount_4.3.0-4 perl-5.44-throwaway 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/allelecount-qC4bIn/allelecount-4.3.0 SCHROOT_ALIAS_NAME=perl-5.44-throwaway-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-6657130b-f2d7-4889-ad77-cb18b91ca01b SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -Zxz dpkg-buildpackage: info: source package allelecount dpkg-buildpackage: info: source version 4.3.0-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier 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/allelecount-qC4bIn/allelecount-4.3.0' dh_auto_clean --sourcedirectory=c cd c && make -j2 clean make[2]: Entering directory '/build/allelecount-qC4bIn/allelecount-4.3.0/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 '/build/allelecount-qC4bIn/allelecount-4.3.0/c' dh_auto_clean --sourcedirectory=perl make[1]: Leaving directory '/build/allelecount-qC4bIn/allelecount-4.3.0' 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_4.3.0-4.debian.tar.xz dpkg-source: info: building allelecount in ../allelecount_4.3.0-4.dsc debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/allelecount-qC4bIn/allelecount-4.3.0' 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=/build/allelecount-qC4bIn/allelecount-4.3.0=. -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/allelecount-qC4bIn/allelecount-4.3.0=. -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 '/build/allelecount-qC4bIn/allelecount-4.3.0' debian/rules override_dh_auto_build make[1]: Entering directory '/build/allelecount-qC4bIn/allelecount-4.3.0' dh_auto_build --sourcedirectory=c --no-parallel cd c && make -j1 INSTALL="install --strip-program=true" make[2]: Entering directory '/build/allelecount-qC4bIn/allelecount-4.3.0/c' 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=/build/allelecount-qC4bIn/allelecount-4.3.0=. -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 mkdir -p ./bin gcc -O3 -DALLELECOUNTER_VERSION='"4.3.0"' -I/usr/local//include -Isrc/ -I/ -rdynamic -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/allelecount-qC4bIn/allelecount-4.3.0=. -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 remove tmp hts location rm -rf ./htslib_tmp Binaries have been compiled. make[2]: Leaving directory '/build/allelecount-qC4bIn/allelecount-4.3.0/c' dh_auto_build --sourcedirectory=perl cd perl && make -j2 make[2]: Entering directory '/build/allelecount-qC4bIn/allelecount-4.3.0/perl' 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 lib/Sanger/CGP/AlleleCount/Genotype.pm blib/lib/Sanger/CGP/AlleleCount/Genotype.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/alleleCounterToJson.pl "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/alleleCounter.pl Manifying 2 pod documents Manifying 2 pod documents make[2]: Leaving directory '/build/allelecount-qC4bIn/allelecount-4.3.0/perl' make[1]: Leaving directory '/build/allelecount-qC4bIn/allelecount-4.3.0' debian/rules override_dh_auto_test make[1]: Entering directory '/build/allelecount-qC4bIn/allelecount-4.3.0' dh_auto_test --sourcedirectory=c cd c && make -j2 test make[2]: Entering directory '/build/allelecount-qC4bIn/allelecount-4.3.0/c' gcc -O3 -DALLELECOUNTER_VERSION='"4.3.0"' -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/allelecount-qC4bIn/allelecount-4.3.0=. -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 