sbuild (Debian sbuild) 0.89.1 (28 April 2025) on carme.larted.org.uk +==============================================================================+ | allelecount 4.3.0-3 (amd64) Sat, 23 Aug 2025 07:42:04 +0000 | +==============================================================================+ Package: allelecount Version: 4.3.0-3 Source Version: 4.3.0-3 Distribution: perl-5.42-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 Sat, 23 Aug 2025 07:42:05 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup allelecount_4.3.0-3 perl-5.42-throwaway amd64 -------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup allelecount_4.3.0-3 perl-5.42-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: Setting up apt archive... +------------------------------------------------------------------------------+ | Update chroot Sat, 23 Aug 2025 07:42:05 +0000 | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.42 InRelease [3042 B] Get:1 file:/srv/reprepro perl-5.42 InRelease [3042 B] Hit:2 http://deb.debian.org/debian unstable InRelease Hit:3 http://deb.debian.org/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 Sat, 23 Aug 2025 07:42:11 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/allelecount_4.3.0-3.dsc exists in /srv/debomatic/incoming; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Sat, 23 Aug 2025 07:42:12 +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-TAHcZU/resolver-wZy2wN/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/build/allelecount-TAHcZU/resolver-wZy2wN/apt_archive ./ InRelease Get:2 copy:/build/allelecount-TAHcZU/resolver-wZy2wN/apt_archive ./ Release [609 B] Ign:3 copy:/build/allelecount-TAHcZU/resolver-wZy2wN/apt_archive ./ Release.gpg Get:4 copy:/build/allelecount-TAHcZU/resolver-wZy2wN/apt_archive ./ Sources [911 B] Get:5 copy:/build/allelecount-TAHcZU/resolver-wZy2wN/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... 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-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 libgnutls-openssl27t64 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 libpkgconf3 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 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 gcj-jdk 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 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-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 libgnutls-openssl27t64 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 libpkgconf3 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 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, 104 newly installed, 0 to remove and 0 not upgraded. Need to get 28.4 MB/29.0 MB of archives. After this operation, 104 MB of additional disk space will be used. Get:1 copy:/build/allelecount-TAHcZU/resolver-wZy2wN/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [944 B] Get:2 file:/srv/reprepro perl-5.42/main amd64 libparams-util-perl amd64 1.102-3+b2 [24.4 kB] Get:3 file:/srv/reprepro perl-5.42/main amd64 libldap-dev amd64 2.6.10+dfsg-1+b1 [312 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:5 file:/srv/reprepro perl-5.42/main amd64 libhtml-parser-perl amd64 3.83-1+b3 [100 kB] Get:6 file:/srv/reprepro perl-5.42/main amd64 libdevel-cover-perl amd64 1.51-1+b1 [195 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41.1-1 [94.7 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 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 1.4.19-8 [294 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-4 [862 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 comerr-dev amd64 2.1-1.47.2-3+b3 [56.7 kB] Get:23 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.25 [91.6 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 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 1.14.1-2 [19.7 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get:29 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:31 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.1 [640 kB] Get:32 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2+b1 [1680 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 1.0.21+nmu1 [248 kB] Get:35 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.25 [937 kB] Get:36 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get:37 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get:38 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get:39 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get:40 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get:41 http://deb.debian.org/debian unstable/main amd64 libgssrpc4t64 amd64 1.21.3-5 [60.0 kB] Get:42 http://deb.debian.org/debian unstable/main amd64 libkadm5clnt-mit12 amd64 1.21.3-5 [42.5 kB] Get:43 http://deb.debian.org/debian unstable/main amd64 libkdb5-10t64 amd64 1.21.3-5 [42.6 kB] Get:44 http://deb.debian.org/debian unstable/main amd64 libkadm5srv-mit12 amd64 1.21.3-5 [54.2 kB] Get:45 http://deb.debian.org/debian unstable/main amd64 krb5-multidev amd64 1.21.3-5 [126 kB] Get:46 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get:47 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB] Get:48 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 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 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get:55 