sbuild (Debian sbuild) 0.91.9 (05 May 2026) on carme.larted.org.uk +==============================================================================+ | jellyfish 2.3.1-6+b1 (amd64) Fri, 26 Jun 2026 23:37:45 +0000 | +==============================================================================+ Package: jellyfish Version: 2.3.1-6+b1 Source Version: 2.3.1-6 Distribution: perl-5.44 Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: any I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... +------------------------------------------------------------------------------+ | Chroot Setup Commands Fri, 26 Jun 2026 23:37:45 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup jellyfish_2.3.1-6 perl-5.44 amd64 -------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup jellyfish_2.3.1-6 perl-5.44 amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: Setting up apt archive... +------------------------------------------------------------------------------+ | Update chroot Fri, 26 Jun 2026 23:37:46 +0000 | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.44 InRelease [3036 B] Get:1 file:/srv/reprepro perl-5.44 InRelease [3036 B] Get:2 file:/srv/reprepro perl-5.44/main amd64 Packages [139 kB] Hit:3 http://deb.debian.org/debian unstable InRelease Hit:4 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 Fri, 26 Jun 2026 23:37:51 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/jellyfish_2.3.1-6.dsc exists in /srv/debomatic/incoming; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Fri, 26 Jun 2026 23:37:52 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), architecture-is-little-endian, architecture-is-64-bit, d-shlibs, autoconf-archive, yaggo, pkgconf, bc, time, procps, swig, python3-all-dev, libpython3-all-dev, dh-sequence-python3, python3-setuptools, perl-xs-dev, perl, chrpath, libhts-dev, dos2unix, samtools, build-essential Filtered Build-Depends: debhelper-compat (= 13), architecture-is-little-endian, architecture-is-64-bit, d-shlibs, autoconf-archive, yaggo, pkgconf, bc, time, procps, swig, python3-all-dev, libpython3-all-dev, dh-sequence-python3, python3-setuptools, perl-xs-dev, perl, chrpath, libhts-dev, dos2unix, samtools, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/jellyfish-yWEPpL/resolver-Zy8cIz/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/build/jellyfish-yWEPpL/resolver-Zy8cIz/apt_archive ./ InRelease Get:2 copy:/build/jellyfish-yWEPpL/resolver-Zy8cIz/apt_archive ./ Release [609 B] Ign:3 copy:/build/jellyfish-yWEPpL/resolver-Zy8cIz/apt_archive ./ Release.gpg Get:4 copy:/build/jellyfish-yWEPpL/resolver-Zy8cIz/apt_archive ./ Sources [875 B] Get:5 copy:/build/jellyfish-yWEPpL/resolver-Zy8cIz/apt_archive ./ Packages [900 B] Fetched 2384 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: architecture-properties autoconf autoconf-archive automake autopoint autotools-dev bc bsdextrautils ca-certificates chrpath comerr-dev d-shlibs debhelper dh-autoreconf dh-python dh-strip-nondeterminism dos2unix dwz file gettext gettext-base groff-base intltool-debian krb5-multidev libarchive-zip-perl libbrotli-dev libbrotli1 libbz2-dev libcom-err2 libcrypt-dev libcurl3t64-gnutls libcurl4-gnutls libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 libelf1t64 libevent-2.1-7t64 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls28-dev libgssapi-krb5-2 libgssrpc4t64 libhts-dev libhts3t64 libhtscodecs2 libidn2-dev libjs-sphinxdoc libk5crypto3 libkadm5clnt-mit12 libkadm5srv-mit12 libkdb5-10t64 libkeyutils1 libkrb5-3 libkrb5-dev libkrb5support0 libldap-dev liblzma-dev libmagic-mgc libmagic1t64 libncurses6 libnghttp2-14 libnghttp2-dev libnghttp3-9 libnghttp3-dev libngtcp2-16 libngtcp2-crypto-gnutls-dev libngtcp2-crypto-gnutls8 libngtcp2-dev libp11-kit-dev libperl-dev libpipeline1 libpkgconf7 libproc2-0 libpsl-dev libpsl5t64 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.13 libpython3.13-dev libpython3.13-minimal libpython3.13-stdlib libpython3.14 libpython3.14-dev libpython3.14-minimal libpython3.14-stdlib librtmp-dev librtmp1 libruby libruby3.3 libssh2-1-dev libssh2-1t64 libssl-dev libtasn1-6-dev libtool libuchardet0 libunbound8 libunistring-dev libxml2-16 libyaml-0-2 libzstd-dev m4 man-db media-types netbase nettle-dev openssl pkgconf pkgconf-bin po-debconf procps python3 python3-all python3-all-dev python3-autocommand python3-dev python3-inflect python3-jaraco.context python3-jaraco.functools python3-jaraco.text python3-minimal python3-more-itertools python3-pkg-resources python3-setuptools python3-typeguard python3-typing-extensions python3-zipp python3.13 python3.13-dev python3.13-minimal python3.14 python3.14-dev python3.14-minimal rake ruby ruby-csv ruby-did-you-mean ruby-net-telnet ruby-ruby2-keywords ruby-rubygems ruby-webrick ruby-xmlrpc ruby3.3 rubygems-integration samtools sensible-utils swig time tzdata yaggo zlib1g-dev Suggested packages: gnu-standards autoconf-doc doc-base dh-make flit python3-build python3-installer python3-wheel gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff krb5-doc libcurl4-doc libidn-dev gmp-doc libgmp10-doc libmpfr-dev dns-root-data gnutls-bin gnutls-doc krb5-user liblzma-doc libnghttp2-doc p11-kit-doc libssl-doc libtool-doc gfortran | fortran95-compiler m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python-setuptools-doc python3.13-venv python3.13-doc binfmt-support python3.14-venv python3.14-doc ri ruby-dev bundler cwltool swig-doc swig-examples Recommended packages: curl | wget | lynx bzip2-doc libarchive-cpio-perl krb5-locales libgpm2 publicsuffix ruby-sdbm libtasn1-doc libltdl-dev libmail-sendmail-perl psmisc linux-sysctl-defaults zip fonts-lato libjs-jquery The following NEW packages will be installed: architecture-properties autoconf autoconf-archive automake autopoint autotools-dev bc bsdextrautils ca-certificates chrpath comerr-dev d-shlibs debhelper dh-autoreconf dh-python dh-strip-nondeterminism dos2unix dwz file gettext gettext-base groff-base intltool-debian krb5-multidev libarchive-zip-perl libbrotli-dev libbrotli1 libbz2-dev libcom-err2 libcrypt-dev libcurl3t64-gnutls libcurl4-gnutls libcurl4-gnutls-dev libdebhelper-perl libdeflate-dev libdeflate0 libelf1t64 libevent-2.1-7t64 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libgmp-dev libgmpxx4ldbl libgnutls-dane0t64 libgnutls28-dev libgssapi-krb5-2 libgssrpc4t64 libhts-dev libhts3t64 libhtscodecs2 libidn2-dev libjs-sphinxdoc libk5crypto3 libkadm5clnt-mit12 libkadm5srv-mit12 libkdb5-10t64 libkeyutils1 libkrb5-3 libkrb5-dev libkrb5support0 libldap-dev liblzma-dev libmagic-mgc libmagic1t64 libncurses6 libnghttp2-14 libnghttp2-dev libnghttp3-9 libnghttp3-dev libngtcp2-16 libngtcp2-crypto-gnutls-dev libngtcp2-crypto-gnutls8 libngtcp2-dev libp11-kit-dev libperl-dev libpipeline1 libpkgconf7 libproc2-0 libpsl-dev libpsl5t64 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.13 libpython3.13-dev libpython3.13-minimal libpython3.13-stdlib libpython3.14 libpython3.14-dev libpython3.14-minimal libpython3.14-stdlib librtmp-dev librtmp1 libruby libruby3.3 libssh2-1-dev libssh2-1t64 libssl-dev libtasn1-6-dev libtool libuchardet0 libunbound8 libunistring-dev libxml2-16 libyaml-0-2 libzstd-dev m4 man-db media-types netbase nettle-dev openssl pkgconf pkgconf-bin po-debconf procps python3 python3-all python3-all-dev python3-autocommand python3-dev python3-inflect python3-jaraco.context python3-jaraco.functools python3-jaraco.text python3-minimal python3-more-itertools python3-pkg-resources python3-setuptools python3-typeguard python3-typing-extensions python3-zipp python3.13 python3.13-dev python3.13-minimal python3.14 python3.14-dev python3.14-minimal rake ruby ruby-csv ruby-did-you-mean ruby-net-telnet ruby-ruby2-keywords ruby-rubygems ruby-webrick ruby-xmlrpc ruby3.3 rubygems-integration samtools sbuild-build-depends-main-dummy sensible-utils swig time tzdata yaggo zlib1g-dev 0 upgraded, 157 newly installed, 0 to remove and 0 not upgraded. Need to get 75.0 MB/76.2 MB of archives. After this operation, 314 MB of additional disk space will be used. Get:1 file:/srv/reprepro perl-5.44/main amd64 libperl-dev amd64 5.44.0~rc1-1 [1169 kB] Get:2 copy:/build/jellyfish-yWEPpL/resolver-Zy8cIz/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [992 B] Get:3 http://deb.debian.org/debian unstable/main amd64 autoconf-archive all 20241016-3 [797 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.8.2-1 [121 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.14-1 [864 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.14-1 [2271 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.13.9-3+b1 [25.4 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 media-types all 14.0.0 [30.8 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 netbase all 6.5 [12.4 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 tzdata all 2026b-1 [260 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.14-1 [1982 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.14-1 [781 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.13.9-3+b1 [8348 B] Get:14 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.13.9-3+b1 [25.4 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 libpython3.14-minimal amd64 3.14.6-1 [896 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 python3.14-minimal amd64 3.14.6-1 [2416 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-9+b2 [63.8 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-9+b2 [880 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.6.3-1 [1522 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20260601 [134 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.47-4 [345 kB] Get:23 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.47-4 [111 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.47-4 [43.0 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 1.0-1 [332 kB] Get:26 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2+b2 [69.0 kB] Get:27 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.24.1-1 [1336 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.42.2-1 [100.0 kB] Get:29 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-3 [49.2 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get:31 http://deb.debian.org/debian unstable/main amd64 architecture-properties amd64 0.2.6+b2 [2632 B] Get:32 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.21-1 [332 kB] Get:33 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.73-2 [516 kB] Get:34 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1+nmu1 [60.0 kB] Get:35 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-4 [877 kB] Get:36 http://deb.debian.org/debian unstable/main amd64 autopoint all 1.0-1 [820 kB] Get:37 http://deb.debian.org/debian unstable/main amd64 bc amd64 1.07.1-4 [103 kB] Get:38 http://deb.debian.org/debian unstable/main amd64 chrpath amd64 0.18-1 [13.5 kB] Get:39 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.4-1 [19.2 kB] Get:40 http://deb.debian.org/debian unstable/main amd64 comerr-dev amd64 2.1-1.47.4-1 [50.9 kB] Get:41 http://deb.debian.org/debian unstable/main amd64 d-shlibs all 0.109 [11.1 kB] Get:42 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 14.2 [77.1 kB] Get:43 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-11 [539 kB] Get:44 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 22 [12.2 kB] Get:45 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:46 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.1-1 [17.1 kB] Get:47 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.1-1 [6020 B] Get:48 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.195-1 [58.1 kB] Get:49 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-4 [108 kB] Get:50 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.3+dfsg-1 [642 kB] Get:51 http://deb.debian.org/debian unstable/main amd64 gettext amd64 1.0-1 [2660 kB] Get:52 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:53 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.22 [216 kB] Get:54 http://deb.debian.org/debian unstable/main amd64 debhelper all 14.2 [933 kB] Get:55 http://deb.debian.org/debian unstable/main amd64 dh-python all 7.20260623 [114 kB] Get:56 http://deb.debian.org/debian unstable/main amd64 dos2unix amd64 7.5.4-1 [509 kB] Get:57 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.22.1-3 [31.1 kB] Get:58 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.22.1-3 [79.0 kB] Get:59 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-6+b2 [9348 B] Get:60 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.22.1-3 [335 kB] Get:61 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.22.1-3 [137 kB] Get:62 http://deb.debian.org/debian unstable/main amd64 libgssrpc4t64 amd64 1.22.1-3 [58.3 kB] Get:63 http://deb.debian.org/debian unstable/main amd64 libkadm5clnt-mit12 amd64 1.22.1-3 [40.3 kB] Get:64 http://deb.debian.org/debian unstable/main amd64 libkdb5-10t64 amd64 1.22.1-3 [41.3 kB] Get:65 http://deb.debian.org/debian unstable/main amd64 libkadm5srv-mit12 amd64 1.22.1-3 [54.1 kB] Get:66 http://deb.debian.org/debian unstable/main amd64 krb5-multidev amd64 1.22.1-3 [125 kB] Get:67 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.2.0-3 [320 kB] Get:68 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.2.0-3 [324 kB] Get:69 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-6+b2 [33.6 kB] Get:70 http://deb.debian.org/debian unstable/main amd64 libcrypt-dev amd64 1:4.5.1-1+b1 [127 kB] Get:71 http://deb.debian.org/debian unstable/main amd64 libnghttp3-9 amd64 1.15.0-1 [67.2 kB] Get:72 http://deb.debian.org/debian unstable/main amd64 libngtcp2-16 amd64 1.22.1-1 [133 kB] Get:73 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.69.0-1 [89.0 kB] Get:74 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls8 amd64 1.22.1-1 [20.8 kB] Get:75 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.22.0-1 [60.7 kB] Get:76 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-4 [244 kB] Get:77 http://deb.debian.org/debian unstable/main amd64 libcurl4-gnutls amd64 8.21.0-1 [416 kB] Get:78 http://deb.debian.org/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.21.0-1 [16.9 kB] Get:79 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b2 [184 kB] Get:80 http://deb.debian.org/debian unstable/main amd64 libunbound8 amd64 1.25.1-1 [619 kB] Get:81 http://deb.debian.org/debian unstable/main amd64 libgnutls-dane0t64 amd64 3.8.13-1 [496 kB] Get:82 http://deb.debian.org/debian unstable/main amd64 libidn2-dev amd64 2.3.8-5 [102 kB] Get:83 http://deb.debian.org/debian unstable/main amd64 libp11-kit-dev amd64 0.26.2-3 [222 kB] Get:84 http://deb.debian.org/debian unstable/main amd64 libtasn1-6-dev amd64 4.21.0-2+b1 [98.6 kB] Get:85 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-5+b2 [328 kB] Get:86 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-5+b2 [641 kB] Get:87 http://deb.debian.org/debian unstable/main amd64 nettle-dev amd64 3.10.2-1+b1 [1321 kB] Get:88 http://deb.debian.org/debian unstable/main amd64 libgnutls28-dev amd64 3.8.13-1 [1479 kB] Get:89 http://deb.debian.org/debian unstable/main amd64 libkrb5-dev amd64 1.22.1-3 [14.0 kB] Get:90 http://deb.debian.org/debian unstable/main amd64 libldap-dev amd64 2.6.13+dfsg-1 [308 kB] Get:91 http://deb.debian.org/debian unstable/main amd64 libpkgconf7 amd64 2.5.1-4 [47.8 kB] Get:92 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 2.5.1-4 [35.9 kB] Get:93 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 2.5.1-4 [33.6 kB] Get:94 http://deb.debian.org/debian unstable/main amd64 libnghttp2-dev amd64 1.69.0-1 [128 kB] Get:95 http://deb.debian.org/debian unstable/main amd64 libnghttp3-dev amd64 1.15.0-1 [94.5 kB] Get:96 http://deb.debian.org/debian unstable/main amd64 libngtcp2-crypto-gnutls-dev amd64 1.22.1-1 [20.9 kB] Get:97 http://deb.debian.org/debian unstable/main amd64 libngtcp2-dev amd64 1.22.1-1 [192 kB] Get:98 http://deb.debian.org/debian unstable/main amd64 libunistring-dev amd64 1.4.2-1 [651 kB] Get:99 http://deb.debian.org/debian unstable/main amd64 libpsl-dev amd64 0.22.0-1 [29.8 kB] Get:100 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.6-1 [60.3 kB] Get:101 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.2-3 [918 kB] Get:102 http://deb.debian.org/debian unstable/main amd64 librtmp-dev amd64 2.6-1 [69.7 kB] Get:103 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.6.3-1 [3025 kB] Get:104 http://deb.debian.org/debian unstable/main amd64 libssh2-1-dev amd64 1.11.1-4 [393 kB] Get:105 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.7+dfsg-3+b2 [372 kB] Get:106 http://deb.debian.org/debian unstable/main amd64 libcurl4-gnutls-dev amd64 8.21.0-1 [546 kB] Get:107 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.25-1 [48.0 kB] Get:108 http://deb.debian.org/debian unstable/main amd64 libdeflate-dev amd64 1.25-1 [56.7 kB] Get:109 http://deb.debian.org/debian unstable/main amd64 libexpat1-dev amd64 2.8.2-1 [177 kB] Get:110 http://deb.debian.org/debian unstable/main amd64 libhtscodecs2 amd64 1.6.6-1 [101 kB] Get:111 http://deb.debian.org/debian unstable/main amd64 libhts3t64 amd64 1.22.1+ds2-1+b2 [475 kB] Get:112 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.8.3-1 [369 kB] Get:113 http://deb.debian.org/debian unstable/main amd64 libhts-dev amd64 1.22.1+ds2-1+b2 [1784 kB] Get:114 http://deb.debian.org/debian unstable/main amd64 libjs-sphinxdoc all 9.1.0-4 [45.7 kB] Get:115 http://deb.debian.org/debian unstable/main amd64 libncurses6 amd64 6.6+20251231-1+b1 [107 kB] Get:116 http://deb.debian.org/debian unstable/main amd64 libpython3.13 amd64 3.13.14-1 [2191 kB] Get:117 http://deb.debian.org/debian unstable/main amd64 libpython3.13-dev amd64 3.13.14-1 [5288 kB] Get:118 http://deb.debian.org/debian unstable/main amd64 libpython3-dev amd64 3.13.9-3+b1 [8588 B] Get:119 http://deb.debian.org/debian unstable/main amd64 libpython3.14-stdlib amd64 3.14.6-1 [2278 kB] Get:120 http://deb.debian.org/debian unstable/main