make[2]: Leaving directory '/build/allelecount-qC4bIn/allelecount-4.3.0/c' dh_auto_test --sourcedirectory=perl cd perl && make -j2 test TEST_VERBOSE=1 make[2]: Entering directory '/build/allelecount-qC4bIn/allelecount-4.3.0/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: /build/allelecount-qC4bIn/allelecount-4.3.0/perl/t/../bin/alleleCounter.pl ok 2 - Compilation check: /build/allelecount-qC4bIn/allelecount-4.3.0/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 ( 0.04 usr 0.00 sys + 0.60 cusr 0.15 csys = 0.79 CPU) Result: PASS make[2]: Leaving directory '/build/allelecount-qC4bIn/allelecount-4.3.0/perl' make[1]: Leaving directory '/build/allelecount-qC4bIn/allelecount-4.3.0' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/allelecount-qC4bIn/allelecount-4.3.0' dh_auto_install --sourcedirectory=c dh_auto_install --sourcedirectory=perl cd perl && make -j2 install DESTDIR=/build/allelecount-qC4bIn/allelecount-4.3.0/debian/tmp AM_UPDATE_INFO_DIR=no PREFIX=/usr make[2]: Entering directory '/build/allelecount-qC4bIn/allelecount-4.3.0/perl' Manifying 2 pod documents Manifying 2 pod documents Installing /build/allelecount-qC4bIn/allelecount-4.3.0/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount.pm Installing /build/allelecount-qC4bIn/allelecount-4.3.0/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount/Genotype.pm Installing /build/allelecount-qC4bIn/allelecount-4.3.0/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount/ToJson.pm Installing /build/allelecount-qC4bIn/allelecount-4.3.0/debian/tmp/usr/share/man/man1/alleleCounterToJson.pl.1p Installing /build/allelecount-qC4bIn/allelecount-4.3.0/debian/tmp/usr/share/man/man1/alleleCounter.pl.1p Installing /build/allelecount-qC4bIn/allelecount-4.3.0/debian/tmp/usr/share/man/man3/Sanger::CGP::AlleleCount::ToJson.3pm Installing /build/allelecount-qC4bIn/allelecount-4.3.0/debian/tmp/usr/share/man/man3/Sanger::CGP::AlleleCount::Genotype.3pm Installing /build/allelecount-qC4bIn/allelecount-4.3.0/debian/tmp/usr/bin/alleleCounter.pl Installing /build/allelecount-qC4bIn/allelecount-4.3.0/debian/tmp/usr/bin/alleleCounterToJson.pl make[2]: Leaving directory '/build/allelecount-qC4bIn/allelecount-4.3.0/perl' make[1]: Leaving directory '/build/allelecount-qC4bIn/allelecount-4.3.0' 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_4.3.0-4_amd64.deb'. dpkg-deb: building package 'liballelecount-perl' in '../liballelecount-perl_4.3.0-4_all.deb'. dpkg-deb: building package 'allelecount-dbgsym' in '../allelecount-dbgsym_4.3.0-4_amd64.deb'. dpkg-genbuildinfo -O../allelecount_4.3.0-4_amd64.buildinfo dpkg-genchanges -O../allelecount_4.3.0-4_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 2026-07-09T01:49:06Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Thu, 09 Jul 2026 01:49:07 +0000 | +------------------------------------------------------------------------------+ allelecount_4.3.0-4_amd64.changes: ---------------------------------- Format: 1.8 Date: Thu, 05 Mar 2026 22:25:20 +0100 Source: allelecount Binary: allelecount allelecount-dbgsym liballelecount-perl Architecture: source amd64 all Version: 4.3.0-4 Distribution: perl-5.44-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: allelecount - NGS copy number algorithms liballelecount-perl - Perl interface to NGS copy number algorithms