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB] Get:56 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.11.0-1 [131 kB] Get:57 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls8 amd64 1.11.0-1 [29.3 kB] Get:58 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get:59 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get:60 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get:61 http://deb.debian.org/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.15.0-1 [385 kB] Get:62 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get:63 http://deb.debian.org/debian unstable/main amd64 libunbound8 amd64 1.22.0-2 [598 kB] Get:64 http://deb.debian.org/debian unstable/main amd64 libgnutls-dane0t64 amd64 3.8.10-2 [458 kB] Get:65 http://deb.debian.org/debian unstable/main amd64 libgnutls-openssl27t64 amd64 3.8.10-2 [458 kB] Get:66 http://deb.debian.org/debian unstable/main amd64 libidn2-dev amd64 2.3.8-4 [103 kB] Get:67 http://deb.debian.org/debian unstable/main amd64 libp11-kit-dev amd64 0.25.5-3 [208 kB] Get:68 http://deb.debian.org/debian unstable/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB] Get:69 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-4 [329 kB] Get:70 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-4 [642 kB] Get:71 http://deb.debian.org/debian unstable/main amd64 nettle-dev amd64 3.10.1-1 [1318 kB] Get:72 http://deb.debian.org/debian unstable/main amd64 libgnutls28-dev amd64 3.8.10-2 [1423 kB] Get:73 http://deb.debian.org/debian unstable/main amd64 libkrb5-dev amd64 1.21.3-5 [16.1 kB] Get:74 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get:75 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get:76 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get:77 http://deb.debian.org/debian unstable/main amd64 libnghttp2-dev amd64 1.64.0-1.1+b1 [117 kB] Get:78 http://deb.debian.org/debian unstable/main amd64 libnghttp3-dev amd64 1.8.0-1 [91.3 kB] Get:79 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls-dev amd64 1.11.0-1 [34.0 kB] Get:80 http://deb.debian.org/debian unstable/main amd64 libngtcp2-dev amd64 1.11.0-1 [179 kB] Get:81 http://deb.debian.org/debian unstable/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get:82 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get:83 http://deb.debian.org/debian unstable/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-3 [67.9 kB] Get:84 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.5.2-1 [2957 kB] Get:85 http://deb.debian.org/debian unstable/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get:86 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.7+dfsg-1 [371 kB] Get:87 http://deb.debian.org/debian unstable/main amd64 libcurl4-gnutls-dev amd64 8.15.0-1 [504 kB] Get:88 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.23-2 [47.3 kB] Get:89 http://deb.debian.org/debian unstable/main amd64 libdeflate-dev amd64 1.23-2 [55.9 kB] Get:90 http://deb.debian.org/debian unstable/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get:91 http://deb.debian.org/debian unstable/main amd64 liburi-perl all 5.30-1 [105 kB] Get:92 http://deb.debian.org/debian unstable/main amd64 libdevel-symdump-perl all 2.18-5 [15.8 kB] Get:93 http://deb.debian.org/debian unstable/main amd64 libfile-slurp-perl all 9999.32-2.1 [26.5 kB] Get:94 http://deb.debian.org/debian unstable/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get:95 http://deb.debian.org/debian unstable/main amd64 libhtscodecs2 amd64 1.6.1-2 [95.8 kB] Get:96 http://deb.debian.org/debian unstable/main amd64 libhts3t64 amd64 1.22.1+ds-1 [474 kB] Get:97 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.8.1-1 [348 kB] Get:98 http://deb.debian.org/debian unstable/main amd64 libhts-dev amd64 1.22.1+ds-1 [1778 kB] Get:99 http://deb.debian.org/debian unstable/main amd64 libipc-system-simple-perl all 1.30-2 [26.8 kB] Get:100 http://deb.debian.org/debian unstable/main amd64 libjson-perl all 4.10000-1 [87.5 kB] Get:101 http://deb.debian.org/debian unstable/main amd64 libpod-parser-perl all 1.67-1 [94.1 kB] Get:102 http://deb.debian.org/debian unstable/main amd64 libpod-coverage-perl all 0.23-2 [22.1 kB] Get:103 http://deb.debian.org/debian unstable/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get:104 http://deb.debian.org/debian unstable/main amd64 libtest-fatal-perl all 0.017-2 [12.9 kB] Preconfiguring packages ... Fetched 28.4 MB in 0s (112 MB/s) Selecting previously unselected package sensible-utils. (Reading database ... 14972 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%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../002-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../003-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../004-gettext-base_0.23.1-2+b1_amd64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:amd64. 