amd64 libpython3.14 amd64 3.14.6-1 [2376 kB] Get:121 http://deb.debian.org/debian unstable/main amd64 libpython3.14-dev amd64 3.14.6-1 [5447 kB] Get:122 http://deb.debian.org/debian unstable/main amd64 libpython3-all-dev amd64 3.13.9-3+b1 [1080 B] Get:123 http://deb.debian.org/debian unstable/main amd64 rubygems-integration all 1.19 [5488 B] Get:124 http://deb.debian.org/debian unstable/main amd64 ruby3.3 amd64 3.3.8-2.2 [829 kB] Get:125 http://deb.debian.org/debian unstable/main amd64 ruby-rubygems all 3.6.7-2 [407 kB] Get:126 http://deb.debian.org/debian unstable/main amd64 ruby amd64 1:3.3+b1 [6560 B] Get:127 http://deb.debian.org/debian unstable/main amd64 rake all 13.4.2-1 [65.4 kB] Get:128 http://deb.debian.org/debian unstable/main amd64 ruby-csv all 3.3.5-1 [42.3 kB] Get:129 http://deb.debian.org/debian unstable/main amd64 ruby-did-you-mean all 2.0.0-1 [21.0 kB] Get:130 http://deb.debian.org/debian unstable/main amd64 ruby-net-telnet all 0.2.0-1 [13.1 kB] Get:131 http://deb.debian.org/debian unstable/main amd64 ruby-ruby2-keywords all 0.0.5-1 [4300 B] Get:132 http://deb.debian.org/debian unstable/main amd64 ruby-webrick all 1.9.2-1 [59.8 kB] Get:133 http://deb.debian.org/debian unstable/main amd64 ruby-xmlrpc all 0.3.3-2 [24.4 kB] Get:134 http://deb.debian.org/debian unstable/main amd64 libyaml-0-2 amd64 0.2.5-2+b1 [53.8 kB] Get:135 http://deb.debian.org/debian unstable/main amd64 libruby3.3 amd64 3.3.8-2.2 [6312 kB] Get:136 http://deb.debian.org/debian unstable/main amd64 libruby amd64 1:3.3+b1 [5440 B] Get:137 http://deb.debian.org/debian unstable/main amd64 python3.14 amd64 3.14.6-1 [846 kB] Get:138 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.13.9-3+b1 [1056 B] Get:139 http://deb.debian.org/debian unstable/main amd64 python3.13-dev amd64 3.13.14-1 [504 kB] Get:140 http://deb.debian.org/debian unstable/main amd64 python3-dev amd64 3.13.9-3+b1 [29.8 kB] Get:141 http://deb.debian.org/debian unstable/main amd64 python3.14-dev amd64 3.14.6-1 [507 kB] Get:142 http://deb.debian.org/debian unstable/main amd64 python3-all-dev amd64 3.13.9-3+b1 [1084 B] Get:143 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-4 [13.7 kB] Get:144 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get:145 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.15.0-2 [92.5 kB] Get:146 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.4-2 [37.2 kB] Get:147 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.5.0-1 [33.0 kB] Get:148 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.1-2 [8184 B] Get:149 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get:150 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get:151 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get:152 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.23.0-1 [11.0 kB] Get:153 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 78.1.1-0.1 [738 kB] Get:154 http://deb.debian.org/debian unstable/main amd64 samtools amd64 1.22.1-1 [697 kB] Get:155 http://deb.debian.org/debian unstable/main amd64 swig amd64 4.4.1-2 [1508 kB] Get:156 http://deb.debian.org/debian unstable/main amd64 time amd64 1.10-0.1 [58.4 kB] Get:157 http://deb.debian.org/debian unstable/main amd64 yaggo all 1.5.11-2 [21.4 kB] Preconfiguring packages ... Fetched 75.0 MB in 0s (165 MB/s) Selecting previously unselected package autoconf-archive. (Reading database ... 14520 files and directories currently installed.) Preparing to unpack .../autoconf-archive_20241016-3_all.deb ... Unpacking autoconf-archive (20241016-3) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.8.2-1_amd64.deb ... Unpacking libexpat1:amd64 (2.8.2-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../libpython3.13-minimal_3.13.14-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.14-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../python3.13-minimal_3.13.14-1_amd64.deb ... Unpacking python3.13-minimal (3.13.14-1) ... Setting up libpython3.13-minimal:amd64 (3.13.14-1) ... Setting up libexpat1:amd64 (2.8.2-1) ... Setting up python3.13-minimal (3.13.14-1) ... Selecting previously unselected package python3-minimal. 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Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../145-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libhtscodecs2:amd64 (1.6.6-1) ... Setting up libunistring-dev:amd64 (1.4.2-1) ... Setting up media-types (14.0.0) ... Setting up libpipeline1:amd64 (1.5.8-3) ... Setting up time (1.10-0.1) ... Setting up libkeyutils1:amd64 (1.6.3-6+b2) ... Setting up ruby-ruby2-keywords (0.0.5-1) ... Setting up swig (4.4.1-2) ... Setting up libzstd-dev:amd64 (1.5.7+dfsg-3+b2) ... 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 libyaml-0-2:amd64 (0.2.5-2+b1) ... Setting up architecture-properties:amd64 (0.2.6+b2) ... Setting up libxml2-16:amd64 (2.15.3+dfsg-1) ... Setting up libdebhelper-perl (14.2) ... Setting up libbrotli1:amd64 (1.2.0-3) ... Setting up libpython3.14-minimal:amd64 (3.14.6-1) ... Setting up libpkgconf7:amd64 (2.5.1-4) ... Setting up libmagic1t64:amd64 (1:5.47-4) ... Setting up libpsl5t64:amd64 (0.22.0-1) ... Setting up libnghttp2-14:amd64 (1.69.0-1) ... Setting up libdeflate0:amd64 (1.25-1) ... Setting up bc (1.07.1-4) ... Setting up gettext-base (1.0-1) ... Setting up m4 (1.4.21-1) ... Setting up libevent-2.1-7t64:amd64 (2.1.12-stable-10+b2) ... Setting up autoconf-archive (20241016-3) ... Setting up libcom-err2:amd64 (1.47.4-1) ... Setting up file (1:5.47-4) ... Setting up libelf1t64:amd64 (0.195-1) ... Setting up libkrb5support0:amd64 (1.22.1-3) ... Setting up tzdata (2026b-1) ... Current default time zone: 'Etc/UTC' Local time is now: Fri Jun 26 23:38:03 UTC 2026. Universal Time is now: Fri Jun 26 23:38:03 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1+nmu1) ... Setting up libunbound8:amd64 (1.25.1-1) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-5+b2) ... Setting up libexpat1-dev:amd64 (2.8.2-1) ... Setting up libgnutls-dane0t64:amd64 (3.8.13-1) ... Setting up librtmp1:amd64 (2.6-1) ... Setting up libldap-dev:amd64 (2.6.13+dfsg-1) ... Setting up libncurses6:amd64 (6.6+20251231-1+b1) ... Setting up ruby-net-telnet (0.2.0-1) ... Setting up ruby-csv (3.3.5-1) ... Setting up libproc2-0:amd64 (2:4.0.4-9+b2) ... Setting up comerr-dev:amd64 (2.1-1.47.4-1) ... Setting up libssl-dev:amd64 (3.6.3-1) ... Setting up autopoint (1.0-1) ... Setting up d-shlibs (0.109) ... 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 libjs-sphinxdoc (9.1.0-4) ... Setting up autoconf (2.73-2) ... Setting up libnghttp3-9:amd64 (1.15.0-1) ... Setting up libnghttp3-dev:amd64 (1.15.0-1) ... Setting up ruby-webrick (1.9.2-1) ... 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 libcrypt-dev:amd64 (1:4.5.1-1+b1) ... Setting up libuchardet0:amd64 (0.0.8-2+b2) ... Setting up procps (2:4.0.4-9+b2) ... Setting up netbase (6.5) ... Configuration file '/etc/protocols' ==> File on system created by you or by a script. ==> File also in package provided by package maintainer. ==> Using current old file as you requested. Configuration file '/etc/services' ==> File on system created by you or by a script. ==> File also in package provided by package maintainer. ==> Using current old file as you requested. Setting up libngtcp2-16:amd64 (1.22.1-1) ... Setting up libkrb5-3:amd64 (1.22.1-3) ... Setting up dos2unix (7.5.4-1) ... Setting up libssh2-1t64:amd64 (1.11.1-4) ... Setting up ruby-did-you-mean (2.0.0-1) ... Setting up libtasn1-6-dev:amd64 (4.21.0-2+b1) ... Setting up openssl (3.6.3-1) ... Setting up libdeflate-dev:amd64 (1.25-1) ... Setting up libpython3.13-stdlib:amd64 (3.13.14-1) ... Setting up ruby-xmlrpc (0.3.3-2) ... Setting up python3.14-minimal (3.14.6-1) ... Setting up libbrotli-dev:amd64 (1.2.0-3) ... Setting up chrpath (0.18-1) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.22.1-1) ... Setting up libp11-kit-dev:amd64 (0.26.2-3) ... Setting up libpython3-stdlib:amd64 (3.13.9-3+b1) ... Setting up libbz2-dev:amd64 (1.0.8-6+b2) ... Setting up libpython3.13:amd64 (3.13.14-1) ... Setting up automake (1:1.18.1-4) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.1-1) ... Setting up gettext (1.0-1) ... Setting up 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 python3.13 (3.13.14-1) ... Setting up libpython3.14-stdlib:amd64 (3.14.6-1) ... Setting up libperl-dev:amd64 (5.44.0~rc1-1) ... Setting up python3 (3.13.9-3+b1) ... Setting up libngtcp2-crypto-gnutls-dev:amd64 (1.22.1-1) ... Setting up libngtcp2-dev:amd64 (1.22.1-1) ... Setting up python3-zipp (3.23.0-1) ... Setting up python3-autocommand (2.2.2-4) ... 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 ca-certificates (20260601) ... Updating certificates in /etc/ssl/certs... 121 added, 0 removed; done. Setting up libpython3.13-dev:amd64 (3.13.14-1) ... Setting up libgssapi-krb5-2:amd64 (1.22.1-3) ... Setting up python3-typing-extensions (4.15.0-2) ... 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 libpython3.14:amd64 (3.14.6-1) ... Setting up libpython3.14-dev:amd64 (3.14.6-1) ... Setting up python3.14 (3.14.6-1) ... Setting up dh-python (7.20260623) ... Setting up libgnutls28-dev:amd64 (3.8.13-1) ... Setting up python3-more-itertools (10.8.0-1) ... Setting up libcurl4-gnutls:amd64 (8.21.0-1) ... Setting up libnghttp2-dev:amd64 (1.69.0-1) ... Setting up libpython3-dev:amd64 (3.13.9-3+b1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.1-2) ... Setting up python3.14-dev (3.14.6-1) ... Setting up python3.13-dev (3.13.14-1) ... Setting up po-debconf (1.0.22) ... Setting up python3-typeguard (4.4.4-2) ... Setting up libcurl3t64-gnutls:amd64 (8.21.0-1) ... Setting up python3-all (3.13.9-3+b1) ... Setting up rubygems-integration (1.19) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up python3-inflect (7.5.0-1) ... Setting up libpython3-all-dev:amd64 (3.13.9-3+b1) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up libgssrpc4t64:amd64 (1.22.1-3) ... Setting up python3-dev (3.13.9-3+b1) ... Setting up librtmp-dev:amd64 (2.6-1) ... Setting up libhts3t64:amd64 (1.22.1+ds2-1+b2) ... Setting up libkadm5clnt-mit12:amd64 (1.22.1-3) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-all-dev (3.13.9-3+b1) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up libkdb5-10t64:amd64 (1.22.1-3) ... Setting up debhelper (14.2) ... Setting up samtools (1.22.1-1) ... 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 (8.21.0-1) ... Setting up libhts-dev:amd64 (1.22.1+ds2-1+b2) ... Setting up libruby3.3:amd64 (3.3.8-2.2) ... Setting up ruby-rubygems (3.6.7-2) ... Setting up ruby3.3 (3.3.8-2.2) ... Setting up libruby:amd64 (1:3.3+b1) ... Setting up ruby (1:3.3+b1) ... Setting up rake (13.4.2-1) ... Setting up yaggo (1.5.11-2) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.42-17) ... Processing triggers for ca-certificates (20260601) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. +------------------------------------------------------------------------------+ | Check architectures Fri, 26 Jun 2026 23:38:12 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment Fri, 26 Jun 2026 23:38:12 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 7.0.10+deb14-amd64 #1 SMP PREEMPT_DYNAMIC Debian 7.0.10-1 (2026-05-27) amd64 (x86_64) Toolchain package versions: binutils_2.46.50.20260617-1 dpkg-dev_1.23.7 g++-15_15.3.0-1 gcc-15_15.3.0-1 libc6-dev_2.42-17 libstdc++-15-dev_15.3.0-1 libstdc++6_16.1.0-2 linux-libc-dev_7.0.13-1 Package versions: apt_3.3.1 architecture-properties_0.2.6+b2 autoconf_2.73-2 autoconf-archive_20241016-3 automake_1:1.18.1-4 autopoint_1.0-1 autotools-dev_20240727.1+nmu1 base-files_14.2 base-passwd_3.6.8 bash_5.3-3 bc_1.07.1-4 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 ca-certificates_20260601 chrpath_0.18-1 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 d-shlibs_0.109 dash_0.5.12-12 debconf_1.5.92 debhelper_14.2 debian-archive-keyring_2025.1 debianutils_5.23.2 dh-autoreconf_22 dh-python_7.20260623 dh-strip-nondeterminism_1.15.1-1 diffutils_1:3.12-1 dirmngr_2.4.9-5 dos2unix_7.5.4-1 dpkg_1.23.7 dpkg-dev_1.23.7 dwz_0.16-4 eatmydata_131-2 file_1:5.47-4 findutils_4.10.0-4 g++_4:15.2.0-5+b1 g++-15_15.3.0-1 g++-15-x86-64-linux-gnu_15.3.0-1 g++-x86-64-linux-gnu_4:15.2.0-5+b1 gcc_4:15.2.0-5+b1 gcc-15_15.3.0-1 gcc-15-base_15.3.0-1 gcc-15-x86-64-linux-gnu_15.3.0-1 gcc-16-base_16.1.0-2 gcc-x86-64-linux-gnu_4:15.2.0-5+b1 gettext_1.0-1 gettext-base_1.0-1 gnupg_2.4.9-5 gnupg-l10n_2.4.9-5 gpg_2.4.9-5 gpg-agent_2.4.9-5 gpgconf_2.4.9-5 gpgsm_2.4.9-5 grep_3.12-1 groff-base_1.24.1-1 gzip_1.13-1 hostname_3.25 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 krb5-multidev_1.22.1-3 libacl1_2.3.2-3 libapt-pkg7.0_3.3.1 libarchive-zip-perl_1.68-1 libasan8_16.1.0-2 libassuan9_3.0.2-2+b2 libatomic1_16.1.0-2 libattr1_1:2.5.2-4 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1+b1 libbinutils_2.46.50.20260617-1 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 libcc1-0_16.1.0-2 libcom-err2_1.47.4-1 libcrypt-dev_1:4.5.1-1+b1 libcrypt1_1:4.5.1-1+b1 libctf-nobfd0_2.46.50.20260617-1 libctf0_2.46.50.20260617-1 libcurl3t64-gnutls_8.21.0-1 libcurl4-gnutls_8.21.0-1 libcurl4-gnutls-dev_8.21.0-1 libdb5.3t64_5.3.28+dfsg2-11+b1 libdebconfclient0_0.283 libdebhelper-perl_14.2 libdeflate-dev_1.25-1 libdeflate0_1.25-1 libdpkg-perl_1.23.7 libeatmydata1_131-2+b2 libelf1t64_0.195-1 libevent-2.1-7t64_2.1.12-stable-10+b2 libexpat1_2.8.2-1 libexpat1-dev_2.8.2-1 libffi8_3.5.2-4 libfile-stripnondeterminism-perl_1.15.1-1 libgcc-15-dev_15.3.0-1 libgcc-s1_16.1.0-2 libgcrypt20_1.12.2-1 libgdbm-compat4t64_1.26-1+b2 libgdbm6t64_1.26-1+b2 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 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 libisl23_0.27-2 libitm1_16.1.0-2 libjansson4_2.15.0-1 libjs-sphinxdoc_9.1.0-4 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 libldap2_2.6.13+dfsg-1 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 libncurses6_6.6+20251231-1+b1 libncursesw6_6.6+20251231-1+b1 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_1.7.0-6 libpam-modules-bin_1.7.0-6 libpam-runtime_1.7.0-6 libpam0g_1.7.0-6 libpcre2-8-0_10.46-1+b2 libperl-dev_5.44.0~rc1-1 libperl5.40_5.40.1-8 libperl5.44_5.44.0~rc1-1 libpipeline1_1.5.8-3 libpkgconf7_2.5.1-4 libproc2-0_2:4.0.4-9+b2 libpsl-dev_0.22.0-1 libpsl5t64_0.22.0-1 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libuuid1_2.42.2-1 libxml2-16_2.15.3+dfsg-1 libxxhash0_0.8.3-2+b2 libyaml-0-2_0.2.5-2+b1 libzstd-dev_1.5.7+dfsg-3+b2 libzstd1_1.5.7+dfsg-3+b2 linux-libc-dev_7.0.13-1 m4_1.4.21-1 make_4.4.1-3 man-db_2.13.1-1 mawk_1.3.4.20260302-1 media-types_14.0.0 ncurses-base_6.6+20251231-1 ncurses-bin_6.6+20251231-1+b1 netbase_6.5 nettle-dev_3.10.2-1+b1 openssl_3.6.3-1 openssl-provider-legacy_3.6.3-1 patch_2.8-2 perl_5.44.0~rc1-1 perl-base_5.44.0~rc1-1 perl-modules-5.40_5.40.1-8 perl-modules-5.44_5.44.0~rc1-1 pinentry-curses_1.3.2-4 pkgconf_2.5.1-4 pkgconf-bin_2.5.1-4 po-debconf_1.0.22 procps_2:4.0.4-9+b2 python3_3.13.9-3+b1 python3-all_3.13.9-3+b1 python3-all-dev_3.13.9-3+b1 python3-autocommand_2.2.2-4 python3-dev_3.13.9-3+b1 python3-inflect_7.5.0-1 python3-jaraco.context_6.0.1-2 python3-jaraco.functools_4.1.0-1 python3-jaraco.text_4.0.0-1 python3-minimal_3.13.9-3+b1 python3-more-itertools_10.8.0-1 python3-pkg-resources_78.1.1-0.1 python3-setuptools_78.1.1-0.1 python3-typeguard_4.4.4-2 python3-typing-extensions_4.15.0-2 python3-zipp_3.23.0-1 python3.13_3.13.14-1 python3.13-dev_3.13.14-1 python3.13-minimal_3.13.14-1 python3.14_3.14.6-1 python3.14-dev_3.14.6-1 python3.14-minimal_3.14.6-1 rake_13.4.2-1 readline-common_8.3-4 rpcsvc-proto_1.4.4-1 ruby_1:3.3+b1 ruby-csv_3.3.5-1 ruby-did-you-mean_2.0.0-1 ruby-net-telnet_0.2.0-1 ruby-ruby2-keywords_0.0.5-1 ruby-rubygems_3.6.7-2 ruby-webrick_1.9.2-1 ruby-xmlrpc_0.3.3-2 ruby3.3_3.3.8-2.2 rubygems-integration_1.19 samtools_1.22.1-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-3 sensible-utils_0.0.26 sqv_1.3.0-5+b2 swig_4.4.1-2 sysvinit-utils_3.18-1 tar_1.35+dfsg-4 time_1.10-0.1 tzdata_2026b-1 util-linux_2.42.2-1 xz-utils_5.8.3-1 yaggo_1.5.11-2 zlib1g_1:1.3.dfsg+really1.3.2-3 zlib1g-dev_1:1.3.dfsg+really1.3.2-3 +------------------------------------------------------------------------------+ | Build Fri, 26 Jun 2026 23:38:12 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: jellyfish Binary: jellyfish, libjellyfish-2.0-2, libjellyfish-2.0-dev, python3-dna-jellyfish, libjellyfish-perl, jellyfish-examples Architecture: any all Version: 2.3.1-6 Maintainer: Debian Med Packaging Team Uploaders: Shaun Jackman , Andreas Tille , Michael R. Crusoe , Étienne Mollier Homepage: https://www.genome.umd.edu/jellyfish.html Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/med-team/jellyfish Vcs-Git: https://salsa.debian.org/med-team/jellyfish.git Testsuite: autopkgtest Testsuite-Triggers: @builddeps@ Build-Depends: debhelper-compat (= 13), architecture-is-little-endian, architecture-is-64-bit, d-shlibs, autoconf-archive, yaggo, pkgconf, bc, time, procps, swig, python3-all-dev:native, libpython3-all-dev, dh-sequence-python3, python3-setuptools, perl-xs-dev, perl:native, chrpath, libhts-dev, dos2unix, samtools Package-List: jellyfish deb science optional arch=any jellyfish-examples deb science optional arch=all libjellyfish-2.0-2 deb libs optional arch=any libjellyfish-2.0-dev deb libdevel optional arch=any libjellyfish-perl deb perl optional arch=any python3-dna-jellyfish deb python optional arch=any Checksums-Sha1: 9aaf5f07cecf638544d27ca3de7cb7057184c92c 681990 jellyfish_2.3.1.orig.tar.gz f9f0554c337d61a96abeef3dcb4ed3e62c299c87 13600 jellyfish_2.3.1-6.debian.tar.xz Checksums-Sha256: 540d09457fb4e14b98c7f1428cf885c333e2d6ef4f6a3735aa06be13eb523d69 681990 jellyfish_2.3.1.orig.tar.gz 1d42fd4fcb0a81634e1e7de6bedee282ecc2f772583c0ac9793d0ec98aacb221 13600 jellyfish_2.3.1-6.debian.tar.xz Files: 27fb29ad3edfe25d776cfbf98dcc8c0e 681990 jellyfish_2.3.1.orig.tar.gz 60e49df49d7175420b31ea2c407468bd 13600 jellyfish_2.3.1-6.