Closes: 1105234 Changes: allelecount (4.3.0-4) unstable; urgency=medium . * stabilise-makefiles.patch: new: fix --shuffle. (Closes: #1105234) * hardening.patch: normalize Last-Update time stamp. * d/watch: bump to Github uscan template version 5. * perl-fixups.patch: new: fix heading, typos and style in manuals. * d/control: add myself to uploaders. * d/control: drop redundant Priority: optional. * d/control: drop redundant Rules-Requires-Root: no. * d/control: declare compliance to standards version 4.7.3. * d/lintian-overrides: delete: unused override. 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allelecount_4.3.0-4_amd64.deb 9360b12b1c1fefb9a52ab03c921819b59cd18d26f542ba8ab9bc8dda6a066f4a 24860 liballelecount-perl_4.3.0-4_all.deb Files: 2a57e39495957c73d61b0052b9d8b46d 1541 science optional allelecount_4.3.0-4.dsc 0da016e9065abc7710b80625ba23d158 17468 science optional allelecount_4.3.0-4.debian.tar.xz 0b67afd6e906f4461edeee99ce25bc3a 31104 debug optional allelecount-dbgsym_4.3.0-4_amd64.deb f46fbc44c3371caa6722a43c5e8c2c4f 8180 science optional allelecount_4.3.0-4_amd64.buildinfo 5324dc0d43ff3aad937dc885c6afcfe9 30012 science optional allelecount_4.3.0-4_amd64.deb 6db23277324e5c3a0d145af544f6f222 24860 perl optional liballelecount-perl_4.3.0-4_all.deb +------------------------------------------------------------------------------+ | Buildinfo Thu, 09 Jul 2026 01:49:07 +0000 | +------------------------------------------------------------------------------+ Format: 1.0 Source: allelecount Binary: allelecount allelecount-dbgsym liballelecount-perl Architecture: all amd64 source Version: 4.3.0-4 Checksums-Md5: 2a57e39495957c73d61b0052b9d8b46d 1541 allelecount_4.3.0-4.dsc 0b67afd6e906f4461edeee99ce25bc3a 31104 allelecount-dbgsym_4.3.0-4_amd64.deb 5324dc0d43ff3aad937dc885c6afcfe9 30012 allelecount_4.3.0-4_amd64.deb 6db23277324e5c3a0d145af544f6f222 24860 liballelecount-perl_4.3.0-4_all.deb Checksums-Sha1: 1a5fcf16fbdba271184e423f4496e01e1a25e62e 1541 allelecount_4.3.0-4.dsc b99ff25cfc17448cd7f0719ff0cf1a0162809d2c 31104 allelecount-dbgsym_4.3.0-4_amd64.deb f628ff06129deda9bdb5dd56ccd3ed2d4aa62350 30012 allelecount_4.3.0-4_amd64.deb 9394eefbcfa2a473bd1774df391139a197de691f 24860 liballelecount-perl_4.3.0-4_all.deb Checksums-Sha256: 2f7747f79272884f7c84a22b464f24f0e5270faac40f40629dccda5839a1dd21 1541 allelecount_4.3.0-4.dsc 1511ad7a6cd818b9392dbeb39bf759ddd9cf213d3b80f80ea46a452e7644cd3e 31104 allelecount-dbgsym_4.3.0-4_amd64.deb dab846011a77cf8390dfdcba6be6a235682f55d269b9b4bd7b45792859003d95 30012 allelecount_4.3.0-4_amd64.deb 9360b12b1c1fefb9a52ab03c921819b59cd18d26f542ba8ab9bc8dda6a066f4a 24860 liballelecount-perl_4.3.0-4_all.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Thu, 09 Jul 2026 01:49:06 +0000 Build-Path: /build/allelecount-qC4bIn/allelecount-4.3.0 Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.73-2), automake (= 1:1.18.1-4), autopoint (= 1.0-3), 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), bsdextrautils (= 2.42.2-1), build-essential (= 12.12), bzip2 (= 1.0.8-6+b2), comerr-dev (= 2.1-1.47.4-1), 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 (= 14.3), 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 (= 1.0-3), gettext-base (= 1.0-3), 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), krb5-multidev (= 