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Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.14.5+dfsg-0.1) ... Setting up libhtml-tagset-perl (3.24-1) ... Setting up libdebhelper-perl (13.25) ... Setting up libbrotli1:amd64 (1.1.0-2+b7) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up libtry-tiny-perl (0.32-1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1.1+b1) ... Setting up libtest-fatal-perl (0.017-2) ... Setting up libdeflate0:amd64 (1.23-2) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.19-8) ... Setting up libevent-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libcom-err2:amd64 (1.47.2-3+b3) ... Setting up file (1:5.46-5) ... Setting up libsub-install-perl (0.929-1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up libkrb5support0:amd64 (1.21.3-5) ... Setting up autotools-dev (20240727.1) ... Setting up libunbound8:amd64 (1.22.0-2) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-4) ... Setting up libgnutls-dane0t64:amd64 (3.8.10-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libipc-system-simple-perl (1.30-2) ... Setting up libldap-dev:amd64 (2.6.10+dfsg-1+b1) ... Setting up comerr-dev:amd64 (2.1-1.47.2-3+b3) ... Setting up libssl-dev:amd64 (3.5.2-1) ... Setting up libpod-parser-perl (1.67-1) ... Setting up autopoint (0.23.1-2) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libk5crypto3:amd64 (1.21.3-5) ... Setting up libidn2-dev:amd64 (2.3.8-4) ... Setting up libparams-util-perl (1.102-3+b2) ... Setting up autoconf (2.72-3.1) ... Setting up libnghttp3-9:amd64 (1.8.0-1) ... Setting up libsub-exporter-progressive-perl (0.001013-3) ... Setting up libnghttp3-dev:amd64 (1.8.0-1) ... Setting up liblzma-dev:amd64 (5.8.1-1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libjson-perl (4.10000-1) ... Setting up libngtcp2-16:amd64 (1.11.0-1) ... Setting up libkrb5-3:amd64 (1.21.3-5) ... Setting up libdevel-symdump-perl (2.18-5) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libtasn1-6-dev:amd64 (4.20.0-2) ... Setting up libdeflate-dev:amd64 (1.23-2) ... Setting up liburi-perl (5.30-1) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b7) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.11.0-1) ... Setting up libp11-kit-dev:amd64 (0.25.5-3) ... Setting up libbz2-dev:amd64 (1.0.8-6) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-2+b1) ... Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-4) ... Setting up nettle-dev:amd64 (3.10.1-1) ... Setting up libtool (2.5.4-4) ... Setting up libpod-coverage-perl (0.23-2) ... Setting up libngtcp2-crypto-gnutls-dev:amd64 (1.11.0-1) ... Setting up libngtcp2-dev:amd64 (1.11.0-1) ... Setting up pkgconf:amd64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up libdata-optlist-perl (0.114-1) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-9) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b3) ... Setting up libsub-exporter-perl (0.990-1) ... Setting up libgnutls28-dev:amd64 (3.8.10-2) ... Setting up libdevel-cover-perl (1.51-1+b1) ... Setting up libnghttp2-dev:amd64 (1.64.0-1.1+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3t64-gnutls:amd64 (8.15.0-1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libgssrpc4t64:amd64 (1.21.3-5) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libconst-fast-perl (0.014-2) ... Setting up libhts3t64:amd64 (1.22.1+ds-1) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-5) ... Setting up libkdb5-10t64:amd64 (1.21.3-5) ... Setting up debhelper (13.25) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-5) ... Setting up krb5-multidev:amd64 (1.21.3-5) ... Setting up libkrb5-dev:amd64 (1.21.3-5) ... Setting up libcurl4-gnutls-dev:amd64 (8.15.0-1) ... Setting up libhts-dev:amd64 (1.22.1+ds-1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.41-12) ... +------------------------------------------------------------------------------+ | Check architectures Sat, 23 Aug 2025 07:42:18 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment Sat, 23 Aug 2025 07:42:18 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 6.12.25-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.25-1 (2025-04-25) amd64 (x86_64) Toolchain package versions: binutils_2.45-4 dpkg-dev_1.22.21 g++-14_14.3.0-5 gcc-14_14.3.0-5 libc6-dev_2.41-12 libstdc++-14-dev_14.3.0-5 libstdc++6_15.2.0-1 linux-libc-dev_6.12.38-1 Package versions: adduser_3.152 apt_3.1.4 autoconf_2.72-3.1 automake_1:1.17-4 autopoint_0.23.1-2 autotools-dev_20240727.1 base-files_14 base-passwd_3.6.7 bash_5.2.37-2+b5 binutils_2.45-4 binutils-common_2.45-4 binutils-gold_2.44-2 binutils-gold-x86-64-linux-gnu_2.44-2 binutils-x86-64-linux-gnu_2.45-4 bsdextrautils_2.41.1-1 bsdutils_1:2.41.1-1 build-essential_12.12 bzip2_1.0.8-6 comerr-dev_2.1-1.47.2-3+b3 coreutils_9.7-3 cpp_4:14.2.0-1 cpp-14_14.3.0-5 cpp-14-x86-64-linux-gnu_14.3.0-5 cpp-x86-64-linux-gnu_4:14.2.0-1 dash_0.5.12-12 debconf_1.5.91 debhelper_13.25 debian-archive-keyring_2025.1 debianutils_5.23.2 dh-autoreconf_20 dh-strip-nondeterminism_1.14.1-2 diffutils_1:3.10-4 dirmngr_2.4.8-3 dpkg_1.22.21 dpkg-dev_1.22.21 dwz_0.15-1+b1 eatmydata_131-2 file_1:5.46-5 findutils_4.10.0-3 g++_4:14.2.0-1 g++-14_14.3.0-5 g++-14-x86-64-linux-gnu_14.3.0-5 g++-x86-64-linux-gnu_4:14.2.0-1 gcc_4:14.2.0-1 gcc-14_14.3.0-5 gcc-14-base_14.3.0-5 gcc-14-x86-64-linux-gnu_14.3.0-5 gcc-15-base_15.2.0-1 gcc-x86-64-linux-gnu_4:14.2.0-1 gettext_0.23.1-2+b1 gettext-base_0.23.1-2+b1 gnupg_2.4.8-3 gnupg-l10n_2.4.8-3 gpg_2.4.8-3 gpg-agent_2.4.8-3 gpgconf_2.4.8-3 gpgsm_2.4.8-3 grep_3.11-4 groff-base_1.23.0-9 gzip_1.13-1 hostname_3.25 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 krb5-multidev_1.21.3-5 libacl1_2.3.2-2+b1 libapt-pkg7.0_3.1.4 