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEI3pUsQKHKL8A7zH00Ot2KGX8XjYFAmnnvm4UHHNlcmdpb2Rq QGRlYmlhbi5vcmcACgkQ0Ot2KGX8XjZvww/9EVyaYP324GnYRSezasbkjMVeVXvl 7eK1TRr1tX+f60FExDCfGs3pnpIqSby9z3pUd68VJGkPNac+7bxjQMcQs1pc29QU kpufKHsDrCfgjPGNoivMckIfthigZTo0UFJxpS3YO+JfY/ZM0ziBWDsfLNUiPx5n ZT5luF+kHN4vguqUDk1N+qt6aJYySPGCNKTXWMicmegMqNcjUzFuOFIRNPfpPMiY kK0nZorkYDnYGJGms6ofncb4g/08oEV2JkIhId1LX5ZhDq5J4vDEJlJMiOW+J/+R 6inwagQCQYEOenEDNyCA8uH55AoAWfm/r4Iz/MAPELNDthHjUNxPAPho4qgzGL5g elJMOOiTK4nRXUQAyWlg1G8DUCZ2RwzyxIg+6ZvhKuLmBi/Gh5E5XV9t8IKLxM/H DN9bTvqPruMGwid3sU8LsbTWj99GQYYmu2RJxSJDwiXCAWUBrXOXVQcidOSyD+UE ZiiTr462epwRB8oO83gJwIRaBK0ARQzUy8slawxMlPlLaw2LHpP7x2tgv18v9I6j 6s/PGQHnJIhnh/41yxKmiqdgUi3yF+7NkDXb/kaTj8n/ZpLd205b3hCFxf/L7vyA Ebetsk9z1rEzlhIu0m0GUh/MfBr2xfTBTI6G4Mo7A41tn+frACCqifGvNZI7r9Zh L0N0goYyg8pErZI= =qZJn -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./jellyfish_2.3.1-6.dsc: missing OpenPGP keyrings dpkg-source: info: verifying ./jellyfish_2.3.1-6.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 jellyfish in /build/jellyfish-yWEPpL/jellyfish-2.3.1 dpkg-source: info: unpacking jellyfish_2.3.1.orig.tar.gz dpkg-source: info: unpacking jellyfish_2.3.1-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying drop_distutils dpkg-source: info: applying manpage_whatis_entry.patch dpkg-source: info: applying portability.patch dpkg-source: info: applying test_needs_bash dpkg-source: info: applying python3 clean up apt cache ------------------ Check disk space ---------------- Sufficient free space for build Hack binNMU version ------------------- Created changelog entry for binNMU version 2.3.1-6+b1 +------------------------------------------------------------------------------+ | Starting Time Build Commands Fri, 26 Jun 2026 23:38:13 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network jellyfish_2.3.1-6 perl-5.44 amd64 -------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network jellyfish_2.3.1-6 perl-5.44 amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANGUAGE=en_GB:en LC_ALL=C.UTF-8 LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so LOGNAME=debomatic PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/build/jellyfish-yWEPpL/jellyfish-2.3.1 SCHROOT_ALIAS_NAME=perl-5.44-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.44-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.44-amd64-debomatic-87896af9-28d5-46de-9d5a-4c8802476282 SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -mDebian Perl autobuilder -B -Zxz dpkg-buildpackage: info: source package jellyfish dpkg-buildpackage: info: source version 2.3.1-6+b1 dpkg-buildpackage: info: source distribution perl-5.44 dpkg-source -Zxz --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules execute_after_dh_clean make[1]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' if [ -d debian/tmp_save_tests ] ; then \ mv debian/tmp_save_tests/* tests ; \ rmdir debian/tmp_save_tests ; \ fi make[1]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' debian/rules binary-arch dh binary-arch debian/rules override_dh_update_autotools_config make[1]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' # use python configuration from autoconf-archive mv m4/m4-ax_python_devel.m4 /tmp dh_update_autotools_config make[1]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' dh_autoreconf -a autoreconf: export WARNINGS= autoreconf: Entering directory '.' autoreconf: running: autopoint --force Copying file ABOUT-NLS Copying file config.rpath Copying file m4/build-to-host.m4 Copying file m4/gettext.m4 Copying file m4/host-cpu-c-abi.m4 Copying file m4/iconv.m4 Copying file m4/intlmacosx.m4 Copying file m4/lib-ld.m4 Copying file m4/lib-link.m4 Copying file m4/lib-prefix.m4 Copying file m4/nls.m4 Copying file m4/po.m4 Copying file m4/progtest.m4 Creating directory po Copying file po/Makefile.in.in Copying file po/Makevars.template Copying file po/Rules-quot Copying file po/boldquot.sed Copying file po/en@boldquot.header Copying file po/en@quot.header Copying file po/insert-header.sed Copying file po/quot.sed Copying file po/remove-potcdate.sed autoreconf: running: aclocal --force -I m4 autoreconf: configure.ac: tracing autoreconf: running: libtoolize --copy --force libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' autoreconf: configure.ac: not using Intltool autoreconf: configure.ac: not using Gtkdoc autoreconf: configure.ac: not running autopoint a second time autoreconf: running: aclocal --force -I m4 autoreconf: running: /usr/bin/autoconf --force autoreconf: running: /usr/bin/autoheader --force autoreconf: running: automake --add-missing --copy --force-missing configure.ac:8: installing './compile' configure.ac:2: installing './config.guess' configure.ac:2: installing './config.sub' configure.ac:4: installing './install-sh' configure.ac:4: installing './missing' Makefile.am: installing './depcomp' parallel-tests: installing './test-driver' autoreconf: configure.ac: not running make: --make not given autoreconf: Leaving directory '.' debian/rules override_dh_auto_configure make[1]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' dh_auto_configure -- --enable-swig --enable-perl-binding --enable-htslib --enable-python-binding PYTHON=/usr/bin/python3 ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/x86_64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-swig --enable-perl-binding --enable-htslib --enable-python-binding PYTHON=/usr/bin/python3 checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking for a BSD-compatible install... /usr/bin/install -c checking whether sleep supports fractional seconds... yes checking filesystem timestamp resolution... 0.01 checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking xargs -n works... yes checking whether UID '1002' is supported by ustar format... yes checking whether GID '110' is supported by ustar format... yes checking how to create a ustar tar archive... gnutar checking how to print strings... printf checking whether make supports the include directive... yes (GNU style) checking for gcc... x86_64-linux-gnu-gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether x86_64-linux-gnu-gcc accepts -g... yes checking for x86_64-linux-gnu-gcc option to enable C23 features... none needed checking whether x86_64-linux-gnu-gcc understands -c and -o together... yes checking dependency style of x86_64-linux-gnu-gcc... none checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for fgrep... /usr/bin/grep -F checking for ld used by x86_64-linux-gnu-gcc... /usr/bin/x86_64-linux-gnu-ld checking if the linker (/usr/bin/x86_64-linux-gnu-ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/x86_64-linux-gnu-ld option to reload object files... -r checking for file... file checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ranlib... ranlib checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking command to parse /usr/bin/nm -B output from x86_64-linux-gnu-gcc object... ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if x86_64-linux-gnu-gcc supports -fno-rtti -fno-exceptions... no checking for x86_64-linux-gnu-gcc option to produce PIC... -fPIC -DPIC checking if x86_64-linux-gnu-gcc PIC flag -fPIC -DPIC works... yes checking if x86_64-linux-gnu-gcc static flag -static works... yes checking if x86_64-linux-gnu-gcc supports -c -o file.o... yes checking if x86_64-linux-gnu-gcc supports -c -o file.o... (cached) yes checking whether the x86_64-linux-gnu-gcc linker (/usr/bin/x86_64-linux-gnu-ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for ld... /usr/bin/x86_64-linux-gnu-ld -m elf_x86_64 checking if the linker (/usr/bin/x86_64-linux-gnu-ld -m elf_x86_64) is GNU ld... yes checking for shared library run path origin... done checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking whether the compiler supports GNU C++... yes checking whether x86_64-linux-gnu-g++ accepts -g... yes checking dependency style of x86_64-linux-gnu-g++... none checking how to run the C++ preprocessor... x86_64-linux-gnu-g++ -E checking for ld used by x86_64-linux-gnu-g++... /usr/bin/x86_64-linux-gnu-ld -m elf_x86_64 checking if the linker (/usr/bin/x86_64-linux-gnu-ld -m elf_x86_64) is GNU ld... yes checking whether the x86_64-linux-gnu-g++ linker (/usr/bin/x86_64-linux-gnu-ld -m elf_x86_64) supports shared libraries... yes checking for x86_64-linux-gnu-g++ option to produce PIC... -fPIC -DPIC checking if x86_64-linux-gnu-g++ PIC flag -fPIC -DPIC works... yes checking if x86_64-linux-gnu-g++ static flag -static works... yes checking if x86_64-linux-gnu-g++ supports -c -o file.o... yes checking if x86_64-linux-gnu-g++ supports -c -o file.o... (cached) yes checking whether the x86_64-linux-gnu-g++ linker (/usr/bin/x86_64-linux-gnu-ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking 32-bit host C ABI... no checking for egrep -e... (cached) /usr/bin/grep -E checking for ELF binary format... yes checking for the common suffixes of directories in the library search path... lib,lib,lib64 checking for htslib... yes checking for samtools... /usr/bin/samtools checking for unix2dos... /usr/bin/unix2dos checking for md5sum... md5sum checking for yaggo... /usr/bin/yaggo checking for x86 cpuid output... unknown checking for x86-AVX xgetbv output... unknown checking for x86 cpuid 0x00000000 output... 12:756e6547:6c65746e:49656e69 checking for x86 cpuid 0x80000000 output... 80000008:756e6547:6c65746e:49656e69 checking for x86 cpuid 0x00000001 output... 506e3:1000800:fffa3223:f8bfbff checking for x86 cpuid 0x00000007 output... 0:9c07af:4:ac000400 checking for x86 cpuid 0x80000001 output... 506e3:0:121:2c100800 checking for x86-AVX xgetbv 0x00000000 output... 7:0 checking whether RDRND is supported by the processor... yes checking whether RDRND is supported by the processor and OS... yes checking whether C++ compiler accepts -mrdrnd... yes checking whether BMI1 is supported by the processor... yes checking whether BMI1 is supported by the processor and OS... yes checking whether C++ compiler accepts -mbmi... yes checking whether BMI2 is supported by the processor... yes checking whether BMI2 is supported by the processor and OS... yes checking whether C++ compiler accepts -mbmi2... yes checking whether ADX is supported by the processor... yes checking whether ADX is supported by the processor and OS... yes checking whether C++ compiler accepts -madx... yes checking whether MPX is supported by the processor... no checking whether PREFETCHWT1 is supported by the processor... no checking whether ABM is supported by the processor... yes checking whether ABM is supported by the processor and OS... yes checking whether C++ compiler accepts -mabm... yes checking whether MMX is supported by the processor... yes checking whether MMX is supported by the processor and OS... yes checking whether C++ compiler accepts -mmmx... yes checking whether SSE is supported by the processor... yes checking whether SSE is supported by the processor and OS... yes checking whether C++ compiler accepts -msse... yes checking whether SSE2 is supported by the processor... yes checking whether SSE2 is supported by the processor and OS... yes checking whether C++ compiler accepts -msse2... yes checking whether SSE3 is supported by the processor... yes checking whether SSE3 is supported by the processor and OS... yes checking whether C++ compiler accepts -msse3... yes checking whether SSSE3 is supported by the processor... yes checking whether SSSE3 is supported by the processor and OS... yes checking whether C++ compiler accepts -mssse3... yes checking whether SSE4.1 is supported by the processor... yes checking whether SSE4.1 is supported by the processor and OS... yes checking whether C++ compiler accepts -msse4.1... yes checking whether SSE4.2 is supported by the processor... yes checking whether SSE4.2 is supported by the processor and OS... yes checking whether C++ compiler accepts -msse4.2... yes checking whether SSE4a is supported by the processor... no checking whether SHA is supported by the processor... no checking whether AES is supported by the processor... yes checking whether AES is supported by the processor and OS... yes checking whether C++ compiler accepts -maes... yes checking whether AVX is supported by the processor... yes checking whether AVX is supported by the processor and OS... yes checking whether C++ compiler accepts -mavx... yes checking whether FMA3 is supported by the processor... yes checking whether FMA3 is supported by the processor and OS... yes checking whether C++ compiler accepts -mfma... yes checking whether FMA4 is supported by the processor... no checking whether XOP is supported by the processor... no checking whether AVX2 is supported by the processor... yes checking whether AVX2 is supported by the processor and OS... yes checking whether C++ compiler accepts -mavx2... yes checking whether AVX512-F is supported by the processor... no checking whether AVX512-CD is supported by the processor... no checking whether AVX512-PF is supported by the processor... no checking whether AVX512-ER is supported by the processor... no checking whether AVX512-VL is supported by the processor... no checking whether AVX512-BW is supported by the processor... no checking whether AVX512-DQ is supported by the processor... no checking whether AVX512-IFMA is supported by the processor... no checking whether AVX512-VBMI is supported by the processor... no checking for __int128... yes checking for std::numeric_limits<__int128>... yes checking for _NSGetExecutablePath... no checking for execinfo.h... yes checking for ext/stdio_filebuf.h... yes checking for sys/syscall.h... yes checking for sys/prctl.h... yes checking for siginfo_t.si_int... yes checking for swig... /usr/bin/swig checking SWIG version... 4.4.1 checking for SWIG library... /usr/share/swig/4.4.1 checking for python... /usr/bin/python3 checking for a version of Python >= '2.1.0'... yes checking for the sysconfig Python package... yes checking for Python include path... -I/usr/include/python3.13 checking for Python library path... -L/usr/lib/x86_64-linux-gnu -lpython3.13 checking for Python site-packages path... /usr/lib/python3.13/site-packages checking for Python platform specific site-packages path... /usr/lib/python3.13/site-packages checking python extra libraries... -ldl -lm checking python extra linking flags... -Xlinker -export-dynamic -Wl,-O1 -Wl,-Bsymbolic-functions checking consistency of all components of python development environment... yes checking for perl... /usr/bin/perl checking for Perl prefix... /usr checking for Perl extension include path... /usr/lib/x86_64-linux-gnu/perl/5.44/CORE checking for Perl extension target directory... /usr/lib/perl/5.44.0 checking for Perl extensions C preprocessor flags... -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include checking for Perl extensions linker flags... -shared -L/usr/local/lib -fstack-protector-strong checking for posix_memalign... yes checking for aligned_alloc... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating compat.sh config.status: creating jellyfish-2.0.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands dh_auto_configure --sourcedirectory=swig/perl5 cd swig/perl5 && /usr/bin/perl Makefile.PL INSTALLDIRS=vendor OPTIMIZE="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -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/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro -Wl,-z,now -lpthread" -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1 -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -lpthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu Warning (mostly harmless): No library found for -ljellyfish-2.0 Generating a Unix-style Makefile Writing Makefile for jellyfish Writing MYMETA.yml and MYMETA.json dh_auto_configure --sourcedirectory=swig/python --buildsystem=pybuild I: pybuild base:385: python3.14 setup.py config running config I: pybuild base:385: python3.13 setup.py config running config mv /tmp/m4-ax_python_devel.m4 m4 make[1]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' debian/rules override_dh_auto_build make[1]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' mkdir -p debian/tmp_save_tests cp -a tests/* debian/tmp_save_tests dh_auto_build --no-parallel -- all bin/generate_sequence bin/test_all bin/fastq2sam make -j1 all bin/generate_sequence bin/test_all bin/fastq2sam make[2]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' /usr/bin/yaggo --license ./header-license -o sub_commands/count_main_cmdline.hpp sub_commands/count_main_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o sub_commands/info_main_cmdline.hpp sub_commands/info_main_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o sub_commands/dump_main_cmdline.hpp sub_commands/dump_main_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o sub_commands/histo_main_cmdline.hpp sub_commands/histo_main_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o sub_commands/stats_main_cmdline.hpp sub_commands/stats_main_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o sub_commands/merge_main_cmdline.hpp sub_commands/merge_main_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o sub_commands/bc_main_cmdline.hpp sub_commands/bc_main_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o sub_commands/query_main_cmdline.hpp sub_commands/query_main_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o sub_commands/cite_main_cmdline.hpp sub_commands/cite_main_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o sub_commands/mem_main_cmdline.hpp sub_commands/mem_main_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o jellyfish/generate_sequence_cmdline.hpp jellyfish/generate_sequence_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o jellyfish/fastq2sam_cmdline.hpp jellyfish/fastq2sam_cmdline.yaggo /usr/bin/yaggo --license ./header-license -o unit_tests/test_main_cmdline.hpp unit_tests/test_main_cmdline.yaggo /usr/bin/swig -c++ -python -I./../include -o swig/python/swig_wrap.cpp swig/jellyfish.i /usr/bin/swig -c++ -perl5 -I./../include -o swig/perl5/swig_wrap.cpp swig/jellyfish.i make all-am make[3]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o sub_commands/jellyfish.o sub_commands/jellyfish.