1.22.1-3), libacl1 (= 2.4.0-1), libarchive-zip-perl (= 1.68-1), libasan8 (= 16.1.0-2), libatomic1 (= 16.1.0-2), libattr1 (= 1:2.6.0-1), libaudit-common (= 1:4.1.2-1), libaudit1 (= 1:4.1.2-1+b1), libbinutils (= 2.46.50.20260617-1), libblkid1 (= 2.42.2-1), libbrotli-dev (= 1.2.0-3), libbrotli1 (= 1.2.0-3), libbz2-1.0 (= 1.0.8-6+b2), libbz2-dev (= 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+b1), libcc1-0 (= 16.1.0-2), libcom-err2 (= 1.47.4-1), libconst-fast-perl (= 0.014-2), libcrypt1 (= 1:4.5.1-1+b1), libctf-nobfd0 (= 2.46.50.20260617-1), libctf0 (= 2.46.50.20260617-1), libcurl3t64-gnutls (= 8.21.0-2), libcurl4-gnutls (= 8.21.0-2), libcurl4-gnutls-dev (= 8.21.0-2), libdata-optlist-perl (= 0.114-1), libdb5.3t64 (= 5.3.28+dfsg2-11+b1), libdebconfclient0 (= 0.283), libdebhelper-perl (= 14.3), libdeflate-dev (= 1.25-1), libdeflate0 (= 1.25-1), libdevel-cover-perl (= 1.52-1+b1), libdevel-symdump-perl (= 2.18-6), libdpkg-perl (= 1.23.7), libelf1t64 (= 0.195-1), libevent-2.1-7t64 (= 2.1.13-stable-1), libffi8 (= 3.5.2-4), libfile-slurp-perl (= 9999.32-2.1), libfile-stripnondeterminism-perl (= 1.15.1-1), libfile-which-perl (= 1.27-2), libgcc-15-dev (= 15.3.0-1), libgcc-s1 (= 16.1.0-2), libgdbm-compat4t64 (= 1.26-1+b2), libgdbm6t64 (= 1.26-1+b2), libgmp-dev (= 2:6.3.0+dfsg-5+b2), libgmp10 (= 2:6.3.0+dfsg-5+b2), libgmpxx4ldbl (= 2:6.3.0+dfsg-5+b2), libgnutls-dane0t64 (= 3.8.13-1), libgnutls28-dev (= 3.8.13-1), libgnutls30t64 (= 3.8.13-1), libgomp1 (= 16.1.0-2), libgprofng0 (= 2.46.50.20260617-1), libgssapi-krb5-2 (= 1.22.1-3), libgssrpc4t64 (= 1.22.1-3), libhogweed6t64 (= 3.10.2-1+b1), libhtml-parser-perl (= 3.83-2+b1), libhtml-tagset-perl (= 3.24-1), libhts-dev (= 1.22.1+ds2-1+b2), libhts3t64 (= 1.22.1+ds2-1+b2), libhtscodecs2 (= 1.6.6-1), libhwasan0 (= 16.1.0-2), libidn2-0 (= 2.3.8-5), libidn2-dev (= 2.3.8-5), libipc-system-simple-perl (= 1.30-2), libisl23 (= 0.27-2), libitm1 (= 16.1.0-2), libjansson4 (= 2.15.1-1), libjson-perl (= 4.10000-1), libk5crypto3 (= 1.22.1-3), libkadm5clnt-mit12 (= 1.22.1-3), libkadm5srv-mit12 (= 1.22.1-3), libkdb5-10t64 (= 1.22.1-3), libkeyutils1 (= 1.6.3-6+b2), libkrb5-3 (= 1.22.1-3), libkrb5-dev (= 1.22.1-3), libkrb5support0 (= 1.22.1-3), libldap-dev (= 2.6.13+dfsg-1+b1), libldap2 (= 2.6.13+dfsg-1+b1), liblsan0 (= 16.1.0-2), liblzma-dev (= 5.8.3-1), liblzma5 (= 5.8.3-1), libmagic-mgc (= 1:5.47-4), libmagic1t64 (= 1:5.47-4), libmd0 (= 1.2.0-2), libmount1 (= 2.42.2-1), libmpc3 (= 1.3.1-3), libmpfr6 (= 4.2.2-3), libnettle8t64 (= 3.10.2-1+b1), libnghttp2-14 (= 1.69.0-1), libnghttp2-dev (= 1.69.0-1), libnghttp3-9 (= 1.15.0-1), libnghttp3-dev (= 1.15.0-1), libngtcp2-16 (= 1.22.1-1), libngtcp2-crypto-gnutls-dev (= 1.22.1-1), libngtcp2-crypto-gnutls8 (= 1.22.1-1), libngtcp2-dev (= 1.22.1-1), libp11-kit-dev (= 0.26.2-3), libp11-kit0 (= 0.26.2-3), libpam-modules (= 1.7.0-8), libpam-modules-bin (= 1.7.0-8), libpam-runtime (= 1.7.0-8), libpam0g (= 1.7.0-8), libparams-util-perl (= 1.102-3+b2), libpcre2-8-0 (= 10.46-1+b2), libperl5.44 (= 5.44.0~rc2-1), libpipeline1 (= 1.5.8-3), libpkgconf7 (= 2.5.1-4), libpod-coverage-perl (= 0.23-2), libpod-parser-perl (= 1.67-1), libpsl-dev (= 0.22.0-1), libpsl5t64 (= 0.22.0-1), libquadmath0 (= 16.1.0-2), librtmp-dev (= 2.6-1), librtmp1 (= 2.6-1), 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), libssh2-1-dev (= 1.11.1-4), libssh2-1t64 (= 1.11.1-4), libssl-dev (= 3.6.3-1), libssl3t64 (= 3.6.3-1), libstdc++-15-dev (= 15.3.0-1), libstdc++6 (= 16.1.0-2), libsub-exporter-perl (= 0.990-1), libsub-exporter-progressive-perl (= 0.001013-3), libsub-install-perl (= 0.929-1), libsystemd0 (= 261.1-2), libtasn1-6 (= 4.21.0-2+b1), libtasn1-6-dev (= 4.21.0-2+b1), libtest-fatal-perl (= 0.018-1), libtinfo6 (= 6.6+20260608-2), libtool (= 2.5.4-11), libtry-tiny-perl (= 0.32-1), libtsan2 (= 16.1.0-2), libubsan1 (= 16.1.0-2), libuchardet0 (= 0.0.8-2+b2), libudev1 (= 261.1-2), libunbound8 (= 1.25.1-1+b1), libunistring-dev (= 1.4.2-1), libunistring5 (= 1.4.2-1), liburi-perl (= 5.35-1), libuuid1 (= 2.42.2-1), libxml2-16 (= 2.15.3+dfsg-1), libzstd-dev (= 1.5.7+dfsg-3+b2), libzstd1 (= 1.5.7+dfsg-3+b2), linux-libc-dev (= 7.1.3-1), m4 (= 1.4.21-1), make (= 4.4.1-3), man-db (= 2.13.1-1), mawk (= 1.3.4.20260302-1), ncurses-base (= 6.6+20260608-2), ncurses-bin (= 6.6+20260608-2), nettle-dev (= 3.10.2-1+b1), openssl-provider-legacy (= 3.6.3-1), patch (= 2.8-2), perl (= 5.44.0~rc2-1), perl-base (= 5.44.0~rc2-1), perl-modules-5.44 (= 5.44.0~rc2-1), pkgconf (= 2.5.1-4), pkgconf-bin (= 2.5.1-4), po-debconf (= 1.0.22), rpcsvc-proto (= 1.4.4-1), sed (= 4.9-3), sensible-utils (= 0.0.26), sysvinit-utils (= 3.18-1), tar (= 1.35+dfsg-4), util-linux (= 2.42.2-1), xz-utils (= 5.8.3-1), zlib1g (= 1:1.3.dfsg+really1.3.2-3), zlib1g-dev (= 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="1772745920" +------------------------------------------------------------------------------+ | Package contents Thu, 09 Jul 2026 01:49:07 +0000 | +------------------------------------------------------------------------------+ allelecount-dbgsym_4.3.0-4_amd64.deb ------------------------------------ new Debian package, version 2.0. size 31104 bytes: control archive=532 bytes. 385 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: allelecount-dbgsym Source: allelecount Version: 4.3.0-4 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 58 Depends: allelecount (= 4.3.0-4) Section: debug Priority: optional Description: debug symbols for allelecount Build-Ids: a3d05de36da5692b9d45039be8ecbaaa01501020 drwxr-xr-x root/root 0 2026-03-05 21:25 ./ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/lib/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/lib/debug/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/lib/debug/.build-id/a3/ -rw-r--r-- root/root 48688 2026-03-05 21:25 ./usr/lib/debug/.build-id/a3/d05de36da5692b9d45039be8ecbaaa01501020.debug drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/doc/ lrwxrwxrwx root/root 0 2026-03-05 21:25 ./usr/share/doc/allelecount-dbgsym -> allelecount allelecount_4.3.0-4_amd64.deb ----------------------------- new Debian package, version 2.0. size 30012 bytes: control archive=856 bytes. 672 bytes, 16 lines control 351 bytes, 5 lines md5sums Package: allelecount Version: 4.3.0-4 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 89 Depends: libc6 (>= 2.38), 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 2026-03-05 21:25 ./ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/bin/ -rwxr-xr-x root/root 39536 2026-03-05 21:25 ./usr/bin/alleleCounter drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/doc/allelecount/ -rw-r--r-- root/root 772 2026-03-05 21:25 ./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 37865 2026-03-05 21:25 ./usr/share/doc/allelecount/copyright drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/man/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/man/man1/ -rw-r--r-- root/root 1132 2026-03-05 21:25 ./usr/share/man/man1/alleleCounter.1.gz liballelecount-perl_4.3.0-4_all.deb ----------------------------------- new Debian package, version 2.0. size 24860 bytes: control archive=1216 bytes. 