libarchive-zip-perl_1.68-1 libasan8_15.2.0-1 libassuan9_3.0.2-2 libatomic1_15.2.0-1 libattr1_1:2.5.2-3 libaudit-common_1:4.0.5-1 libaudit1_1:4.0.5-1 libbinutils_2.45-4 libblkid1_2.41.1-1 libbrotli-dev_1.1.0-2+b7 libbrotli1_1.1.0-2+b7 libbsd0_0.12.2-2 libbz2-1.0_1.0.8-6 libbz2-dev_1.0.8-6 libc-bin_2.41-12 libc-dev-bin_2.41-12 libc6_2.41-12 libc6-dev_2.41-12 libcap-ng0_0.8.5-4+b1 libcap2_1:2.75-10+b1 libcc1-0_15.2.0-1 libcom-err2_1.47.2-3+b3 libconst-fast-perl_0.014-2 libcrypt-dev_1:4.4.38-1 libcrypt1_1:4.4.38-1 libctf-nobfd0_2.45-4 libctf0_2.45-4 libcurl3t64-gnutls_8.15.0-1 libcurl4-gnutls-dev_8.15.0-1 libdata-optlist-perl_0.114-1 libdb5.3t64_5.3.28+dfsg2-9 libdebconfclient0_0.280 libdebhelper-perl_13.25 libdeflate-dev_1.23-2 libdeflate0_1.23-2 libdevel-cover-perl_1.51-1+b1 libdevel-symdump-perl_2.18-5 libdpkg-perl_1.22.21 libeatmydata1_131-2+b1 libelf1t64_0.192-4 libevent-2.1-7t64_2.1.12-stable-10+b1 libffi8_3.4.8-2 libfile-slurp-perl_9999.32-2.1 libfile-stripnondeterminism-perl_1.14.1-2 libfile-which-perl_1.27-2 libgcc-14-dev_14.3.0-5 libgcc-s1_15.2.0-1 libgcrypt20_1.11.2-2 libgdbm-compat4t64_1.24-2 libgdbm6t64_1.24-2 libgmp-dev_2:6.3.0+dfsg-4 libgmp10_2:6.3.0+dfsg-4 libgmpxx4ldbl_2:6.3.0+dfsg-4 libgnutls-dane0t64_3.8.10-2 libgnutls-openssl27t64_3.8.10-2 libgnutls28-dev_3.8.10-2 libgnutls30t64_3.8.10-2 libgomp1_15.2.0-1 libgpg-error0_1.55-2 libgprofng0_2.45-4 libgssapi-krb5-2_1.21.3-5 libgssrpc4t64_1.21.3-5 libhogweed6t64_3.10.1-1 libhtml-parser-perl_3.83-1+b3 libhtml-tagset-perl_3.24-1 libhts-dev_1.22.1+ds-1 libhts3t64_1.22.1+ds-1 libhtscodecs2_1.6.1-2 libhwasan0_15.2.0-1 libidn2-0_2.3.8-4 libidn2-dev_2.3.8-4 libipc-system-simple-perl_1.30-2 libisl23_0.27-1 libitm1_15.2.0-1 libjansson4_2.14-2+b3 libjson-perl_4.10000-1 libk5crypto3_1.21.3-5 libkadm5clnt-mit12_1.21.3-5 libkadm5srv-mit12_1.21.3-5 libkdb5-10t64_1.21.3-5 libkeyutils1_1.6.3-6 libkrb5-3_1.21.3-5 libkrb5-dev_1.21.3-5 libkrb5support0_1.21.3-5 libksba8_1.6.7-2+b1 liblastlog2-2_2.41.1-1 libldap-dev_2.6.10+dfsg-1+b1 libldap2_2.6.10+dfsg-1+b1 liblsan0_15.2.0-1 liblz4-1_1.10.0-4 liblzma-dev_5.8.1-1 liblzma5_5.8.1-1 libmagic-mgc_1:5.46-5 libmagic1t64_1:5.46-5 libmd0_1.1.0-2+b1 libmount1_2.41.1-1 libmpc3_1.3.1-1+b3 libmpfr6_4.2.2-1 libncursesw6_6.5+20250216-2 libnettle8t64_3.10.1-1 libnghttp2-14_1.64.0-1.1+b1 libnghttp2-dev_1.64.0-1.1+b1 libnghttp3-9_1.8.0-1 libnghttp3-dev_1.8.0-1 libngtcp2-16_1.11.0-1 libngtcp2-crypto-gnutls-dev_1.11.0-1 libngtcp2-crypto-gnutls8_1.11.0-1 libngtcp2-dev_1.11.0-1 libnpth0t64_1.8-3 libp11-kit-dev_0.25.5-3 libp11-kit0_0.25.5-3 libpam-modules_1.7.0-5 libpam-modules-bin_1.7.0-5 libpam-runtime_1.7.0-5 libpam0g_1.7.0-5 libparams-util-perl_1.102-3+b2 libpcre2-8-0_10.45-1 libperl5.40_5.40.1-6 libperl5.42_5.42.0-1 libpipeline1_1.5.8-1 libpkgconf3_1.8.1-4 libpod-coverage-perl_0.23-2 libpod-parser-perl_1.67-1 libpsl-dev_0.21.2-1.1+b1 libpsl5t64_0.21.2-1.1+b1 libquadmath0_15.2.0-1 libreadline8t64_8.2-6 librtmp-dev_2.4+20151223.gitfa8646d.1-3 librtmp1_2.4+20151223.gitfa8646d.1-3 libsasl2-2_2.1.28+dfsg1-9 libsasl2-modules-db_2.1.28+dfsg1-9 libseccomp2_2.6.0-2 libselinux1_3.8.1-1 libsemanage-common_3.8.1-1 libsemanage2_3.8.1-1 libsepol2_3.8.1-1 libsframe2_2.45-4 libsmartcols1_2.41.1-1 libsqlite3-0_3.46.1-7 libssh2-1-dev_1.11.1-1 libssh2-1t64_1.11.1-1 libssl-dev_3.5.2-1 libssl3t64_3.5.2-1 libstdc++-14-dev_14.3.0-5 libstdc++6_15.2.0-1 libsub-exporter-perl_0.990-1 libsub-exporter-progressive-perl_0.001013-3 libsub-install-perl_0.929-1 libsystemd0_258~rc3-1 libtasn1-6_4.20.0-2 libtasn1-6-dev_4.20.0-2 libtest-fatal-perl_0.017-2 libtinfo6_6.5+20250216-2 libtool_2.5.4-4 libtry-tiny-perl_0.32-1 libtsan2_15.2.0-1 libubsan1_15.2.0-1 libuchardet0_0.0.8-1+b2 libudev1_258~rc3-1 libunbound8_1.22.0-2 libunistring5_1.3-2 liburi-perl_5.30-1 libuuid1_2.41.1-1 libxml2-16_2.14.5+dfsg-0.1 libxxhash0_0.8.3-2 libzstd-dev_1.5.7+dfsg-1 libzstd1_1.5.7+dfsg-1 linux-libc-dev_6.12.38-1 login.defs_1:4.17.4-2 m4_1.4.19-8 make_4.4.1-2 man-db_2.13.1-1 mawk_1.3.4.20250131-1 ncurses-base_6.5+20250216-2 ncurses-bin_6.5+20250216-2 nettle-dev_3.10.1-1 openssl-provider-legacy_3.5.2-1 passwd_1:4.17.4-2 patch_2.8-2 perl_5.42.0-1 perl-base_5.42.0-1 perl-modules-5.40_5.40.1-6 perl-modules-5.42_5.42.0-1 pinentry-curses_1.3.2-3 pkgconf_1.8.1-4 pkgconf-bin_1.8.1-4 po-debconf_1.0.21+nmu1 readline-common_8.2-6 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.26 sqv_1.3.0-3 sysvinit-utils_3.14-4 tar_1.35+dfsg-3.1 util-linux_2.41.1-1 xz-utils_5.8.1-1 zlib1g_1:1.3.dfsg+really1.3.1-1+b1 zlib1g-dev_1:1.3.dfsg+really1.3.1-1+b1 +------------------------------------------------------------------------------+ | Build Sat, 23 Aug 2025 07:42:19 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: allelecount Binary: allelecount, liballelecount-perl Architecture: any all Version: 4.3.0-3 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/cancerit/alleleCount Standards-Version: 4.7.0 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 8ce5e32027ba0035ec6b911717e5431ddfbdfc1a 16284 allelecount_4.3.0-3.debian.tar.xz Checksums-Sha256: 5363ae12c2385c962728336a4498b1a29c9eaa3d4a24492d0debf897771cfd3c 1390569 allelecount_4.3.0.orig.tar.gz 4e2b1dff61b8c788d23bfe68c5d9da3cbc2bbda07722292979844a382adc0737 16284 allelecount_4.3.0-3.debian.tar.xz