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o 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(cd "swig/python/.libs" && rm -f "_dna_jellyfish.so.0" && ln -s "_dna_jellyfish.so.0.0.0" "_dna_jellyfish.so.0") libtool: link: (cd "swig/python/.libs" && rm -f "_dna_jellyfish.so" && ln -s "_dna_jellyfish.so.0.0.0" "_dna_jellyfish.so") libtool: link: ar cr swig/python/.libs/_dna_jellyfish.a swig/python/swig_python__dna_jellyfish_la-swig_wrap.o libtool: link: ranlib swig/python/.libs/_dna_jellyfish.a libtool: link: ( cd "swig/python/.libs" && rm -f "_dna_jellyfish.la" && ln -s "../_dna_jellyfish.la" "_dna_jellyfish.la" ) /usr/bin/python3 -c 'import py_compile, sys; py_compile.compile(sys.argv[1], sys.argv[2])' swig/python/dna_jellyfish.py swig/python/__init__.pyc make[3]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o jellyfish/generate_sequence.o jellyfish/generate_sequence.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o jellyfish/mersenne.o jellyfish/mersenne.cpp x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o jellyfish/backtrace.o jellyfish/backtrace.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o jellyfish/dbg.o jellyfish/dbg.cc /bin/bash ./libtool --tag=CXX --mode=link x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -pthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -lhts -R/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -Wl,-z,relro -Wl,-z,now -lpthread -o bin/generate_sequence jellyfish/generate_sequence.o jellyfish/mersenne.o jellyfish/backtrace.o jellyfish/dbg.o libjellyfish-2.0.la libtool: link: x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -Wl,-z -Wl,relro -Wl,-z -Wl,now -o bin/.libs/generate_sequence jellyfish/generate_sequence.o jellyfish/mersenne.o jellyfish/backtrace.o jellyfish/dbg.o -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -lhts -lpthread ./.libs/libjellyfish-2.0.so -pthread -Wl,-rpath -Wl,/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_main.o `test -f 'unit_tests/test_main.cc' || echo './'`unit_tests/test_main.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_misc.o `test -f 'unit_tests/test_misc.cc' || echo './'`unit_tests/test_misc.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_offsets_key_value.o `test -f 'unit_tests/test_offsets_key_value.cc' || echo './'`unit_tests/test_offsets_key_value.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_simple_circular_buffer.o `test -f 'unit_tests/test_simple_circular_buffer.cc' || echo './'`unit_tests/test_simple_circular_buffer.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_rectangular_binary_matrix.o `test -f 'unit_tests/test_rectangular_binary_matrix.cc' || echo './'`unit_tests/test_rectangular_binary_matrix.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_mer_dna.o `test -f 'unit_tests/test_mer_dna.cc' || echo './'`unit_tests/test_mer_dna.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_large_hash_array.o `test -f 'unit_tests/test_large_hash_array.cc' || echo './'`unit_tests/test_large_hash_array.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_mer_overlap_sequence_parser.o `test -f 'unit_tests/test_mer_overlap_sequence_parser.cc' || echo './'`unit_tests/test_mer_overlap_sequence_parser.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_file_header.o `test -f 'unit_tests/test_file_header.cc' || echo './'`unit_tests/test_file_header.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_mer_iterator.o `test -f 'unit_tests/test_mer_iterator.cc' || echo './'`unit_tests/test_mer_iterator.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_hash_counter.o `test -f 'unit_tests/test_hash_counter.cc' || echo './'`unit_tests/test_hash_counter.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_mer_heap.o `test -f 'unit_tests/test_mer_heap.cc' || echo './'`unit_tests/test_mer_heap.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_stream_iterator.o `test -f 'unit_tests/test_stream_iterator.cc' || echo './'`unit_tests/test_stream_iterator.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_token_ring.o `test -f 'unit_tests/test_token_ring.cc' || echo './'`unit_tests/test_token_ring.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_text_dumper.o `test -f 'unit_tests/test_text_dumper.cc' || echo './'`unit_tests/test_text_dumper.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_dumpers.o `test -f 'unit_tests/test_dumpers.cc' || echo './'`unit_tests/test_dumpers.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_mapped_file.o `test -f 'unit_tests/test_mapped_file.cc' || echo './'`unit_tests/test_mapped_file.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_int128.o `test -f 'unit_tests/test_int128.cc' || echo './'`unit_tests/test_int128.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_mer_dna_bloom_counter.o `test -f 'unit_tests/test_mer_dna_bloom_counter.cc' || echo './'`unit_tests/test_mer_dna_bloom_counter.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_whole_sequence_parser.o `test -f 'unit_tests/test_whole_sequence_parser.cc' || echo './'`unit_tests/test_whole_sequence_parser.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_allocators_mmap.o `test -f 'unit_tests/test_allocators_mmap.cc' || echo './'`unit_tests/test_allocators_mmap.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_cooperative_pool2.o `test -f 'unit_tests/test_cooperative_pool2.cc' || echo './'`unit_tests/test_cooperative_pool2.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_generator_manager.o `test -f 'unit_tests/test_generator_manager.cc' || echo './'`unit_tests/test_generator_manager.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_atomic_bits_array.o `test -f 'unit_tests/test_atomic_bits_array.cc' || echo './'`unit_tests/test_atomic_bits_array.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/bin_test_all-test_stdio_filebuf.o `test -f 'unit_tests/test_stdio_filebuf.cc' || echo './'`unit_tests/test_stdio_filebuf.cc x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -DJSON_IS_AMALGAMATION=1 -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o jellyfish/bin_test_all-backtrace.o `test -f 'jellyfish/backtrace.cc' || echo './'`jellyfish/backtrace.cc /bin/bash ./libtool --tag=CXX --mode=compile x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -I./unit_tests/gtest -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/gtest/src/libgtest_la-gtest-all.lo `test -f 'unit_tests/gtest/src/gtest-all.cc' || echo './'`unit_tests/gtest/src/gtest-all.cc libtool: compile: x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -I./unit_tests/gtest -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection 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-pthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -lhts -R/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -Wl,-z,relro -Wl,-z,now -lpthread -o libgtest.la unit_tests/gtest/src/libgtest_la-gtest-all.lo libtool: link: ar cr .libs/libgtest.a unit_tests/gtest/src/.libs/libgtest_la-gtest-all.o libtool: link: ranlib .libs/libgtest.a libtool: link: ( cd ".libs" && rm -f "libgtest.la" && ln -s "../libgtest.la" "libgtest.la" ) /bin/bash ./libtool --tag=CXX --mode=link x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -pthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -lhts -R/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -Wl,-z,relro -Wl,-z,now -lpthread -o bin/test_all unit_tests/bin_test_all-test_main.o unit_tests/bin_test_all-test_misc.o unit_tests/bin_test_all-test_offsets_key_value.o unit_tests/bin_test_all-test_simple_circular_buffer.o unit_tests/bin_test_all-test_rectangular_binary_matrix.o unit_tests/bin_test_all-test_mer_dna.o unit_tests/bin_test_all-test_large_hash_array.o unit_tests/bin_test_all-test_mer_overlap_sequence_parser.o unit_tests/bin_test_all-test_file_header.o unit_tests/bin_test_all-test_mer_iterator.o unit_tests/bin_test_all-test_hash_counter.o unit_tests/bin_test_all-test_mer_heap.o unit_tests/bin_test_all-test_stream_iterator.o unit_tests/bin_test_all-test_token_ring.o unit_tests/bin_test_all-test_text_dumper.o unit_tests/bin_test_all-test_dumpers.o unit_tests/bin_test_all-test_mapped_file.o unit_tests/bin_test_all-test_int128.o unit_tests/bin_test_all-test_mer_dna_bloom_counter.o unit_tests/bin_test_all-test_whole_sequence_parser.o unit_tests/bin_test_all-test_allocators_mmap.o unit_tests/bin_test_all-test_cooperative_pool2.o unit_tests/bin_test_all-test_generator_manager.o unit_tests/bin_test_all-test_atomic_bits_array.o unit_tests/bin_test_all-test_stdio_filebuf.o jellyfish/bin_test_all-backtrace.o libgtest.la libjellyfish-2.0.la libtool: link: x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -I./unit_tests/gtest/include -I./unit_tests -I./include -Wno-unused-variable -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -Wl,-z -Wl,relro -Wl,-z -Wl,now -o bin/.libs/test_all unit_tests/bin_test_all-test_main.o unit_tests/bin_test_all-test_misc.o unit_tests/bin_test_all-test_offsets_key_value.o unit_tests/bin_test_all-test_simple_circular_buffer.o unit_tests/bin_test_all-test_rectangular_binary_matrix.o unit_tests/bin_test_all-test_mer_dna.o unit_tests/bin_test_all-test_large_hash_array.o unit_tests/bin_test_all-test_mer_overlap_sequence_parser.o unit_tests/bin_test_all-test_file_header.o unit_tests/bin_test_all-test_mer_iterator.o unit_tests/bin_test_all-test_hash_counter.o unit_tests/bin_test_all-test_mer_heap.o unit_tests/bin_test_all-test_stream_iterator.o unit_tests/bin_test_all-test_token_ring.o unit_tests/bin_test_all-test_text_dumper.o unit_tests/bin_test_all-test_dumpers.o unit_tests/bin_test_all-test_mapped_file.o unit_tests/bin_test_all-test_int128.o unit_tests/bin_test_all-test_mer_dna_bloom_counter.o unit_tests/bin_test_all-test_whole_sequence_parser.o unit_tests/bin_test_all-test_allocators_mmap.o unit_tests/bin_test_all-test_cooperative_pool2.o unit_tests/bin_test_all-test_generator_manager.o unit_tests/bin_test_all-test_atomic_bits_array.o unit_tests/bin_test_all-test_stdio_filebuf.o jellyfish/bin_test_all-backtrace.o -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu ./.libs/libgtest.a -lhts -lpthread ./.libs/libjellyfish-2.0.so -pthread -Wl,-rpath -Wl,/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o jellyfish/fastq2sam.o jellyfish/fastq2sam.cc /bin/bash ./libtool --tag=CXX --mode=link x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -pthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -lhts -R/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -Wl,-z,relro -Wl,-z,now -lpthread -o bin/fastq2sam jellyfish/fastq2sam.o libjellyfish-2.0.la libtool: link: x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -Wl,-z -Wl,relro -Wl,-z -Wl,now -o bin/.libs/fastq2sam jellyfish/fastq2sam.o -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -lhts -lpthread ./.libs/libjellyfish-2.0.so -pthread -Wl,-rpath -Wl,/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu make[2]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' dh_auto_install -- install-data make -j1 install DESTDIR=/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp AM_UPDATE_INFO_DIR=no install-data make[2]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make install-am make[3]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make[4]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu' /bin/bash ./libtool --mode=install /usr/bin/install -c libjellyfish-2.0.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu' libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.so.2.0.0 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so.2.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2 || { rm -f libjellyfish-2.0.so.2 && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so || { rm -f libjellyfish-2.0.so && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so; }; }) libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.la libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: warning: remember to run 'libtool --finish /usr/lib/x86_64-linux-gnu' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/bin' /bin/bash ./libtool --mode=install /usr/bin/install -c bin/jellyfish '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/bin' libtool: warning: 'libjellyfish-2.0.la' has not been installed in '/usr/lib/x86_64-linux-gnu' libtool: install: /usr/bin/install -c bin/.libs/jellyfish /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/bin/jellyfish /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/install -c -m 644 include/jellyfish/allocators_mmap.hpp include/jellyfish/backtrace.hpp include/jellyfish/atomic_gcc.hpp include/jellyfish/large_hash_array.hpp include/jellyfish/err.hpp include/jellyfish/misc.hpp include/jellyfish/offsets_key_value.hpp include/jellyfish/int128.hpp include/jellyfish/rectangular_binary_matrix.hpp include/jellyfish/mer_dna.hpp include/jellyfish/storage.hpp include/jellyfish/simple_circular_buffer.hpp include/jellyfish/circular_buffer.hpp include/jellyfish/atomic_field.hpp include/jellyfish/compare_and_swap.hpp include/jellyfish/divisor.hpp include/jellyfish/large_hash_iterator.hpp include/jellyfish/jellyfish.hpp include/jellyfish/thread_exec.hpp include/jellyfish/stream_iterator.hpp include/jellyfish/mer_overlap_sequence_parser.hpp include/jellyfish/whole_sequence_parser.hpp include/jellyfish/parser_common.hpp include/jellyfish/sam_format.hpp include/jellyfish/binary_dumper.hpp include/jellyfish/sorted_dumper.hpp include/jellyfish/text_dumper.hpp include/jellyfish/dumper.hpp include/jellyfish/time.hpp include/jellyfish/mer_heap.hpp include/jellyfish/token_ring.hpp include/jellyfish/locks_pthread.hpp include/jellyfish/file_header.hpp include/jellyfish/generic_file_header.hpp include/jellyfish/json.h include/jellyfish/hash_counter.hpp include/jellyfish/mapped_file.hpp include/jellyfish/mer_dna_bloom_counter.hpp include/jellyfish/bloom_common.hpp include/jellyfish/bloom_counter2.hpp '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/install -c -m 644 include/jellyfish/bloom_filter.hpp include/jellyfish/cooperative_pool.hpp include/jellyfish/cooperative_pool2.hpp include/jellyfish/stream_manager.hpp include/jellyfish/generator_manager.hpp include/jellyfish/cpp_array.hpp include/jellyfish/mer_iterator.hpp include/jellyfish/atomic_bits_array.hpp include/jellyfish/stdio_filebuf.hpp include/jellyfish/mer_qual_iterator.hpp '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 'doc/jellyfish.man' '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/share/man/man1/jellyfish.1' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' libtool: warning: relinking 'swig/perl5/jellyfish.la' libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1; /bin/bash "/build/jellyfish-yWEPpL/jellyfish-2.3.1/libtool" --tag CXX --mode=relink x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -Wno-error -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.44.0 swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp) libtool: relink: x86_64-linux-gnu-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/15/crtbeginS.o swig/perl5/.libs/swig_perl5_jellyfish_la-swig_wrap.o -lpthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -L/usr/lib/gcc/x86_64-linux-gnu/15 -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/15/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crtn.o -Werror -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,jellyfish.so.0 -o swig/perl5/.libs/jellyfish.so.0.0.0 libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.so.0.0.0T /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.so.0.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so.0 || { rm -f jellyfish.so.0 && ln -s jellyfish.so.0.0.0 jellyfish.so.0; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so || { rm -f jellyfish.so && ln -s jellyfish.so.0.0.0 jellyfish.so; }; }) libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.la libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.44.0' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /usr/bin/install -c swig/perl5/jellyfish.pm '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 jellyfish-2.0.pc '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' /bin/bash ./libtool --mode=install /usr/bin/install -c swig/python/_dna_jellyfish.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' libtool: warning: relinking 'swig/python/_dna_jellyfish.la' libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1; /bin/bash "/build/jellyfish-yWEPpL/jellyfish-2.3.1/libtool" --tag CXX --mode=relink x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/python/_dna_jellyfish.la -rpath /usr/lib/python3.13/site-packages/dna_jellyfish swig/python/swig_python__dna_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp) libtool: relink: x86_64-linux-gnu-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/15/crtbeginS.o swig/python/.libs/swig_python__dna_jellyfish_la-swig_wrap.o -lpthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -L/usr/lib/gcc/x86_64-linux-gnu/15 -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/15/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crtn.o -Werror -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,_dna_jellyfish.so.0 -o swig/python/.libs/_dna_jellyfish.so.0.0.0 libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.so.0.0.0T /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.so.0.