975 bytes, 20 lines control 1043 bytes, 13 lines md5sums Package: liballelecount-perl Source: allelecount Version: 4.3.0-4 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 82 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 2026-03-05 21:25 ./ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/bin/ -rwxr-xr-x root/root 3741 2026-03-05 21:25 ./usr/bin/alleleCounter.pl -rwxr-xr-x root/root 2692 2026-03-05 21:25 ./usr/bin/alleleCounterToJson.pl drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/doc/liballelecount-perl/ -rw-r--r-- root/root 771 2026-03-05 21:25 ./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 37865 2026-03-05 21:25 ./usr/share/doc/liballelecount-perl/copyright drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/lintian/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 130 2026-03-05 21:25 ./usr/share/lintian/overrides/liballelecount-perl drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/man/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/man/man1/ -rw-r--r-- root/root 1382 2026-03-05 21:25 ./usr/share/man/man1/alleleCounter.pl.1p.gz -rw-r--r-- root/root 1085 2026-03-05 21:25 ./usr/share/man/man1/alleleCounterToJson.pl.1p.gz drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/man/man3/ -rw-r--r-- root/root 1387 2026-03-05 21:25 ./usr/share/man/man3/Sanger::CGP::AlleleCount::Genotype.3pm.gz -rw-r--r-- root/root 956 2026-03-05 21:25 ./usr/share/man/man3/Sanger::CGP::AlleleCount::ToJson.3pm.gz drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/perl5/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./usr/share/perl5/Sanger/ drwxr-xr-x root/root 0 2026-03-05 21:25 ./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 2026-03-05 21:25 ./usr/share/perl5/Sanger/CGP/AlleleCount/ -rw-r--r-- root/root 6871 2026-03-05 21:25 ./usr/share/perl5/Sanger/CGP/AlleleCount/Genotype.pm -rw-r--r-- root/root 3594 2026-03-05 21:25 ./usr/share/perl5/Sanger/CGP/AlleleCount/ToJson.pm +------------------------------------------------------------------------------+ | Post Build Thu, 09 Jul 2026 01:49:07 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Thu, 09 Jul 2026 01:49:07 +0000 | +------------------------------------------------------------------------------+ Purging /build/allelecount-qC4bIn Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Thu, 09 Jul 2026 01:49:08 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 3108 Build-Time: 13 Distribution: perl-5.44-throwaway Host Architecture: amd64 Install-Time: 10 Job: /srv/debomatic/incoming/allelecount_4.3.0-4.dsc Machine Architecture: amd64 Package: allelecount Package-Time: 28 Source-Version: 4.3.0-4 Space: 3108 Status: successful Version: 4.3.0-4 -------------------------------------------------------------------------------- Finished at 2026-07-09T01:49:06Z Build needed 00:00:28, 3108k disk space