Files: 331975437e661cab1a950c3b3d2cc5c2 1390569 allelecount_4.3.0.orig.tar.gz c502a342cbf0a47e917195dbba8b23f4 16284 allelecount_4.3.0-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmdYa30RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGIyA//arqKPufJ/W5SUy2ygPsuR31N1cRwMs38 x+sfUcis3ZSmz7wjtRyOW79JKxX/dazzaYiVTLrKfyeUkOPr4I6zS82CFR0qcqUJ dfHoD/6up2F/d0It4NVHLstPVGVr1nv+f0MW3L7ZrLvfRlxxRsngzlkEgh1e2VkN fBFMketCOf8QS4HtJwAXNz81o0gnqTXQ9xivgUt6IG/gX+jsudfWPj2z5YKiUMO9 NJgJWjsGIsAuCxotOy/zGkCOJTLP2LiQJceAQ1GGH3fV6cMn6tX3lBmYK4O5EBWH 6Z6nHbb3ZPNHPWzK9UetWP8M8+zQxMEr2jAJJFjrxwfrQcfuhRpnsGNlX1ewWWqi x73CDmVi4iLt/zGOezwh65aBqpI3rSsYzjkV3u+h9SNBkPgSRZgXfoUekaPK31ZV 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+------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network allelecount_4.3.0-3 perl-5.42-throwaway amd64 -------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network allelecount_4.3.0-3 perl-5.42-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent 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-TAHcZU/allelecount-4.3.0 SCHROOT_ALIAS_NAME=perl-5.42-throwaway-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.42-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.42-amd64-debomatic-d579bc37-a193-4766-98c5-812fe7cece60 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 4.3.0-3 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 '/build/allelecount-TAHcZU/allelecount-4.3.0' dh_auto_clean --sourcedirectory=c cd c && make -j2 clean make[2]: Entering directory '/build/allelecount-TAHcZU/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-TAHcZU/allelecount-4.3.0/c' dh_auto_clean --sourcedirectory=perl make[1]: Leaving directory '/build/allelecount-TAHcZU/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_4.3.0-3.debian.tar.xz dpkg-source: info: building allelecount in allelecount_4.3.0-3.dsc debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/allelecount-TAHcZU/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-TAHcZU/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-TAHcZU/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-TAHcZU/allelecount-4.3.0' debian/rules override_dh_auto_build make[1]: Entering directory '/build/allelecount-TAHcZU/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-TAHcZU/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 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=/build/allelecount-TAHcZU/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 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-TAHcZU/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 gcc -O3 -DALLELECOUNTER_VERSION='"4.3.0"' -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/allelecount-TAHcZU/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 remove tmp hts location rm -rf ./htslib_tmp Binaries have been compiled. make[2]: Leaving directory '/build/allelecount-TAHcZU/allelecount-4.3.0/c' dh_auto_build --sourcedirectory=perl cd perl && make -j2 make[2]: Entering directory '/build/allelecount-TAHcZU/allelecount-4.3.0/perl' cp lib/Sanger/CGP/AlleleCount/Genotype.pm blib/lib/Sanger/CGP/AlleleCount/Genotype.pm cp lib/Sanger/CGP/AlleleCount.pm blib/lib/Sanger/CGP/AlleleCount.pm cp lib/Sanger/CGP/AlleleCount/ToJson.pm blib/lib/Sanger/CGP/AlleleCount/ToJson.pm cp bin/alleleCounter.pl blib/script/alleleCounter.pl "/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- 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 Manifying 2 pod documents Manifying 2 pod documents make[2]: Leaving directory '/build/allelecount-TAHcZU/allelecount-4.3.0/perl' make[1]: Leaving directory '/build/allelecount-TAHcZU/allelecount-4.3.0' debian/rules override_dh_auto_test make[1]: Entering directory '/build/allelecount-TAHcZU/allelecount-4.3.0' dh_auto_test --sourcedirectory=c cd c && make -j2 test make[2]: Entering directory '/build/allelecount-TAHcZU/allelecount-4.3.0/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 '/build/allelecount-TAHcZU/allelecount-4.3.0/c' dh_auto_test --sourcedirectory=perl cd perl && make -j2 test TEST_VERBOSE=1 make[2]: Entering directory '/build/allelecount-TAHcZU/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-TAHcZU/allelecount-4.3.0/perl/t/../bin/alleleCounter.pl ok 2 - Compilation check: /build/allelecount-TAHcZU/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 ( 0.02 usr 0.00 sys + 0.44 cusr 0.11 csys = 0.57 CPU) Result: PASS make[2]: Leaving directory '/build/allelecount-TAHcZU/allelecount-4.3.0/perl' make[1]: Leaving directory '/build/allelecount-TAHcZU/allelecount-4.3.0' create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/build/allelecount-TAHcZU/allelecount-4.3.0' dh_auto_install --sourcedirectory=c dh_auto_install --sourcedirectory=perl cd perl && make -j2 install DESTDIR=/build/allelecount-TAHcZU/allelecount-4.3.0/debian/tmp AM_UPDATE_INFO_DIR=no PREFIX=/usr make[2]: Entering directory '/build/allelecount-TAHcZU/allelecount-4.3.0/perl' Manifying 2 pod documents Manifying 2 pod documents Installing /build/allelecount-TAHcZU/allelecount-4.3.0/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount.pm Installing /build/allelecount-TAHcZU/allelecount-4.3.0/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount/Genotype.pm Installing /build/allelecount-TAHcZU/allelecount-4.3.0/debian/tmp/usr/share/perl5/Sanger/CGP/AlleleCount/ToJson.pm Installing /build/allelecount-TAHcZU/allelecount-4.3.0/debian/tmp/usr/share/man/man1/alleleCounterToJson.pl.1p Installing /build/allelecount-TAHcZU/allelecount-4.3.0/debian/tmp/usr/share/man/man1/alleleCounter.pl.1p Installing /build/allelecount-TAHcZU/allelecount-4.3.0/debian/tmp/usr/share/man/man3/Sanger::CGP::AlleleCount::ToJson.3pm Installing /build/allelecount-TAHcZU/allelecount-4.3.0/debian/tmp/usr/share/man/man3/Sanger::CGP::AlleleCount::Genotype.3pm Installing /build/allelecount-TAHcZU/allelecount-4.3.0/debian/tmp/usr/bin/alleleCounter.pl Installing /build/allelecount-TAHcZU/allelecount-4.3.0/debian/tmp/usr/bin/alleleCounterToJson.pl make[2]: Leaving directory '/build/allelecount-TAHcZU/allelecount-4.3.0/perl' make[1]: Leaving directory '/build/allelecount-TAHcZU/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_4.3.0-3_amd64.deb'. dpkg-deb: building package 'liballelecount-perl' in '../liballelecount-perl_4.3.0-3_all.deb'. dpkg-deb: building package 'allelecount-dbgsym' in '../allelecount-dbgsym_4.3.0-3_amd64.deb'. dpkg-genbuildinfo -O../allelecount_4.3.0-3_amd64.buildinfo dpkg-genchanges -O../allelecount_4.3.0-3_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 2025-08-23T07:42:30Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Sat, 23 Aug 2025 07:42:30 +0000 | +------------------------------------------------------------------------------+ allelecount_4.3.0-3_amd64.changes: ---------------------------------- Format: 1.8 Date: Tue, 10 Dec 2024 17:19:18 +0100 Source: allelecount Binary: allelecount allelecount-dbgsym liballelecount-perl Architecture: source amd64 all Version: 4.3.0-3 Distribution: perl-5.42-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 (4.3.0-3) unstable; urgency=medium . * Build with make 4.4.1 (no-parallel) * Standards-Version: 4.7.0 (routine-update) * Update lintian override info format in d/liballelecount-perl.lintian-overrides on line 2. * Fix d/copyright (thanks to lrc) Checksums-Sha1: 0fc2f4057b88ab584de51b476c2688b09d899a63 1501 allelecount_4.3.0-3.dsc 8ce5e32027ba0035ec6b911717e5431ddfbdfc1a 16284 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Files: 455a32ab50ffbb9cdb29197d8756c87c 1501 science optional allelecount_4.3.0-3.dsc c502a342cbf0a47e917195dbba8b23f4 16284 science optional allelecount_4.3.0-3.debian.tar.xz b4352f9bef8ea171cdc60fab2d2232d7 31240 debug optional allelecount-dbgsym_4.3.0-3_amd64.deb 2867c3fdcf6215a827f349f409262e4c 8128 science optional allelecount_4.3.0-3_amd64.buildinfo 7717cd1313e83b475e43d26e1e656057 30276 science optional allelecount_4.3.0-3_amd64.deb 3554d36f60c410545ce8f2b5412a8fad 25092 perl optional liballelecount-perl_4.3.0-3_all.deb +------------------------------------------------------------------------------+ | Buildinfo Sat, 23 Aug 2025 07:42:30 +0000 | +------------------------------------------------------------------------------+ Format: 1.0 Source: allelecount Binary: allelecount allelecount-dbgsym liballelecount-perl Architecture: all amd64 source Version: 4.3.0-3 Checksums-Md5: 455a32ab50ffbb9cdb29197d8756c87c 1501 allelecount_4.3.0-3.dsc b4352f9bef8ea171cdc60fab2d2232d7 31240 allelecount-dbgsym_4.3.0-3_amd64.deb 7717cd1313e83b475e43d26e1e656057 30276 allelecount_4.3.0-3_amd64.deb 3554d36f60c410545ce8f2b5412a8fad 25092 liballelecount-perl_4.3.0-3_all.deb Checksums-Sha1: 0fc2f4057b88ab584de51b476c2688b09d899a63 1501 allelecount_4.3.0-3.dsc dd1374470a36d3037f705934901bea15fca93659 31240 allelecount-dbgsym_4.3.0-3_amd64.deb 5be169aa9c807e0a09f7ce27602f334836cb3c01 30276 allelecount_4.3.0-3_amd64.deb d2028184ac88d06ad67e351d608ee6f7da5d67df 25092 liballelecount-perl_4.3.0-3_all.deb Checksums-Sha256: 4382dde643811a661608ee2a2aaad985b97148217bd23b0fc7984fd7e18cf8c9 1501 allelecount_4.3.0-3.dsc 3d127363922887ed6a9ae9db01a1e8254e5b52ff5aeff7f502eb28e235599bda 31240 allelecount-dbgsym_4.3.0-3_amd64.deb b74d8f9a88cd35dfd5b2cff9bb0b4188995ed7559a8b337bf7bbbfe60d27d526 30276 allelecount_4.3.0-3_amd64.deb 14ee0ed9a6bc1597e85206286713f23b8887bfb9f5f4c245e42681090610b3a8 25092 liballelecount-perl_4.3.0-3_all.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sat, 23 Aug 2025 07:42:30 +0000 Build-Path: /build/allelecount-TAHcZU/allelecount-4.3.0 Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.72-3.1), automake (= 1:1.17-4), autopoint (= 0.23.1-2), autotools-dev (= 20240727.1), base-files (= 14), base-passwd (= 3.6.7), bash (= 5.2.37-2+b5), binutils (= 2.45-4), binutils-common (= 2.45-4), binutils-x86-64-linux-gnu (= 2.45-4), bsdextrautils (= 2.41.1-1), bsdutils (= 1:2.41.1-1), build-essential (= 12.12), bzip2 (= 1.0.8-6), comerr-dev (= 2.1-1.47.2-3+b3), coreutils (= 9.7-3), cpp (= 4:14.2.0-1), cpp-14 (= 14.3.0-5), cpp-14-x86-64-linux-gnu (= 14.3.0-5), cpp-x86-64-linux-gnu (= 4:14.2.0-1), dash (= 0.5.12-12), debconf (= 1.5.91), debhelper (= 13.25), debianutils (= 5.23.2), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.14.1-2), diffutils (= 1:3.10-4), dpkg (= 1.22.21), dpkg-dev (= 1.22.21), dwz (= 0.15-1+b1), file (= 1:5.46-5), findutils (= 4.10.0-3), g++ (= 4:14.2.0-1), g++-14 (= 14.3.0-5), g++-14-x86-64-linux-gnu (= 14.3.0-5), g++-x86-64-linux-gnu (= 4:14.2.0-1), gcc (= 4:14.2.0-1), gcc-14 (= 14.3.0-5), gcc-14-base (= 14.3.0-5), gcc-14-x86-64-linux-gnu (= 14.3.0-5), gcc-15-base (= 15.2.0-1), gcc-x86-64-linux-gnu (= 4:14.2.0-1), gettext (= 0.23.1-2+b1), gettext-base (= 0.23.1-2+b1), grep (= 3.11-4), groff-base (= 1.23.0-9), gzip (= 1.13-1), hostname (= 3.25), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), krb5-multidev (= 1.21.3-5), libacl1 (= 2.3.2-2+b1), libarchive-zip-perl (= 1.68-1), libasan8 (= 15.2.0-1), libatomic1 (= 15.2.0-1), libattr1 (= 1:2.5.2-3), libaudit-common (= 1:4.0.5-1), libaudit1 (= 1:4.0.5-1), libbinutils (= 2.45-4), libblkid1 (= 2.41.1-1), libbrotli-dev (= 1.1.0-2+b7), libbrotli1 (= 1.1.0-2+b7), libbz2-1.0 (= 1.0.8-6), libbz2-dev (= 1.0.8-6), libc-bin (= 2.41-12), libc-dev-bin (= 2.41-12), libc6 (= 2.41-12), libc6-dev (= 2.41-12), libcap-ng0 (= 0.8.5-4+b1), libcap2 (= 1:2.75-10+b1), libcc1-0 (= 15.2.0-1), libcom-err2 (= 1.47.2-3+b3), libconst-fast-perl (= 0.014-2), libcrypt-dev (= 1:4.4.38-1), libcrypt1 (= 1:4.4.38-1), libctf-nobfd0 (= 2.45-4), libctf0 (= 2.45-4), libcurl3t64-gnutls (= 8.15.0-1), libcurl4-gnutls-dev (= 8.15.0-1), libdata-optlist-perl (= 0.114-1), libdb5.3t64 (= 5.3.28+dfsg2-9), libdebconfclient0 (= 0.280), libdebhelper-perl (= 13.25), libdeflate-dev (= 1.23-2), libdeflate0 (= 1.23-2), libdevel-cover-perl (= 1.51-1+b1), libdevel-symdump-perl (= 2.18-5), libdpkg-perl (= 1.22.21), libelf1t64 (= 0.192-4), libevent-2.1-7t64 (= 2.1.12-stable-10+b1), libffi8 (= 3.4.8-2), libfile-slurp-perl (= 9999.32-2.1), libfile-stripnondeterminism-perl (= 1.14.1-2), libfile-which-perl (= 1.27-2), libgcc-14-dev (= 14.3.0-5), libgcc-s1 (= 15.2.0-1), libgdbm-compat4t64 (= 1.24-2), libgdbm6t64 (= 1.24-2), libgmp-dev (= 2:6.3.0+dfsg-4), libgmp10 (= 2:6.3.0+dfsg-4), libgmpxx4ldbl (= 2:6.3.0+dfsg-4), libgnutls-dane0t64 (= 3.8.10-2), libgnutls-openssl27t64 (= 3.8.10-2), libgnutls28-dev (= 3.8.10-2), libgnutls30t64 (= 3.8.10-2), libgomp1 (= 15.2.0-1), libgprofng0 (= 2.45-4), libgssapi-krb5-2 (= 1.21.3-5), libgssrpc4t64 (= 1.21.3-5), libhogweed6t64 (= 3.10.1-1), libhtml-parser-perl (= 3.83-1+b3), libhtml-tagset-perl (= 3.24-1), libhts-dev (= 1.22.1+ds-1), libhts3t64 (= 1.22.1+ds-1), libhtscodecs2 (= 1.6.1-2), libhwasan0 (= 15.2.0-1), libidn2-0 (= 2.3.8-4), libidn2-dev (= 2.3.8-4), libipc-system-simple-perl (= 1.30-2), libisl23 (= 0.27-1), libitm1 (= 15.2.0-1), libjansson4 (= 2.14-2+b3), libjson-perl (= 4.10000-1), libk5crypto3 (= 1.21.3-5), libkadm5clnt-mit12 (= 1.21.3-5), libkadm5srv-mit12 (= 1.21.3-5), libkdb5-10t64 (= 1.21.3-5), libkeyutils1 (= 1.6.3-6), libkrb5-3 (= 1.21.3-5), libkrb5-dev (= 1.21.3-5), libkrb5support0 (= 1.21.3-5), liblastlog2-2 (= 2.41.1-1), libldap-dev (= 2.6.10+dfsg-1+b1), libldap2 (= 2.6.10+dfsg-1+b1), liblsan0 (= 15.2.0-1), liblzma-dev (= 5.8.1-1), liblzma5 (= 5.8.1-1), libmagic-mgc (= 1:5.46-5), libmagic1t64 (= 1:5.46-5), libmd0 (= 1.1.0-2+b1), libmount1 (= 2.41.1-1), libmpc3 (= 1.3.1-1+b3), libmpfr6 (= 4.2.2-1), libnettle8t64 (= 3.10.1-1), libnghttp2-14 (= 1.64.0-1.1+b1), libnghttp2-dev (= 1.64.0-1.1+b1), libnghttp3-9 (= 1.8.0-1), libnghttp3-dev (= 1.8.0-1), libngtcp2-16 (= 1.11.0-1), libngtcp2-crypto-gnutls-dev (= 1.11.0-1), libngtcp2-crypto-gnutls8 (= 1.11.0-1), libngtcp2-dev (= 1.11.0-1), libp11-kit-dev (= 0.25.5-3), libp11-kit0 (= 0.25.5-3), libpam-modules (= 1.7.0-5), libpam-modules-bin (= 1.7.0-5), libpam-runtime (= 1.7.0-5), libpam0g (= 1.7.0-5), libparams-util-perl (= 1.102-3+b2), libpcre2-8-0 (= 10.45-1), libperl5.42 (= 5.42.0-1), libpipeline1 (= 1.5.8-1), libpkgconf3 (= 1.8.1-4), libpod-coverage-perl (= 0.23-2), libpod-parser-perl (= 1.67-1), libpsl-dev (= 0.21.2-1.1+b1), libpsl5t64 (= 0.21.2-1.1+b1), libquadmath0 (= 15.2.0-1), librtmp-dev (= 2.4+20151223.gitfa8646d.1-3), librtmp1 (= 2.4+20151223.gitfa8646d.1-3), libsasl2-2 (= 2.1.28+dfsg1-9), libsasl2-modules-db (= 2.1.28+dfsg1-9), libseccomp2 (= 2.6.0-2), libselinux1 (= 3.8.1-1), libsframe2 (= 2.45-4), libsmartcols1 (= 2.41.1-1), libsqlite3-0 (= 3.46.1-7), libssh2-1-dev (= 1.11.1-1), libssh2-1t64 (= 1.11.1-1), libssl-dev (= 3.5.2-1), libssl3t64 (= 3.5.2-1), libstdc++-14-dev (= 14.3.0-5), libstdc++6 (= 15.2.0-1), libsub-exporter-perl (= 0.990-1), libsub-exporter-progressive-perl (= 0.001013-3), libsub-install-perl (= 0.929-1), libsystemd0 (= 258~rc3-1), libtasn1-6 (= 4.20.0-2), libtasn1-6-dev (= 4.20.0-2), libtest-fatal-perl (= 0.017-2), libtinfo6 (= 6.5+20250216-2), libtool (= 2.5.4-4), libtry-tiny-perl (= 0.32-1), libtsan2 (= 15.2.0-1), libubsan1 (= 15.2.0-1), libuchardet0 (= 0.0.8-1+b2), libudev1 (= 258~rc3-1), libunbound8 (= 1.22.0-2), libunistring5 (= 1.3-2), liburi-perl (= 5.30-1), libuuid1 (= 2.41.1-1), libxml2-16 (= 2.14.5+dfsg-0.1), libzstd-dev (= 1.5.7+dfsg-1), libzstd1 (= 1.5.7+dfsg-1), linux-libc-dev (= 6.12.38-1), m4 (= 1.4.19-8), make (= 4.4.1-2), man-db (= 2.13.1-1), mawk (= 1.3.4.20250131-1), ncurses-base (= 6.5+20250216-2), ncurses-bin (= 6.5+20250216-2), nettle-dev (= 3.10.1-1), openssl-provider-legacy (= 3.5.2-1), patch (= 2.8-2), perl (= 5.42.0-1), perl-base (= 5.42.0-1), perl-modules-5.42 (= 5.42.0-1), pkgconf (= 1.8.1-4), pkgconf-bin (= 1.8.1-4), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.26), sysvinit-utils (= 3.14-4), tar (= 1.35+dfsg-3.1), util-linux (= 2.41.1-1), xz-utils (= 5.8.1-1), zlib1g (= 1:1.3.dfsg+really1.3.1-1+b1), zlib1g-dev (= 1:1.3.dfsg+really1.3.1-1+b1) Environment: DEB_BUILD_OPTIONS="parallel=2" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" SOURCE_DATE_EPOCH="1733847558" +------------------------------------------------------------------------------+ | Package contents Sat, 23 Aug 2025 07:42:30 +0000 | +------------------------------------------------------------------------------+ allelecount-dbgsym_4.3.0-3_amd64.deb ------------------------------------ new Debian package, version 2.0. size 31240 bytes: control archive=536 bytes. 