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0 || { rm -f _dna_jellyfish.so.0 && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so || { rm -f _dna_jellyfish.so && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so; }; }) libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.la libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: warning: remember to run 'libtool --finish /usr/lib/python3.13/site-packages/dna_jellyfish' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' /usr/bin/install -c swig/python/__init__.pyc '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' make[4]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make[3]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/install -c -m 644 include/jellyfish/allocators_mmap.hpp include/jellyfish/backtrace.hpp include/jellyfish/atomic_gcc.hpp include/jellyfish/large_hash_array.hpp include/jellyfish/err.hpp include/jellyfish/misc.hpp include/jellyfish/offsets_key_value.hpp include/jellyfish/int128.hpp include/jellyfish/rectangular_binary_matrix.hpp include/jellyfish/mer_dna.hpp include/jellyfish/storage.hpp include/jellyfish/simple_circular_buffer.hpp include/jellyfish/circular_buffer.hpp include/jellyfish/atomic_field.hpp include/jellyfish/compare_and_swap.hpp include/jellyfish/divisor.hpp include/jellyfish/large_hash_iterator.hpp include/jellyfish/jellyfish.hpp include/jellyfish/thread_exec.hpp include/jellyfish/stream_iterator.hpp include/jellyfish/mer_overlap_sequence_parser.hpp include/jellyfish/whole_sequence_parser.hpp include/jellyfish/parser_common.hpp include/jellyfish/sam_format.hpp include/jellyfish/binary_dumper.hpp include/jellyfish/sorted_dumper.hpp include/jellyfish/text_dumper.hpp include/jellyfish/dumper.hpp include/jellyfish/time.hpp include/jellyfish/mer_heap.hpp include/jellyfish/token_ring.hpp include/jellyfish/locks_pthread.hpp include/jellyfish/file_header.hpp include/jellyfish/generic_file_header.hpp include/jellyfish/json.h include/jellyfish/hash_counter.hpp include/jellyfish/mapped_file.hpp include/jellyfish/mer_dna_bloom_counter.hpp include/jellyfish/bloom_common.hpp include/jellyfish/bloom_counter2.hpp '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/install -c -m 644 include/jellyfish/bloom_filter.hpp include/jellyfish/cooperative_pool.hpp include/jellyfish/cooperative_pool2.hpp include/jellyfish/stream_manager.hpp include/jellyfish/generator_manager.hpp include/jellyfish/cpp_array.hpp include/jellyfish/mer_iterator.hpp include/jellyfish/atomic_bits_array.hpp include/jellyfish/stdio_filebuf.hpp include/jellyfish/mer_qual_iterator.hpp '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 'doc/jellyfish.man' '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/share/man/man1/jellyfish.1' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu' /bin/bash ./libtool --mode=install /usr/bin/install -c libjellyfish-2.0.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu' libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.so.2.0.0 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so.2.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2 || { rm -f libjellyfish-2.0.so.2 && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so || { rm -f libjellyfish-2.0.so && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so; }; }) libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.la libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: warning: remember to run 'libtool --finish /usr/lib/x86_64-linux-gnu' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' libtool: warning: relinking 'swig/perl5/jellyfish.la' libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1; /bin/bash "/build/jellyfish-yWEPpL/jellyfish-2.3.1/libtool" --tag CXX --mode=relink x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -Wno-error -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.44.0 swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp) libtool: relink: x86_64-linux-gnu-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/15/crtbeginS.o swig/perl5/.libs/swig_perl5_jellyfish_la-swig_wrap.o -lpthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -L/usr/lib/gcc/x86_64-linux-gnu/15 -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/15/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crtn.o -Werror -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,jellyfish.so.0 -o swig/perl5/.libs/jellyfish.so.0.0.0 libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.so.0.0.0T /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.so.0.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so.0 || { rm -f jellyfish.so.0 && ln -s jellyfish.so.0.0.0 jellyfish.so.0; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so || { rm -f jellyfish.so && ln -s jellyfish.so.0.0.0 jellyfish.so; }; }) libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.la libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.44.0' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /usr/bin/install -c swig/perl5/jellyfish.pm '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 jellyfish-2.0.pc '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' /bin/bash ./libtool --mode=install /usr/bin/install -c swig/python/_dna_jellyfish.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' libtool: warning: relinking 'swig/python/_dna_jellyfish.la' libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1; /bin/bash "/build/jellyfish-yWEPpL/jellyfish-2.3.1/libtool" --tag CXX --mode=relink x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/python/_dna_jellyfish.la -rpath /usr/lib/python3.13/site-packages/dna_jellyfish swig/python/swig_python__dna_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp) libtool: relink: x86_64-linux-gnu-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/15/crtbeginS.o swig/python/.libs/swig_python__dna_jellyfish_la-swig_wrap.o -lpthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -L/usr/lib/gcc/x86_64-linux-gnu/15 -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/15/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crtn.o -Werror -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,_dna_jellyfish.so.0 -o swig/python/.libs/_dna_jellyfish.so.0.0.0 libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.so.0.0.0T /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.so.0.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0 || { rm -f _dna_jellyfish.so.0 && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so || { rm -f _dna_jellyfish.so && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so; }; }) libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.la libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: warning: remember to run 'libtool --finish /usr/lib/python3.13/site-packages/dna_jellyfish' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' /usr/bin/install -c swig/python/__init__.pyc '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' make[2]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' dh_auto_build --sourcedirectory=swig/perl5 cd swig/perl5 && make -j2 make[2]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1/swig/perl5' Running Mkbootstrap for jellyfish () chmod 644 "jellyfish.bs" g++ -c -std=c++0x -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -DVERSION=\"0.0.1\" -DXS_VERSION=\"0.0.1\" -fPIC "-I/usr/lib/x86_64-linux-gnu/perl/5.44/CORE" swig_wrap.cpp cc1plus: warning: ‘-Werror=’ argument ‘-Werror=implicit-function-declaration’ is not valid for C++ "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- jellyfish.bs blib/arch/auto/jellyfish/jellyfish.bs 644 rm -f blib/arch/auto/jellyfish/jellyfish.so x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro -Wl,-z,now -lpthread -shared -L/usr/local/lib -fstack-protector-strong swig_wrap.o -o blib/arch/auto/jellyfish/jellyfish.so \ -lpthread \ chmod 755 blib/arch/auto/jellyfish/jellyfish.so make[2]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1/swig/perl5' dh_auto_build --sourcedirectory=swig/python --buildsystem=pybuild I: pybuild base:385: /usr/bin/python3.14 setup.py build build_ext -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/.libs running build running build_py copying dna_jellyfish.py -> /build/jellyfish-yWEPpL/jellyfish-2.3.1/.pybuild/cpython3_3.14_dna_jellyfish/build running build_ext building '_dna_jellyfish' extension creating build/temp.linux-x86_64-cpython-314 x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1 -I/usr/include/python3.14 -c swig_wrap.cpp -o build/temp.linux-x86_64-cpython-314/swig_wrap.o -std=c++0x x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -lpthread -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-314/swig_wrap.o -L-L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/.libs -L/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -lpthread -o /build/jellyfish-yWEPpL/jellyfish-2.3.1/.pybuild/cpython3_3.14_dna_jellyfish/build/_dna_jellyfish.cpython-314-x86_64-linux-gnu.so -Wl,-rpath,-L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu I: pybuild base:385: /usr/bin/python3 setup.py build build_ext -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/.libs running build running build_py copying dna_jellyfish.py -> /build/jellyfish-yWEPpL/jellyfish-2.3.1/.pybuild/cpython3_3.13_dna_jellyfish/build running build_ext building '_dna_jellyfish' extension creating build/temp.linux-x86_64-cpython-313 x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1 -I/usr/include/python3.13 -c swig_wrap.cpp -o build/temp.linux-x86_64-cpython-313/swig_wrap.o -std=c++0x x86_64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -lpthread -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-cpython-313/swig_wrap.o -L-L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/.libs -L/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -lpthread -o /build/jellyfish-yWEPpL/jellyfish-2.3.1/.pybuild/cpython3_3.13_dna_jellyfish/build/_dna_jellyfish.cpython-313-x86_64-linux-gnu.so -Wl,-rpath,-L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu make[1]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' debian/rules override_dh_auto_test make[1]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' if ! dh_auto_test \ ; then echo "E: tests failed, ./test-suite.log follows:" \ ; cat ./test-suite.log \ ; echo "E: end of ./test-suite.log after test failure." \ ; exit 1 \ ; fi make -j2 check TESTSUITEFLAGS="-j2 --verbose" VERBOSE=1 make[2]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make check-am make[3]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make bin/generate_sequence bin/fastq2sam bin/test_all libgtest.la libgtest_main.la make[4]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make[4]: 'bin/generate_sequence' is up to date. make[4]: 'bin/fastq2sam' is up to date. make[4]: 'bin/test_all' is up to date. make[4]: 'libgtest.la' is up to date. /bin/bash ./libtool --tag=CXX --mode=compile x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c -o unit_tests/gtest/src/libgtest_main_la-gtest_main.lo `test -f 'unit_tests/gtest/src/gtest_main.cc' || echo './'`unit_tests/gtest/src/gtest_main.cc libtool: compile: x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c unit_tests/gtest/src/gtest_main.cc -fPIC -DPIC -o unit_tests/gtest/src/.libs/libgtest_main_la-gtest_main.o libtool: compile: x86_64-linux-gnu-g++ -DHAVE_CONFIG_H -I. -Wall -Wnon-virtual-dtor -I. -I./include -Wdate-time -D_FORTIFY_SOURCE=2 -I./unit_tests -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -c unit_tests/gtest/src/gtest_main.cc -o unit_tests/gtest/src/libgtest_main_la-gtest_main.o >/dev/null 2>&1 /bin/bash ./libtool --tag=CXX --mode=link x86_64-linux-gnu-g++ -I./unit_tests -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -pthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -lhts -R/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -Wl,-z,relro -Wl,-z,now -lpthread -o libgtest_main.la unit_tests/gtest/src/libgtest_main_la-gtest_main.lo libgtest.la libtool: link: (cd .libs/libgtest_main.lax/libgtest.a && ar x "/build/jellyfish-yWEPpL/jellyfish-2.3.1/./.libs/libgtest.a") libtool: link: ar cr .libs/libgtest_main.a unit_tests/gtest/src/.libs/libgtest_main_la-gtest_main.o .libs/libgtest_main.lax/libgtest.a/libgtest_la-gtest-all.o libtool: link: ranlib .libs/libgtest_main.a libtool: link: rm -fr .libs/libgtest_main.lax libtool: link: ( cd ".libs" && rm -f "libgtest_main.la" && ln -s "../libgtest_main.la" "libgtest_main.la" ) make[4]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make check-TESTS make[4]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make[5]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' SKIP: tests/big.sh PASS: tests/generate_sequence.sh PASS: tests/parallel_hashing.sh PASS: tests/merge.sh PASS: tests/bloom_filter.sh PASS: tests/subset_hashing.sh PASS: unit_tests/unit_tests.sh PASS: tests/bloom_counter.sh PASS: tests/large_key.sh PASS: tests/multi_file.sh PASS: tests/small_mers.sh PASS: tests/sam.sh SKIP: tests/swig_ruby.sh PASS: tests/swig_python.sh PASS: tests/swig_perl.sh ============================================================================ Testsuite summary for jellyfish 2.3.1 ============================================================================ # TOTAL: 15 # PASS: 13 # SKIP: 2 # XFAIL: 0 # FAIL: 0 # XPASS: 0 # ERROR: 0 ============================================================================ make[5]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make[4]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make[3]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make[2]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make[1]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' create-stamp debian/debhelper-build-stamp dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' chrpath --delete bin/.libs/* dh_auto_install -- install-data make -j1 install DESTDIR=/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp AM_UPDATE_INFO_DIR=no install-data make[2]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make install-am make[3]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make[4]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu' /bin/bash ./libtool --mode=install /usr/bin/install -c libjellyfish-2.0.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu' libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.so.2.0.0 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so.2.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2 || { rm -f libjellyfish-2.0.so.2 && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so || { rm -f libjellyfish-2.0.so && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so; }; }) libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.la libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: warning: remember to run 'libtool --finish /usr/lib/x86_64-linux-gnu' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/bin' /bin/bash ./libtool --mode=install /usr/bin/install -c bin/jellyfish '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/bin' libtool: warning: 'libjellyfish-2.0.la' has not been installed in '/usr/lib/x86_64-linux-gnu' libtool: install: /usr/bin/install -c bin/.libs/jellyfish /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/bin/jellyfish /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/install -c -m 644 include/jellyfish/allocators_mmap.hpp include/jellyfish/backtrace.hpp include/jellyfish/atomic_gcc.hpp include/jellyfish/large_hash_array.hpp include/jellyfish/err.hpp include/jellyfish/misc.hpp include/jellyfish/offsets_key_value.hpp include/jellyfish/int128.hpp include/jellyfish/rectangular_binary_matrix.hpp include/jellyfish/mer_dna.hpp include/jellyfish/storage.hpp include/jellyfish/simple_circular_buffer.hpp include/jellyfish/circular_buffer.hpp include/jellyfish/atomic_field.hpp include/jellyfish/compare_and_swap.hpp include/jellyfish/divisor.hpp include/jellyfish/large_hash_iterator.hpp include/jellyfish/jellyfish.hpp include/jellyfish/thread_exec.hpp include/jellyfish/stream_iterator.hpp include/jellyfish/mer_overlap_sequence_parser.hpp include/jellyfish/whole_sequence_parser.hpp include/jellyfish/parser_common.hpp include/jellyfish/sam_format.hpp include/jellyfish/binary_dumper.hpp include/jellyfish/sorted_dumper.hpp include/jellyfish/text_dumper.hpp include/jellyfish/dumper.hpp include/jellyfish/time.hpp include/jellyfish/mer_heap.hpp include/jellyfish/token_ring.hpp include/jellyfish/locks_pthread.hpp include/jellyfish/file_header.hpp include/jellyfish/generic_file_header.hpp include/jellyfish/json.h include/jellyfish/hash_counter.hpp include/jellyfish/mapped_file.hpp include/jellyfish/mer_dna_bloom_counter.hpp include/jellyfish/bloom_common.hpp include/jellyfish/bloom_counter2.hpp '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/install -c -m 644 include/jellyfish/bloom_filter.hpp include/jellyfish/cooperative_pool.hpp include/jellyfish/cooperative_pool2.hpp include/jellyfish/stream_manager.hpp include/jellyfish/generator_manager.hpp include/jellyfish/cpp_array.hpp include/jellyfish/mer_iterator.hpp include/jellyfish/atomic_bits_array.hpp include/jellyfish/stdio_filebuf.hpp include/jellyfish/mer_qual_iterator.hpp '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 'doc/jellyfish.man' '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/share/man/man1/jellyfish.1' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' libtool: warning: relinking 'swig/perl5/jellyfish.la' libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1; /bin/bash "/build/jellyfish-yWEPpL/jellyfish-2.3.1/libtool" --tag CXX --mode=relink x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -Wno-error -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.44.0 swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp) libtool: relink: x86_64-linux-gnu-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/15/crtbeginS.o swig/perl5/.libs/swig_perl5_jellyfish_la-swig_wrap.o -lpthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -L/usr/lib/gcc/x86_64-linux-gnu/15 -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/15/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crtn.o -Werror -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,jellyfish.so.0 -o swig/perl5/.libs/jellyfish.so.0.0.0 libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.so.0.0.0T /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.so.0.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so.0 || { rm -f jellyfish.so.0 && ln -s jellyfish.so.0.0.0 jellyfish.so.0; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so || { rm -f jellyfish.so && ln -s jellyfish.so.0.0.0 jellyfish.so; }; }) libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.la libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.44.0' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /usr/bin/install -c swig/perl5/jellyfish.pm '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 jellyfish-2.0.pc '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' /bin/bash ./libtool --mode=install /usr/bin/install -c swig/python/_dna_jellyfish.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' libtool: warning: relinking 'swig/python/_dna_jellyfish.la' libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1; /bin/bash "/build/jellyfish-yWEPpL/jellyfish-2.3.1/libtool" --tag CXX --mode=relink x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/python/_dna_jellyfish.la -rpath /usr/lib/python3.13/site-packages/dna_jellyfish swig/python/swig_python__dna_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp) libtool: relink: x86_64-linux-gnu-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/15/crtbeginS.o swig/python/.libs/swig_python__dna_jellyfish_la-swig_wrap.o -lpthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -L/usr/lib/gcc/x86_64-linux-gnu/15 -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/15/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crtn.o -Werror -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,_dna_jellyfish.so.0 -o swig/python/.libs/_dna_jellyfish.so.0.0.0 libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.so.0.0.0T /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.so.0.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0 || { rm -f _dna_jellyfish.so.0 && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so || { rm -f _dna_jellyfish.so && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so; }; }) libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.la libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: warning: remember to run 'libtool --finish /usr/lib/python3.13/site-packages/dna_jellyfish' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' /usr/bin/install -c swig/python/__init__.pyc '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' make[4]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' make[3]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/install -c -m 644 include/jellyfish/allocators_mmap.hpp include/jellyfish/backtrace.hpp include/jellyfish/atomic_gcc.hpp include/jellyfish/large_hash_array.hpp include/jellyfish/err.hpp include/jellyfish/misc.hpp include/jellyfish/offsets_key_value.hpp include/jellyfish/int128.hpp include/jellyfish/rectangular_binary_matrix.hpp include/jellyfish/mer_dna.hpp include/jellyfish/storage.hpp include/jellyfish/simple_circular_buffer.hpp include/jellyfish/circular_buffer.hpp include/jellyfish/atomic_field.hpp include/jellyfish/compare_and_swap.hpp include/jellyfish/divisor.hpp include/jellyfish/large_hash_iterator.hpp include/jellyfish/jellyfish.hpp include/jellyfish/thread_exec.hpp include/jellyfish/stream_iterator.hpp include/jellyfish/mer_overlap_sequence_parser.hpp include/jellyfish/whole_sequence_parser.hpp include/jellyfish/parser_common.hpp include/jellyfish/sam_format.hpp include/jellyfish/binary_dumper.hpp include/jellyfish/sorted_dumper.hpp include/jellyfish/text_dumper.hpp include/jellyfish/dumper.hpp include/jellyfish/time.hpp include/jellyfish/mer_heap.hpp include/jellyfish/token_ring.hpp include/jellyfish/locks_pthread.hpp include/jellyfish/file_header.hpp include/jellyfish/generic_file_header.hpp include/jellyfish/json.h include/jellyfish/hash_counter.hpp include/jellyfish/mapped_file.hpp include/jellyfish/mer_dna_bloom_counter.hpp include/jellyfish/bloom_common.hpp include/jellyfish/bloom_counter2.hpp '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/install -c -m 644 include/jellyfish/bloom_filter.hpp include/jellyfish/cooperative_pool.hpp include/jellyfish/cooperative_pool2.hpp include/jellyfish/stream_manager.hpp include/jellyfish/generator_manager.hpp include/jellyfish/cpp_array.hpp include/jellyfish/mer_iterator.hpp include/jellyfish/atomic_bits_array.hpp include/jellyfish/stdio_filebuf.hpp include/jellyfish/mer_qual_iterator.hpp '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include/jellyfish-2.3.1/jellyfish' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 'doc/jellyfish.man' '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/share/man/man1/jellyfish.1' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu' /bin/bash ./libtool --mode=install /usr/bin/install -c libjellyfish-2.0.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu' libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.so.2.0.0 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so.2.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2 || { rm -f libjellyfish-2.0.so.2 && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so.2; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu && { ln -s -f libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so || { rm -f libjellyfish-2.0.so && ln -s libjellyfish-2.0.so.2.0.0 libjellyfish-2.0.so; }; }) libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.la libtool: install: /usr/bin/install -c .libs/libjellyfish-2.0.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a libtool: warning: remember to run 'libtool --finish /usr/lib/x86_64-linux-gnu' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /bin/bash ./libtool --mode=install /usr/bin/install -c swig/perl5/jellyfish.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' libtool: warning: relinking 'swig/perl5/jellyfish.la' libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1; /bin/bash "/build/jellyfish-yWEPpL/jellyfish-2.3.1/libtool" --tag CXX --mode=relink x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -Wno-error -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/perl5/jellyfish.la -rpath /usr/lib/perl/5.44.0 swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp) libtool: relink: x86_64-linux-gnu-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/15/crtbeginS.o swig/perl5/.libs/swig_perl5_jellyfish_la-swig_wrap.o -lpthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -L/usr/lib/gcc/x86_64-linux-gnu/15 -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/15/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crtn.o -Werror -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,jellyfish.so.0 -o swig/perl5/.libs/jellyfish.so.0.0.0 libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.so.0.0.0T /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.so.0.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so.0 || { rm -f jellyfish.so.0 && ln -s jellyfish.so.0.0.0 jellyfish.so.0; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0 && { ln -s -f jellyfish.so.0.0.0 jellyfish.so || { rm -f jellyfish.so && ln -s jellyfish.so.0.0.0 jellyfish.so; }; }) libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.la libtool: install: /usr/bin/install -c swig/perl5/.libs/jellyfish.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0/jellyfish.a libtool: warning: remember to run 'libtool --finish /usr/lib/perl/5.44.0' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /usr/bin/install -c swig/perl5/jellyfish.pm '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/perl/5.44.0' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 jellyfish-2.0.pc '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' /bin/bash ./libtool --mode=install /usr/bin/install -c swig/python/_dna_jellyfish.la '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' libtool: warning: relinking 'swig/python/_dna_jellyfish.la' libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1; /bin/bash "/build/jellyfish-yWEPpL/jellyfish-2.3.1/libtool" --tag CXX --mode=relink x86_64-linux-gnu-g++ -I/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/include -Werror -std=c++11 -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wno-nonnull -Wno-unused-but-set-variable -module -Wl,-z,relro -Wl,-z,now -lpthread -o swig/python/_dna_jellyfish.la -rpath /usr/lib/python3.13/site-packages/dna_jellyfish swig/python/swig_python__dna_jellyfish_la-swig_wrap.lo libjellyfish-2.0.la -inst-prefix-dir /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp) libtool: relink: x86_64-linux-gnu-g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/15/crtbeginS.o swig/python/.libs/swig_python__dna_jellyfish_la-swig_wrap.o -lpthread -L/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -ljellyfish-2.0 -L/usr/lib/gcc/x86_64-linux-gnu/15 -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/15/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/15/../../.. -L/lib -L/usr/lib -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/15/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/15/../../../x86_64-linux-gnu/crtn.o -Werror -g -O2 -ffile-prefix-map=/build/jellyfish-yWEPpL/jellyfish-2.3.1=. -fstack-protector-strong -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,-soname -Wl,_dna_jellyfish.so.0 -o swig/python/.libs/_dna_jellyfish.so.0.0.0 libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.so.0.0.0T /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.so.0.0.0 libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0 || { rm -f _dna_jellyfish.so.0 && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so.0; }; }) libtool: install: (cd /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish && { ln -s -f _dna_jellyfish.so.0.0.0 _dna_jellyfish.so || { rm -f _dna_jellyfish.so && ln -s _dna_jellyfish.so.0.0.0 _dna_jellyfish.so; }; }) libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.lai /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.la libtool: install: /usr/bin/install -c swig/python/.libs/_dna_jellyfish.a /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: install: chmod 644 /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: install: ranlib /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish/_dna_jellyfish.a libtool: warning: remember to run 'libtool --finish /usr/lib/python3.13/site-packages/dna_jellyfish' /usr/bin/mkdir -p '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' /usr/bin/install -c swig/python/__init__.pyc '/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/python3.13/site-packages/dna_jellyfish' make[2]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' dh_auto_install --sourcedirectory=swig/python --buildsystem=pybuild I: pybuild base:385: /usr/bin/python3.14 setup.py install --root /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py copying dna_jellyfish.py -> /build/jellyfish-yWEPpL/jellyfish-2.3.1/.pybuild/cpython3_3.14_dna_jellyfish/build running build_ext running install_lib creating /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish/usr/lib/python3.14/dist-packages copying /build/jellyfish-yWEPpL/jellyfish-2.3.1/.pybuild/cpython3_3.14_dna_jellyfish/build/dna_jellyfish.py -> /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish/usr/lib/python3.14/dist-packages copying /build/jellyfish-yWEPpL/jellyfish-2.3.1/.pybuild/cpython3_3.14_dna_jellyfish/build/_dna_jellyfish.cpython-314-x86_64-linux-gnu.so -> /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish/usr/lib/python3.14/dist-packages byte-compiling /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish/usr/lib/python3.14/dist-packages/dna_jellyfish.py to dna_jellyfish.cpython-314.pyc running install_egg_info running egg_info creating dna_jellyfish.egg-info writing dna_jellyfish.egg-info/PKG-INFO writing dependency_links to dna_jellyfish.egg-info/dependency_links.txt writing top-level names to dna_jellyfish.egg-info/top_level.txt writing manifest file 'dna_jellyfish.egg-info/SOURCES.txt' reading manifest file 'dna_jellyfish.egg-info/SOURCES.txt' writing manifest file 'dna_jellyfish.egg-info/SOURCES.txt' Copying dna_jellyfish.egg-info to /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish/usr/lib/python3.14/dist-packages/dna_jellyfish-0.0.1.egg-info Skipping SOURCES.txt running install_scripts I: pybuild base:385: /usr/bin/python3 setup.py install --root /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py copying dna_jellyfish.py -> /build/jellyfish-yWEPpL/jellyfish-2.3.1/.pybuild/cpython3_3.13_dna_jellyfish/build running build_ext running install_lib creating /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish/usr/lib/python3.13/dist-packages copying /build/jellyfish-yWEPpL/jellyfish-2.3.1/.pybuild/cpython3_3.13_dna_jellyfish/build/_dna_jellyfish.cpython-313-x86_64-linux-gnu.so -> /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish/usr/lib/python3.13/dist-packages copying /build/jellyfish-yWEPpL/jellyfish-2.3.1/.pybuild/cpython3_3.13_dna_jellyfish/build/dna_jellyfish.py -> /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish/usr/lib/python3.13/dist-packages byte-compiling /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish/usr/lib/python3.13/dist-packages/dna_jellyfish.py to dna_jellyfish.cpython-313.pyc running install_egg_info running egg_info writing dna_jellyfish.egg-info/PKG-INFO writing dependency_links to dna_jellyfish.egg-info/dependency_links.txt writing top-level names to dna_jellyfish.egg-info/top_level.txt reading manifest file 'dna_jellyfish.egg-info/SOURCES.txt' writing manifest file 'dna_jellyfish.egg-info/SOURCES.txt' Copying dna_jellyfish.egg-info to /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/python3-dna-jellyfish/usr/lib/python3.13/dist-packages/dna_jellyfish-0.0.1.egg-info Skipping SOURCES.txt running install_scripts dh_auto_install --sourcedirectory=swig/perl5 cd swig/perl5 && make -j2 install DESTDIR=/build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp AM_UPDATE_INFO_DIR=no PREFIX=/usr make[2]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1/swig/perl5' "/usr/bin/perl" -MExtUtils::Command::MM -e 'cp_nonempty' -- jellyfish.bs blib/arch/auto/jellyfish/jellyfish.bs 644 Files found in blib/arch: installing files in blib/lib into architecture dependent library tree Installing /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/perl5/5.44/auto/jellyfish/jellyfish.so make[2]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1/swig/perl5' ls -l debian/tmp/usr/lib/*/perl5/*/auto/jellyfish/jellyfish.so -r-xr-xr-x 1 debomatic sbuild 1125424 Jun 26 23:40 debian/tmp/usr/lib/x86_64-linux-gnu/perl5/5.44/auto/jellyfish/jellyfish.so if [ ! -e debian/tmp/usr/lib/*/perl5/*/auto/jellyfish/jellyfish.so ] ; then sleep 1; fi chmod +w debian/tmp/usr/lib/*/perl5/*/auto/jellyfish/jellyfish.so chrpath --delete debian/tmp/usr/lib/*/perl5/*/auto/jellyfish/jellyfish.so dh_install d-shlibmove --commit \ --multiarch \ --devunversioned \ --movedev "debian/tmp/usr/include/jellyfish*/jellyfish/*.hpp" usr/include/jellyfish \ --movedev "debian/tmp/usr/include/jellyfish*/jellyfish/*.h" usr/include/jellyfish \ --movedev config.h usr/include/jellyfish \ debian/tmp/usr/lib/*/libjellyfish-*.so Library package automatic movement utility set -e install -d -m 755 debian/libjellyfish-2.0-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libjellyfish-2.0-2/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a debian/libjellyfish-2.0-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.la debian/libjellyfish-2.0-dev/usr/lib/x86_64-linux-gnu || true mv debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so debian/libjellyfish-2.0-dev/usr/lib/x86_64-linux-gnu mv /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so.2 debian/libjellyfish-2.0-2/usr/lib/x86_64-linux-gnu mv /build/jellyfish-yWEPpL/jellyfish-2.3.1/debian/tmp/usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so.2.0.0 debian/libjellyfish-2.0-2/usr/lib/x86_64-linux-gnu PKGDEV=libjellyfish-2.0-dev PKGSHL=libjellyfish-2.0-2 install -d -m 755 debian/libjellyfish-2.0-dev/usr/include/jellyfish mv debian/tmp/usr/include/jellyfish*/jellyfish/*.hpp debian/libjellyfish-2.0-dev/usr/include/jellyfish install -d -m 755 debian/libjellyfish-2.0-dev/usr/include/jellyfish mv debian/tmp/usr/include/jellyfish*/jellyfish/*.h debian/libjellyfish-2.0-dev/usr/include/jellyfish install -d -m 755 debian/libjellyfish-2.0-dev/usr/include/jellyfish mv config.h debian/libjellyfish-2.0-dev/usr/include/jellyfish sed -i "/dependency_libs/ s/'.*'/''/" ./debian/libjellyfish-2.0-dev/usr/lib/x86_64-linux-gnu/*.la chrpath --delete debian/*/usr/lib/python*/dist-packages/_dna_jellyfish*.so make[1]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' dh_install -a debian/rules execute_after_dh_install make[1]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' # Fix PACKAGE_NAME defined in config.h colliding with potential reverse # dependencies autotools invocations, per lintian warning. rm -vf debian/libjellyfish-2.0-dev/usr/include/jellyfish/config.h removed 'debian/libjellyfish-2.0-dev/usr/include/jellyfish/config.h' make[1]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_python3 -a dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a debian/rules override_dh_missing make[1]: Entering directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' # Python files are just installed rm -rf debian/tmp/usr/lib/python3/dist-packages # Necessary Perl files are just installed rm -rf debian/tmp/usr/lib/perl/5.