385 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: allelecount-dbgsym Source: allelecount Version: 4.3.0-3 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 58 Depends: allelecount (= 4.3.0-3) Section: debug Priority: optional Description: debug symbols for allelecount Build-Ids: d07292ecf545b1536822aab68826fc0b4f25c69a drwxr-xr-x root/root 0 2024-12-10 16:19 ./ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/lib/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/lib/debug/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/lib/debug/.build-id/d0/ -rw-r--r-- root/root 48864 2024-12-10 16:19 ./usr/lib/debug/.build-id/d0/7292ecf545b1536822aab68826fc0b4f25c69a.debug drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/doc/ lrwxrwxrwx root/root 0 2024-12-10 16:19 ./usr/share/doc/allelecount-dbgsym -> allelecount allelecount_4.3.0-3_amd64.deb ----------------------------- new Debian package, version 2.0. size 30276 bytes: control archive=892 bytes. 672 bytes, 16 lines control 425 bytes, 6 lines md5sums Package: allelecount Version: 4.3.0-3 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 92 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 2024-12-10 16:19 ./ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/bin/ -rwxr-xr-x root/root 39536 2024-12-10 16:19 ./usr/bin/alleleCounter drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/doc/allelecount/ -rw-r--r-- root/root 805 2024-12-10 16:19 ./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 2024-12-10 16:19 ./usr/share/doc/allelecount/copyright drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/lintian/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 120 2024-12-10 16:19 ./usr/share/lintian/overrides/allelecount drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/man/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/man/man1/ -rw-r--r-- root/root 1132 2024-12-10 16:19 ./usr/share/man/man1/alleleCounter.1.gz liballelecount-perl_4.3.0-3_all.deb ----------------------------------- new Debian package, version 2.0. size 25092 bytes: control archive=1220 bytes. 975 bytes, 20 lines control 1043 bytes, 13 lines md5sums Package: liballelecount-perl Source: allelecount Version: 4.3.0-3 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 83 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 2024-12-10 16:19 ./ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/bin/ -rwxr-xr-x root/root 3741 2024-12-10 16:19 ./usr/bin/alleleCounter.pl -rwxr-xr-x root/root 2692 2024-12-10 16:19 ./usr/bin/alleleCounterToJson.pl drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/doc/liballelecount-perl/ -rw-r--r-- root/root 805 2024-12-10 16:19 ./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 2024-12-10 16:19 ./usr/share/doc/liballelecount-perl/copyright drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/lintian/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 130 2024-12-10 16:19 ./usr/share/lintian/overrides/liballelecount-perl drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/man/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/man/man1/ -rw-r--r-- root/root 1381 2024-12-10 16:19 ./usr/share/man/man1/alleleCounter.pl.1p.gz -rw-r--r-- root/root 1084 2024-12-10 16:19 ./usr/share/man/man1/alleleCounterToJson.pl.1p.gz drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/man/man3/ -rw-r--r-- root/root 1487 2024-12-10 16:19 ./usr/share/man/man3/Sanger::CGP::AlleleCount::Genotype.3pm.gz -rw-r--r-- root/root 1070 2024-12-10 16:19 ./usr/share/man/man3/Sanger::CGP::AlleleCount::ToJson.3pm.gz drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/perl5/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./usr/share/perl5/Sanger/ drwxr-xr-x root/root 0 2024-12-10 16:19 ./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 2024-12-10 16:19 ./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 Sat, 23 Aug 2025 07:42:30 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Sat, 23 Aug 2025 07:42:30 +0000 | +------------------------------------------------------------------------------+ Purging /build/allelecount-TAHcZU Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Sat, 23 Aug 2025 07:42:31 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 3052 Build-Time: 11 Distribution: perl-5.42-throwaway Host Architecture: amd64 Install-Time: 6 Job: /srv/debomatic/incoming/allelecount_4.3.0-3.dsc Machine Architecture: amd64 Package: allelecount Package-Time: 26 Source-Version: 4.3.0-3 Space: 3052 Status: successful Version: 4.3.0-3 -------------------------------------------------------------------------------- Finished at 2025-08-23T07:42:30Z Build needed 00:00:26, 3052k disk space