* dh_missing make[1]: Leaving directory '/build/jellyfish-yWEPpL/jellyfish-2.3.1' dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'python3-dna-jellyfish' in '../python3-dna-jellyfish_2.3.1-6+b1_amd64.deb'. dpkg-deb: building package 'jellyfish' in '../jellyfish_2.3.1-6+b1_amd64.deb'. dpkg-deb: building package 'python3-dna-jellyfish-dbgsym' in '../python3-dna-jellyfish-dbgsym_2.3.1-6+b1_amd64.deb'. dpkg-deb: building package 'libjellyfish-perl' in '../libjellyfish-perl_2.3.1-6+b1_amd64.deb'. dpkg-deb: building package 'libjellyfish-perl-dbgsym' in '../libjellyfish-perl-dbgsym_2.3.1-6+b1_amd64.deb'. dpkg-deb: building package 'jellyfish-dbgsym' in '../jellyfish-dbgsym_2.3.1-6+b1_amd64.deb'. dpkg-deb: building package 'libjellyfish-2.0-2' in '../libjellyfish-2.0-2_2.3.1-6+b1_amd64.deb'. dpkg-deb: building package 'libjellyfish-2.0-2-dbgsym' in '../libjellyfish-2.0-2-dbgsym_2.3.1-6+b1_amd64.deb'. dpkg-deb: building package 'libjellyfish-2.0-dev' in '../libjellyfish-2.0-dev_2.3.1-6+b1_amd64.deb'. dpkg-genbuildinfo --build=any -O../jellyfish_2.3.1-6+b1_amd64.buildinfo dpkg-genchanges --build=any -mDebian Perl autobuilder -O../jellyfish_2.3.1-6+b1_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source -Zxz --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2026-06-26T23:43:13Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Fri, 26 Jun 2026 23:43:13 +0000 | +------------------------------------------------------------------------------+ jellyfish_2.3.1-6+b1_amd64.changes: ----------------------------------- Format: 1.8 Date: Tue, 21 Apr 2026 18:08:06 +0000 Source: jellyfish (2.3.1-6) Binary: jellyfish jellyfish-dbgsym libjellyfish-2.0-2 libjellyfish-2.0-2-dbgsym libjellyfish-2.0-dev libjellyfish-perl libjellyfish-perl-dbgsym python3-dna-jellyfish python3-dna-jellyfish-dbgsym Binary-Only: yes Architecture: amd64 Version: 2.3.1-6+b1 Distribution: perl-5.44 Urgency: low Maintainer: Debian Perl autobuilder Changed-By: Debian Perl autobuilder Description: jellyfish - count k-mers in DNA sequences libjellyfish-2.0-2 - count k-mers in DNA sequences (dynamic library of jellyfish) libjellyfish-2.0-dev - count k-mers in DNA sequences (development files of jellyfish) libjellyfish-perl - count k-mers in DNA sequences (Perl bindings of jellyfish) python3-dna-jellyfish - count k-mers in DNA sequences (Python bindings of jellyfish) Changes: jellyfish (2.3.1-6+b1) perl-5.44; urgency=low, binary-only=yes . * Binary-only non-maintainer upload for amd64; no source changes. * Rebuild for Perl 5.44 Checksums-Sha1: 2b73b1056eeefb6edea8b5504a21dc1bc089e8c2 7686024 jellyfish-dbgsym_2.3.1-6+b1_amd64.deb 2387e1cb6bec1e82579c4375350844648ea39298 11873 jellyfish_2.3.1-6+b1_amd64.buildinfo 4ce08f20b56b5035110f261ce6e53bfeaf811d28 809380 jellyfish_2.3.1-6+b1_amd64.deb 2aabb772fb6c70c6d8bf53ccd0a91b5e9fac5d2f 539716 libjellyfish-2.0-2-dbgsym_2.3.1-6+b1_amd64.deb 6729549cadb1b0b8dcc5ffbd91e6bc0c31888a25 66356 libjellyfish-2.0-2_2.3.1-6+b1_amd64.deb 38a6523f442c9002e70ea04c0535be882b84ab95 137136 libjellyfish-2.0-dev_2.3.1-6+b1_amd64.deb 4db2046c12bf5eb3203a82357c6859bf0f5353d8 350104 libjellyfish-perl-dbgsym_2.3.1-6+b1_amd64.deb 83cf129c4cab150dc745bcdf5888822fc446015c 56780 libjellyfish-perl_2.3.1-6+b1_amd64.deb 21c0efd52fc4405cf84123242d695382e1a35351 639240 python3-dna-jellyfish-dbgsym_2.3.1-6+b1_amd64.deb d51caa35c37d5dbc155cf246e2771961bffcadad 65840 python3-dna-jellyfish_2.3.1-6+b1_amd64.deb Checksums-Sha256: 17f6335acd3b28423bc4e1b580c593548c652be37f642536c183092ce1484d64 7686024 jellyfish-dbgsym_2.3.1-6+b1_amd64.deb f75c4d44ac8140f53504389e3ccdfdb87d2b3d8eb0e88e80999de47a7e02ff4f 11873 jellyfish_2.3.1-6+b1_amd64.buildinfo 1bd7658aaf54a681ca362daac5623fa029de309795662b03225f2a7dd1632d96 809380 jellyfish_2.3.1-6+b1_amd64.deb 4b6b62e41dc933d920423fb17092538f52e74541296fb6a74efb141eadd719c8 539716 libjellyfish-2.0-2-dbgsym_2.3.1-6+b1_amd64.deb 0b028f7cb3e53d43b7e6f962cd61a90ac1d57eec3cb8b6de863476f2cdae4f47 66356 libjellyfish-2.0-2_2.3.1-6+b1_amd64.deb 6e0ebdadad3b09e4f3cd73ece07c1f65739ebe036467f3b8c639c8db0bade772 137136 libjellyfish-2.0-dev_2.3.1-6+b1_amd64.deb 2fe3e4ed8d461c6f8899f9b8fbf5c9053832b195e913feb68f550f00fa5fc3cb 350104 libjellyfish-perl-dbgsym_2.3.1-6+b1_amd64.deb f8b7075f7a4584d4e6ea8b158ecc2dde9f638f12e7668c90e9b7f53eb729efa6 56780 libjellyfish-perl_2.3.1-6+b1_amd64.deb d31efc51abeec416621a4458145a3846d3b2ff93fef92898717e8ac944a55a0b 639240 python3-dna-jellyfish-dbgsym_2.3.1-6+b1_amd64.deb d9f307c64a74d23cc4d80c13e03c93a8e0ba908a69c43b06b1fe491fa94cfc50 65840 python3-dna-jellyfish_2.3.1-6+b1_amd64.deb Files: 8bf02722cc8b2d64b38c580aea223006 7686024 debug optional jellyfish-dbgsym_2.3.1-6+b1_amd64.deb 85c257b046147ae1ce3797397ffd80fb 11873 science optional jellyfish_2.3.1-6+b1_amd64.buildinfo a604b54d55a213e5ef415af5d43b3798 809380 science optional jellyfish_2.3.1-6+b1_amd64.deb 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libjellyfish-2.0-2-dbgsym libjellyfish-2.0-dev libjellyfish-perl libjellyfish-perl-dbgsym python3-dna-jellyfish python3-dna-jellyfish-dbgsym Architecture: amd64 Version: 2.3.1-6+b1 Binary-Only-Changes: jellyfish (2.3.1-6+b1) perl-5.44; urgency=low, binary-only=yes . * Binary-only non-maintainer upload for amd64; no source changes. * Rebuild for Perl 5.44 . -- Debian Perl autobuilder Tue, 21 Apr 2026 18:08:06 +0000 Checksums-Md5: 8bf02722cc8b2d64b38c580aea223006 7686024 jellyfish-dbgsym_2.3.1-6+b1_amd64.deb a604b54d55a213e5ef415af5d43b3798 809380 jellyfish_2.3.1-6+b1_amd64.deb afc614e9a535fdb5a1b9dd357d9fc711 539716 libjellyfish-2.0-2-dbgsym_2.3.1-6+b1_amd64.deb b94150c0473203645b65834a47ade17b 66356 libjellyfish-2.0-2_2.3.1-6+b1_amd64.deb 87c9afe45d6cfb6c41a50b4f1c3e2a54 137136 libjellyfish-2.0-dev_2.3.1-6+b1_amd64.deb c8f16960623c86f064be0103cb0716cc 350104 libjellyfish-perl-dbgsym_2.3.1-6+b1_amd64.deb 807f20b33458e2aa8aae32d928723bec 56780 libjellyfish-perl_2.3.1-6+b1_amd64.deb 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python3-dna-jellyfish_2.3.1-6+b1_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Fri, 26 Jun 2026 23:43:12 +0000 Build-Path: /build/jellyfish-yWEPpL/jellyfish-2.3.1 Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: apt (= 3.3.1), architecture-properties (= 0.2.6+b2), autoconf (= 2.73-2), autoconf-archive (= 20241016-3), automake (= 1:1.18.1-4), autopoint (= 1.0-1), autotools-dev (= 20240727.1+nmu1), base-files (= 14.2), base-passwd (= 3.6.8), bash (= 5.3-3), bc (= 1.07.1-4), 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), ca-certificates (= 20260601), chrpath (= 0.18-1), 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), d-shlibs (= 0.109), dash (= 0.5.12-12), debconf (= 1.5.92), debhelper (= 14.2), debian-archive-keyring (= 2025.1), debianutils (= 5.23.2), dh-autoreconf (= 22), dh-python (= 7.20260623), dh-strip-nondeterminism (= 1.15.1-1), diffutils (= 1:3.12-1), dos2unix (= 7.5.4-1), dpkg (= 1.23.7), dpkg-dev (= 1.23.7), dwz (= 0.16-4), file (= 1:5.47-4), findutils (= 4.10.0-4), g++ (= 4:15.2.0-5+b1), g++-15 (= 15.3.0-1), g++-15-x86-64-linux-gnu (= 15.3.0-1), g++-x86-64-linux-gnu (= 4:15.2.0-5+b1), gcc (= 4:15.2.0-5+b1), gcc-15 (= 15.3.0-1), gcc-15-base (= 15.3.0-1), gcc-15-x86-64-linux-gnu (= 15.3.0-1), gcc-16-base (= 16.1.0-2), gcc-x86-64-linux-gnu (= 4:15.2.0-5+b1), gettext (= 1.0-1), gettext-base (= 1.0-1), grep (= 3.12-1), groff-base (= 1.24.1-1), gzip (= 1.13-1), hostname (= 3.25), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), krb5-multidev (= 1.22.1-3), libacl1 (= 2.3.2-3), libapt-pkg7.0 (= 3.3.1), libarchive-zip-perl (= 1.68-1), libasan8 (= 16.1.0-2), libatomic1 (= 16.1.0-2), libattr1 (= 1:2.5.2-4), libaudit-common (= 1:4.1.2-1), libaudit1 (= 1:4.1.2-1+b1), libbinutils (= 2.46.50.20260617-1), 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), libcc1-0 (= 16.1.0-2), libcom-err2 (= 1.47.4-1), libcrypt-dev (= 1:4.5.1-1+b1), libcrypt1 (= 1:4.5.1-1+b1), libctf-nobfd0 (= 2.46.50.20260617-1), libctf0 (= 2.46.50.20260617-1), libcurl3t64-gnutls (= 8.21.0-1), libcurl4-gnutls (= 8.21.0-1), libcurl4-gnutls-dev (= 8.21.0-1), libdb5.3t64 (= 5.3.28+dfsg2-11+b1), libdebconfclient0 (= 0.283), libdebhelper-perl (= 14.2), libdeflate-dev (= 1.25-1), libdeflate0 (= 1.25-1), libdpkg-perl (= 1.23.7), libelf1t64 (= 0.195-1), libevent-2.1-7t64 (= 2.1.12-stable-10+b2), libexpat1 (= 2.8.2-1), libexpat1-dev (= 2.8.2-1), libffi8 (= 3.5.2-4), libfile-stripnondeterminism-perl (= 1.15.1-1), libgcc-15-dev (= 15.3.0-1), libgcc-s1 (= 16.1.0-2), libgdbm-compat4t64 (= 1.26-1+b2), libgdbm6t64 (= 1.26-1+b2), 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), 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), libisl23 (= 0.27-2), libitm1 (= 16.1.0-2), libjansson4 (= 2.15.0-1), libjs-sphinxdoc (= 9.1.0-4), 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), libldap2 (= 2.6.13+dfsg-1), 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), libncurses6 (= 6.6+20251231-1+b1), libncursesw6 (= 6.6+20251231-1+b1), 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 (= 1.7.0-6), libpam-modules-bin (= 1.7.0-6), libpam-runtime (= 1.7.0-6), libpam0g (= 1.7.0-6), libpcre2-8-0 (= 10.46-1+b2), libperl-dev (= 5.44.0~rc1-1), libperl5.44 (= 5.44.0~rc1-1), libpipeline1 (= 1.5.8-3), libpkgconf7 (= 2.5.1-4), libproc2-0 (= 2:4.0.4-9+b2), libpsl-dev (= 0.22.0-1), libpsl5t64 (= 0.22.0-1), libpython3-all-dev (= 3.13.9-3+b1), libpython3-dev (= 3.13.9-3+b1), libpython3-stdlib (= 3.13.9-3+b1), libpython3.13 (= 3.13.14-1), libpython3.13-dev (= 3.13.14-1), libpython3.13-minimal (= 3.13.14-1), libpython3.13-stdlib (= 3.13.14-1), libpython3.14 (= 3.14.6-1), libpython3.14-dev (= 3.14.6-1), libpython3.14-minimal (= 3.14.6-1), libpython3.14-stdlib (= 3.14.6-1), libquadmath0 (= 16.1.0-2), libreadline8t64 (= 8.3-4), librtmp-dev (= 2.6-1), librtmp1 (= 2.6-1), libruby (= 1:3.3+b1), libruby3.3 (= 3.3.8-2.2), libsasl2-2 (= 2.1.28+dfsg1-11), libsasl2-modules-db (= 2.1.28+dfsg1-11), libseccomp2 (= 2.6.0-2+b1), libselinux1 (= 3.10-1), libsframe3 (= 2.46.50.20260617-1), libsmartcols1 (= 2.42.2-1), libsqlite3-0 (= 3.53.2-1), 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), libsystemd0 (= 261-1), libtasn1-6 (= 4.21.0-2+b1), libtasn1-6-dev (= 4.21.0-2+b1), libtinfo6 (= 6.6+20251231-1+b1), libtool (= 2.5.4-11), libtsan2 (= 16.1.0-2), libubsan1 (= 16.1.0-2), libuchardet0 (= 0.0.8-2+b2), libudev1 (= 261-1), libunbound8 (= 1.25.1-1), libunistring-dev (= 1.4.2-1), libunistring5 (= 1.4.2-1), libuuid1 (= 2.42.2-1), libxml2-16 (= 2.15.3+dfsg-1), libxxhash0 (= 0.8.3-2+b2), libyaml-0-2 (= 0.2.5-2+b1), libzstd-dev (= 1.5.7+dfsg-3+b2), libzstd1 (= 1.5.7+dfsg-3+b2), linux-libc-dev (= 7.0.13-1), m4 (= 1.4.21-1), make (= 4.4.1-3), man-db (= 2.13.1-1), mawk (= 1.3.4.20260302-1), media-types (= 14.0.0), ncurses-base (= 6.6+20251231-1), ncurses-bin (= 6.6+20251231-1+b1), netbase (= 6.5), nettle-dev (= 3.10.2-1+b1), openssl (= 3.6.3-1), openssl-provider-legacy (= 3.6.3-1), patch (= 2.8-2), perl (= 5.44.0~rc1-1), perl-base (= 5.44.0~rc1-1), perl-modules-5.44 (= 5.44.0~rc1-1), pkgconf (= 2.5.1-4), pkgconf-bin (= 2.5.1-4), po-debconf (= 1.0.22), procps (= 2:4.0.4-9+b2), python3 (= 3.13.9-3+b1), python3-all (= 3.13.9-3+b1), python3-all-dev (= 3.13.9-3+b1), python3-autocommand (= 2.2.2-4), python3-dev (= 3.13.9-3+b1), python3-inflect (= 7.5.0-1), python3-jaraco.context (= 6.0.1-2), python3-jaraco.functools (= 4.1.0-1), python3-jaraco.text (= 4.0.0-1), python3-minimal (= 3.13.9-3+b1), python3-more-itertools (= 10.8.0-1), python3-pkg-resources (= 78.1.1-0.1), python3-setuptools (= 78.1.1-0.1), python3-typeguard (= 4.4.4-2), python3-typing-extensions (= 4.15.0-2), python3-zipp (= 3.23.0-1), python3.13 (= 3.13.14-1), python3.13-dev (= 3.13.14-1), python3.13-minimal (= 3.13.14-1), python3.14 (= 3.14.6-1), python3.14-dev (= 3.14.6-1), python3.14-minimal (= 3.14.6-1), rake (= 13.4.2-1), readline-common (= 8.3-4), rpcsvc-proto (= 1.4.4-1), ruby (= 1:3.3+b1), ruby-csv (= 3.3.5-1), ruby-did-you-mean (= 2.0.0-1), ruby-net-telnet (= 0.2.0-1), ruby-ruby2-keywords (= 0.0.5-1), ruby-rubygems (= 3.6.7-2), ruby-webrick (= 1.9.2-1), ruby-xmlrpc (= 0.3.3-2), ruby3.3 (= 3.3.8-2.2), rubygems-integration (= 1.19), samtools (= 1.22.1-1), sed (= 4.9-3), sensible-utils (= 0.0.26), sqv (= 1.3.0-5+b2), swig (= 4.4.1-2), sysvinit-utils (= 3.18-1), tar (= 1.35+dfsg-4), time (= 1.10-0.1), tzdata (= 2026b-1), util-linux (= 2.42.2-1), xz-utils (= 5.8.3-1), yaggo (= 1.5.11-2), 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="1776794886" +------------------------------------------------------------------------------+ | Package contents Fri, 26 Jun 2026 23:43:13 +0000 | +------------------------------------------------------------------------------+ jellyfish-dbgsym_2.3.1-6+b1_amd64.deb ------------------------------------- new Debian package, version 2.0. size 7686024 bytes: control archive=760 bytes. 518 bytes, 12 lines control 510 bytes, 5 lines md5sums Package: jellyfish-dbgsym Source: jellyfish (2.3.1-6) Version: 2.3.1-6+b1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 8847 Depends: jellyfish (= 2.3.1-6+b1) Section: debug Priority: optional Description: debug symbols for jellyfish Build-Ids: 31c3b810732764c2bccc3a1253d9b82fbca1e776 56e33e98ed13a157ee892bb089106537ea7ff188 9f1a12581a8d96fd1d01d901ce82e3d705c1b092 c31077f0c5d92933075e2573ca5f248c30d29658 drwxr-xr-x root/root 0 2026-04-21 18:08 ./ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/31/ -rw-r--r-- root/root 66024 2026-04-21 18:08 ./usr/lib/debug/.build-id/31/c3b810732764c2bccc3a1253d9b82fbca1e776.debug drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/56/ -rw-r--r-- root/root 1522584 2026-04-21 18:08 ./usr/lib/debug/.build-id/56/e33e98ed13a157ee892bb089106537ea7ff188.debug drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/9f/ -rw-r--r-- root/root 7289240 2026-04-21 18:08 ./usr/lib/debug/.build-id/9f/1a12581a8d96fd1d01d901ce82e3d705c1b092.debug drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/c3/ -rw-r--r-- root/root 84928 2026-04-21 18:08 ./usr/lib/debug/.build-id/c3/1077f0c5d92933075e2573ca5f248c30d29658.debug drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 79120 2026-04-21 18:08 ./usr/lib/debug/.dwz/x86_64-linux-gnu/jellyfish.debug drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/ lrwxrwxrwx root/root 0 2026-04-21 18:08 ./usr/share/doc/jellyfish-dbgsym -> jellyfish jellyfish_2.3.1-6+b1_amd64.deb ------------------------------ new Debian package, version 2.0. size 809380 bytes: control archive=1372 bytes. 1183 bytes, 24 lines control 988 bytes, 14 lines md5sums Package: jellyfish Source: jellyfish (2.3.1-6) Version: 2.3.1-6+b1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 2558 Depends: libc6 (>= 2.38), libgcc-s1 (>= 3.0), libhts3t64 (>= 1.17), libjellyfish-2.0-2 (= 2.3.1-6+b1), libstdc++6 (>= 14) Section: science Priority: optional Homepage: https://www.genome.umd.edu/jellyfish.html Description: count k-mers in DNA sequences JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA. A k-mer is a substring of length k, and counting the occurrences of all such substrings is a central step in many analyses of DNA sequence. JELLYFISH can count k-mers using an order of magnitude less memory and an order of magnitude faster than other k-mer counting packages by using an efficient encoding of a hash table and by exploiting the "compare-and-swap" CPU instruction to increase parallelism. . JELLYFISH is a command-line program that reads FASTA and multi-FASTA files containing DNA sequences. It outputs its k-mer counts in an binary format, which can be translated into a human-readable text format using the "jellyfish dump" command. drwxr-xr-x root/root 0 2026-04-21 18:08 ./ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/bin/ -rwxr-xr-x root/root 351736 2026-04-21 18:08 ./usr/bin/jellyfish drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/jellyfish/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/jellyfish/bin/ -rwxr-xr-x root/root 27168 2026-04-21 18:08 ./usr/lib/jellyfish/bin/fastq2sam -rwxr-xr-x root/root 39656 2026-04-21 18:08 ./usr/lib/jellyfish/bin/generate_sequence -rwxr-xr-x root/root 1940160 2026-04-21 18:08 ./usr/lib/jellyfish/bin/test_all drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc-base/ -rw-r--r-- root/root 987 2026-04-21 17:56 ./usr/share/doc-base/jellyfish.jellyfish drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/jellyfish/ -rw-r--r-- root/root 321 2026-04-21 17:56 ./usr/share/doc/jellyfish/README.test -rw-r--r-- root/root 207 2026-04-21 18:08 ./usr/share/doc/jellyfish/changelog.Debian.amd64.gz -rw-r--r-- root/root 1815 2026-04-21 18:08 ./usr/share/doc/jellyfish/changelog.Debian.gz -rw-r--r-- root/root 284 2023-12-06 21:50 ./usr/share/doc/jellyfish/changelog.gz -rw-r--r-- root/root 6395 2026-04-21 17:56 ./usr/share/doc/jellyfish/copyright -rw-r--r-- root/root 221453 2023-12-06 21:50 ./usr/share/doc/jellyfish/jellyfish.pdf.gz -rw-r--r-- root/root 1665 2026-04-21 17:56 ./usr/share/doc/jellyfish/run-unit-test drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/lintian/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 144 2026-04-21 17:56 ./usr/share/lintian/overrides/jellyfish drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/man/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/man/man1/ -rw-r--r-- root/root 4554 2026-04-21 18:08 ./usr/share/man/man1/jellyfish.1.gz libjellyfish-2.0-2-dbgsym_2.3.1-6+b1_amd64.deb ---------------------------------------------- new Debian package, version 2.0. size 539716 bytes: control archive=568 bytes. 438 bytes, 13 lines control 106 bytes, 1 lines md5sums Package: libjellyfish-2.0-2-dbgsym Source: jellyfish (2.3.1-6) Version: 2.3.1-6+b1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 573 Depends: libjellyfish-2.0-2 (= 2.3.1-6+b1) Section: debug Priority: optional Multi-Arch: same Description: debug symbols for libjellyfish-2.0-2 Build-Ids: b8fcbdcd8526de408f172d71033dc571936a3c10 drwxr-xr-x root/root 0 2026-04-21 18:08 ./ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/b8/ -rw-r--r-- root/root 576184 2026-04-21 18:08 ./usr/lib/debug/.build-id/b8/fcbdcd8526de408f172d71033dc571936a3c10.debug drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/ lrwxrwxrwx root/root 0 2026-04-21 18:08 ./usr/share/doc/libjellyfish-2.0-2-dbgsym -> libjellyfish-2.0-2 libjellyfish-2.0-2_2.3.1-6+b1_amd64.deb --------------------------------------- new Debian package, version 2.0. size 66356 bytes: control archive=1324 bytes. 1386 bytes, 31 lines control 503 bytes, 6 lines md5sums 49 bytes, 1 lines shlibs 65 bytes, 2 lines triggers Package: libjellyfish-2.0-2 Source: jellyfish (2.3.1-6) Version: 2.3.1-6+b1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 204 Depends: libc6 (>= 2.38), libgcc-s1 (>= 3.0), libstdc++6 (>= 13.1) Conflicts: libjellyfish-2.0-2t64 Replaces: libjellyfish-2.0-2t64 Provides: libjellfish-2.0-2t64 (= 2.3.1-6+b1) Section: libs Priority: optional Multi-Arch: same Homepage: https://www.genome.umd.edu/jellyfish.html Description: count k-mers in DNA sequences (dynamic library of jellyfish) JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA. A k-mer is a substring of length k, and counting the occurrences of all such substrings is a central step in many analyses of DNA sequence. JELLYFISH can count k-mers using an order of magnitude less memory and an order of magnitude faster than other k-mer counting packages by using an efficient encoding of a hash table and by exploiting the "compare-and-swap" CPU instruction to increase parallelism. . JELLYFISH is a command-line program that reads FASTA and multi-FASTA files containing DNA sequences. It outputs its k-mer counts in an binary format, which can be translated into a human-readable text format using the "jellyfish dump" command. . This package contains the dynamic library the main executable of jellyfish is linked to. drwxr-xr-x root/root 0 2026-04-21 18:08 ./ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/ lrwxrwxrwx root/root 0 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so.2 -> libjellyfish-2.0.so.2.0.0 -rw-r--r-- root/root 182296 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so.2.0.0 drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/libjellyfish-2.0-2/ -rw-r--r-- root/root 207 2026-04-21 18:08 ./usr/share/doc/libjellyfish-2.0-2/changelog.Debian.amd64.gz -rw-r--r-- root/root 1816 2026-04-21 18:08 ./usr/share/doc/libjellyfish-2.0-2/changelog.Debian.gz -rw-r--r-- root/root 284 2023-12-06 21:50 ./usr/share/doc/libjellyfish-2.0-2/changelog.gz -rw-r--r-- root/root 6395 2026-04-21 17:56 ./usr/share/doc/libjellyfish-2.0-2/copyright drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/lintian/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 178 2026-04-21 17:56 ./usr/share/lintian/overrides/libjellyfish-2.0-2 libjellyfish-2.0-dev_2.3.1-6+b1_amd64.deb ----------------------------------------- new Debian package, version 2.0. size 137136 bytes: control archive=2548 bytes. 1231 bytes, 27 lines control 4278 bytes, 57 lines md5sums Package: libjellyfish-2.0-dev Source: jellyfish (2.3.1-6) Version: 2.3.1-6+b1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 691 Depends: libjellyfish-2.0-2 (= 2.3.1-6+b1) Section: libdevel Priority: optional Homepage: https://www.genome.umd.edu/jellyfish.html Description: count k-mers in DNA sequences (development files of jellyfish) JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA. A k-mer is a substring of length k, and counting the occurrences of all such substrings is a central step in many analyses of DNA sequence. JELLYFISH can count k-mers using an order of magnitude less memory and an order of magnitude faster than other k-mer counting packages by using an efficient encoding of a hash table and by exploiting the "compare-and-swap" CPU instruction to increase parallelism. . JELLYFISH is a command-line program that reads FASTA and multi-FASTA files containing DNA sequences. It outputs its k-mer counts in an binary format, which can be translated into a human-readable text format using the "jellyfish dump" command. . This package contains the development files (static library and header files) drwxr-xr-x root/root 0 2026-04-21 18:08 ./ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/include/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/include/jellyfish/ -rw-r--r-- root/root 1596 2026-04-21 18:08 ./usr/include/jellyfish/allocators_mmap.hpp -rw-r--r-- root/root 5898 2026-04-21 18:08 ./usr/include/jellyfish/atomic_bits_array.hpp -rw-r--r-- root/root 4770 2026-04-21 18:08 ./usr/include/jellyfish/atomic_field.hpp -rw-r--r-- root/root 1392 2026-04-21 18:08 ./usr/include/jellyfish/atomic_gcc.hpp -rw-r--r-- root/root 272 2026-04-21 18:08 ./usr/include/jellyfish/backtrace.hpp -rw-r--r-- root/root 6829 2026-04-21 18:08 ./usr/include/jellyfish/binary_dumper.hpp -rw-r--r-- root/root 3480 2026-04-21 18:08 ./usr/include/jellyfish/bloom_common.hpp -rw-r--r-- root/root 6778 2026-04-21 18:08 ./usr/include/jellyfish/bloom_counter2.hpp -rw-r--r-- root/root 5447 2026-04-21 18:08 ./usr/include/jellyfish/bloom_filter.hpp -rw-r--r-- root/root 5211 2026-04-21 18:08 ./usr/include/jellyfish/circular_buffer.hpp -rw-r--r-- root/root 2408 2026-04-21 18:08 ./usr/include/jellyfish/compare_and_swap.hpp -rw-r--r-- root/root 7472 2026-04-21 18:08 ./usr/include/jellyfish/cooperative_pool.hpp -rw-r--r-- root/root 8494 2026-04-21 18:08 ./usr/include/jellyfish/cooperative_pool2.hpp -rw-r--r-- root/root 4125 2026-04-21 18:08 ./usr/include/jellyfish/cpp_array.hpp -rw-r--r-- root/root 2742 2026-04-21 18:08 ./usr/include/jellyfish/divisor.hpp -rw-r--r-- root/root 2710 2026-04-21 18:08 ./usr/include/jellyfish/dumper.hpp -rw-r--r-- root/root 2257 2026-04-21 18:08 ./usr/include/jellyfish/err.hpp -rw-r--r-- root/root 4033 2026-04-21 18:08 ./usr/include/jellyfish/file_header.hpp -rw-r--r-- root/root 4637 2026-04-21 18:08 ./usr/include/jellyfish/generator_manager.hpp -rw-r--r-- root/root 6814 2026-04-21 18:08 ./usr/include/jellyfish/generic_file_header.hpp -rw-r--r-- root/root 8326 2026-04-21 18:08 ./usr/include/jellyfish/hash_counter.hpp -rw-r--r-- root/root 7025 2026-04-21 18:08 ./usr/include/jellyfish/int128.hpp -rw-r--r-- root/root 1118 2026-04-21 18:08 ./usr/include/jellyfish/jellyfish.hpp -rw-r--r-- root/root 61697 2026-04-21 18:08 ./usr/include/jellyfish/json.h -rw-r--r-- root/root 40578 2026-04-21 18:08 ./usr/include/jellyfish/large_hash_array.hpp -rw-r--r-- root/root 7564 2026-04-21 18:08 ./usr/include/jellyfish/large_hash_iterator.hpp -rw-r--r-- root/root 4328 2026-04-21 18:08 ./usr/include/jellyfish/locks_pthread.hpp -rw-r--r-- root/root 5181 2026-04-21 18:08 ./usr/include/jellyfish/mapped_file.hpp -rw-r--r-- root/root 23839 2026-04-21 18:08 ./usr/include/jellyfish/mer_dna.hpp -rw-r--r-- root/root 1296 2026-04-21 18:08 ./usr/include/jellyfish/mer_dna_bloom_counter.hpp -rw-r--r-- root/root 3076 2026-04-21 18:08 ./usr/include/jellyfish/mer_heap.hpp -rw-r--r-- root/root 2588 2026-04-21 18:08 ./usr/include/jellyfish/mer_iterator.hpp -rw-r--r-- root/root 9371 2026-04-21 18:08 ./usr/include/jellyfish/mer_overlap_sequence_parser.hpp -rw-r--r-- root/root 3247 2026-04-21 18:08 ./usr/include/jellyfish/mer_qual_iterator.hpp -rw-r--r-- root/root 8066 2026-04-21 18:08 ./usr/include/jellyfish/misc.hpp -rw-r--r-- root/root 10025 2026-04-21 18:08 ./usr/include/jellyfish/offsets_key_value.hpp -rw-r--r-- root/root 960 2026-04-21 18:08 ./usr/include/jellyfish/parser_common.hpp -rw-r--r-- root/root 12859 2026-04-21 18:08 ./usr/include/jellyfish/rectangular_binary_matrix.hpp -rw-r--r-- root/root 2311 2026-04-21 18:08 ./usr/include/jellyfish/sam_format.hpp -rw-r--r-- root/root 3504 2026-04-21 18:08 ./usr/include/jellyfish/simple_circular_buffer.hpp -rw-r--r-- root/root 3346 2026-04-21 18:08 ./usr/include/jellyfish/sorted_dumper.hpp -rw-r--r-- root/root 5069 2026-04-21 18:08 ./usr/include/jellyfish/stdio_filebuf.hpp -rw-r--r-- root/root 602 2026-04-21 18:08 ./usr/include/jellyfish/storage.hpp -rw-r--r-- root/root 2036 2026-04-21 18:08 ./usr/include/jellyfish/stream_iterator.hpp -rw-r--r-- root/root 6318 2026-04-21 18:08 ./usr/include/jellyfish/stream_manager.hpp -rw-r--r-- root/root 2063 2026-04-21 18:08 ./usr/include/jellyfish/text_dumper.hpp -rw-r--r-- root/root 994 2026-04-21 18:08 ./usr/include/jellyfish/thread_exec.hpp -rw-r--r-- root/root 1884 2026-04-21 18:08 ./usr/include/jellyfish/time.hpp -rw-r--r-- root/root 1599 2026-04-21 18:08 ./usr/include/jellyfish/token_ring.hpp -rw-r--r-- root/root 6761 2026-04-21 18:08 ./usr/include/jellyfish/whole_sequence_parser.hpp drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/ -rw-r--r-- root/root 319334 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/libjellyfish-2.0.a -rw-r--r-- root/root 1006 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/libjellyfish-2.0.la lrwxrwxrwx root/root 0 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/libjellyfish-2.0.so -> libjellyfish-2.0.so.2.0.0 drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/pkgconfig/ -rw-r--r-- root/root 273 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/pkgconfig/jellyfish-2.0.pc drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/libjellyfish-2.0-dev/ -rw-r--r-- root/root 207 2026-04-21 18:08 ./usr/share/doc/libjellyfish-2.0-dev/changelog.Debian.amd64.gz -rw-r--r-- root/root 1818 2026-04-21 18:08 ./usr/share/doc/libjellyfish-2.0-dev/changelog.Debian.gz -rw-r--r-- root/root 284 2023-12-06 21:50 ./usr/share/doc/libjellyfish-2.0-dev/changelog.gz -rw-r--r-- root/root 6395 2026-04-21 17:56 ./usr/share/doc/libjellyfish-2.0-dev/copyright libjellyfish-perl-dbgsym_2.3.1-6+b1_amd64.deb --------------------------------------------- new Debian package, version 2.0. size 350104 bytes: control archive=568 bytes. 435 bytes, 13 lines control 106 bytes, 1 lines md5sums Package: libjellyfish-perl-dbgsym Source: jellyfish (2.3.1-6) Version: 2.3.1-6+b1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 370 Depends: libjellyfish-perl (= 2.3.1-6+b1) Section: debug Priority: optional Multi-Arch: same Description: debug symbols for libjellyfish-perl Build-Ids: 079917168a110d8bac13bb18b46fb52097e31380 drwxr-xr-x root/root 0 2026-04-21 18:08 ./ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/07/ -rw-r--r-- root/root 367760 2026-04-21 18:08 ./usr/lib/debug/.build-id/07/9917168a110d8bac13bb18b46fb52097e31380.debug drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/ lrwxrwxrwx root/root 0 2026-04-21 18:08 ./usr/share/doc/libjellyfish-perl-dbgsym -> libjellyfish-perl libjellyfish-perl_2.3.1-6+b1_amd64.deb -------------------------------------- new Debian package, version 2.0. size 56780 bytes: control archive=1168 bytes. 1254 bytes, 27 lines control 494 bytes, 6 lines md5sums Package: libjellyfish-perl Source: jellyfish (2.3.1-6) Version: 2.3.1-6+b1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 176 Depends: perl (>= 5.44.0~rc1-1), perlapi-5.44.0, libc6 (>= 2.38), libgcc-s1 (>= 3.0) Section: perl Priority: optional Multi-Arch: same Homepage: https://www.genome.umd.edu/jellyfish.html Description: count k-mers in DNA sequences (Perl bindings of jellyfish) JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA. A k-mer is a substring of length k, and counting the occurrences of all such substrings is a central step in many analyses of DNA sequence. JELLYFISH can count k-mers using an order of magnitude less memory and an order of magnitude faster than other k-mer counting packages by using an efficient encoding of a hash table and by exploiting the "compare-and-swap" CPU instruction to increase parallelism. . JELLYFISH is a command-line program that reads FASTA and multi-FASTA files containing DNA sequences. It outputs its k-mer counts in an binary format, which can be translated into a human-readable text format using the "jellyfish dump" command. . This package contains the Perl bindings of jellyfish. drwxr-xr-x root/root 0 2026-04-21 18:08 ./ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/perl5/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/perl5/5.44/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/perl5/5.44/auto/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/perl5/5.44/auto/jellyfish/ -rw-r--r-- root/root 146664 2026-04-21 18:08 ./usr/lib/x86_64-linux-gnu/perl5/5.44/auto/jellyfish/jellyfish.so drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/libjellyfish-perl/ -rw-r--r-- root/root 207 2026-04-21 18:08 ./usr/share/doc/libjellyfish-perl/changelog.Debian.amd64.gz -rw-r--r-- root/root 1817 2026-04-21 18:08 ./usr/share/doc/libjellyfish-perl/changelog.Debian.gz -rw-r--r-- root/root 284 2023-12-06 21:50 ./usr/share/doc/libjellyfish-perl/changelog.gz -rw-r--r-- root/root 6395 2026-04-21 17:56 ./usr/share/doc/libjellyfish-perl/copyright drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/perl5/ -rw-r--r-- root/root 7414 2026-04-21 18:08 ./usr/share/perl5/jellyfish.pm python3-dna-jellyfish-dbgsym_2.3.1-6+b1_amd64.deb ------------------------------------------------- new Debian package, version 2.0. size 639240 bytes: control archive=656 bytes. 471 bytes, 12 lines control 310 bytes, 3 lines md5sums Package: python3-dna-jellyfish-dbgsym Source: jellyfish (2.3.1-6) Version: 2.3.1-6+b1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 691 Depends: python3-dna-jellyfish (= 2.3.1-6+b1) Section: debug Priority: optional Description: debug symbols for python3-dna-jellyfish Build-Ids: 07245b1951b54b2af0359dd68092d2e465d07198 b2565375bddb384683274614ac927ce3db0f763e drwxr-xr-x root/root 0 2026-04-21 18:08 ./ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/07/ -rw-r--r-- root/root 289680 2026-04-21 18:08 ./usr/lib/debug/.build-id/07/245b1951b54b2af0359dd68092d2e465d07198.debug drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.build-id/b2/ -rw-r--r-- root/root 288904 2026-04-21 18:08 ./usr/lib/debug/.build-id/b2/565375bddb384683274614ac927ce3db0f763e.debug drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 114360 2026-04-21 18:08 ./usr/lib/debug/.dwz/x86_64-linux-gnu/python3-dna-jellyfish.debug drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/ lrwxrwxrwx root/root 0 2026-04-21 18:08 ./usr/share/doc/python3-dna-jellyfish-dbgsym -> python3-dna-jellyfish python3-dna-jellyfish_2.3.1-6+b1_amd64.deb ------------------------------------------ new Debian package, version 2.0. size 65840 bytes: control archive=1644 bytes. 1312 bytes, 26 lines control 975 bytes, 10 lines md5sums 297 bytes, 12 lines * postinst #!/bin/sh 435 bytes, 12 lines * prerm #!/bin/sh Package: python3-dna-jellyfish Source: jellyfish (2.3.1-6) Version: 2.3.1-6+b1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 333 Depends: python3 (<< 3.15), python3 (>= 3.13~), python3:any, libc6 (>= 2.38), libgcc-s1 (>= 3.0), libjellyfish-2.0-2 (>= 2.3.1), libstdc++6 (>= 13.1) Section: python Priority: optional Homepage: https://www.genome.umd.edu/jellyfish.html Description: count k-mers in DNA sequences (Python bindings of jellyfish) JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA. A k-mer is a substring of length k, and counting the occurrences of all such substrings is a central step in many analyses of DNA sequence. JELLYFISH can count k-mers using an order of magnitude less memory and an order of magnitude faster than other k-mer counting packages by using an efficient encoding of a hash table and by exploiting the "compare-and-swap" CPU instruction to increase parallelism. . JELLYFISH is a command-line program that reads FASTA and multi-FASTA files containing DNA sequences. It outputs its k-mer counts in an binary format, which can be translated into a human-readable text format using the "jellyfish dump" command. . This package contains the Python bindings of jellyfish. drwxr-xr-x root/root 0 2026-04-21 18:08 ./ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/python3/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/python3/dist-packages/ -rw-r--r-- root/root 149856 2026-04-21 18:08 ./usr/lib/python3/dist-packages/_dna_jellyfish.cpython-313-x86_64-linux-gnu.so -rw-r--r-- root/root 149856 2026-04-21 18:08 ./usr/lib/python3/dist-packages/_dna_jellyfish.cpython-314-x86_64-linux-gnu.so drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/lib/python3/dist-packages/dna_jellyfish-0.0.1.egg-info/ -rw-r--r-- root/root 160 2026-04-21 18:08 ./usr/lib/python3/dist-packages/dna_jellyfish-0.0.1.egg-info/PKG-INFO -rw-r--r-- root/root 1 2026-04-21 18:08 ./usr/lib/python3/dist-packages/dna_jellyfish-0.0.1.egg-info/dependency_links.txt -rw-r--r-- root/root 29 2026-04-21 18:08 ./usr/lib/python3/dist-packages/dna_jellyfish-0.0.1.egg-info/top_level.txt -rw-r--r-- root/root 12643 2026-04-21 18:08 ./usr/lib/python3/dist-packages/dna_jellyfish.py drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/ drwxr-xr-x root/root 0 2026-04-21 18:08 ./usr/share/doc/python3-dna-jellyfish/ -rw-r--r-- root/root 207 2026-04-21 18:08 ./usr/share/doc/python3-dna-jellyfish/changelog.Debian.amd64.gz -rw-r--r-- root/root 1821 2026-04-21 18:08 ./usr/share/doc/python3-dna-jellyfish/changelog.Debian.gz -rw-r--r-- root/root 284 2023-12-06 21:50 ./usr/share/doc/python3-dna-jellyfish/changelog.gz -rw-r--r-- root/root 6395 2026-04-21 17:56 ./usr/share/doc/python3-dna-jellyfish/copyright +------------------------------------------------------------------------------+ | Post Build Fri, 26 Jun 2026 23:43:14 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Fri, 26 Jun 2026 23:43:14 +0000 | +------------------------------------------------------------------------------+ Purging /build/jellyfish-yWEPpL Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Fri, 26 Jun 2026 23:43:15 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: any Build-Space: 1822744 Build-Time: 300 Distribution: perl-5.44 Host Architecture: amd64 Install-Time: 20 Job: /srv/debomatic/incoming/jellyfish_2.3.1-6.dsc Machine Architecture: amd64 Package: jellyfish Package-Time: 328 Source-Version: 2.3.1-6 Space: 1822744 Status: successful Version: 2.3.1-6+b1 -------------------------------------------------------------------------------- Finished at 2026-06-26T23:43:13Z Build needed 00:05:28, 1822744k disk space