sbuild (Debian sbuild) 0.91.10 (27 June 2026) on carme.larted.org.uk +==============================================================================+ | shovill 1.1.0-11 (amd64) Mon, 29 Jun 2026 22:17:13 +0000 | +==============================================================================+ Package: shovill Version: 1.1.0-11 Source Version: 1.1.0-11 Distribution: perl-5.44-throwaway Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: full I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... +------------------------------------------------------------------------------+ | Chroot Setup Commands Mon, 29 Jun 2026 22:17:13 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup shovill_1.1.0-11 perl-5.44-throwaway amd64 ----------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup shovill_1.1.0-11 perl-5.44-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: Setting up apt archive... +------------------------------------------------------------------------------+ | Update chroot Mon, 29 Jun 2026 22:17:14 +0000 | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.44 InRelease [3039 B] Get:1 file:/srv/reprepro perl-5.44 InRelease [3039 B] Hit:2 http://deb.debian.org/debian unstable InRelease Hit:3 http://deb.debian.org/debian sid InRelease 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 Mon, 29 Jun 2026 22:17:15 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/shovill_1.1.0-11.dsc exists in /srv/debomatic/incoming; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Mon, 29 Jun 2026 22:17:15 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), build-essential, spades, skesa, megahit Filtered Build-Depends: debhelper-compat (= 13), build-essential, spades, skesa, megahit dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/shovill-u6ZR9g/resolver-O2X4vR/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/build/shovill-u6ZR9g/resolver-O2X4vR/apt_archive ./ InRelease Get:2 copy:/build/shovill-u6ZR9g/resolver-O2X4vR/apt_archive ./ Release [609 B] Ign:3 copy:/build/shovill-u6ZR9g/resolver-O2X4vR/apt_archive ./ Release.gpg Get:4 copy:/build/shovill-u6ZR9g/resolver-O2X4vR/apt_archive ./ Sources [643 B] Get:5 copy:/build/shovill-u6ZR9g/resolver-O2X4vR/apt_archive ./ Packages [663 B] Fetched 1915 B in 0s (131 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... Solving dependencies... The following additional packages will be installed: autoconf automake autopoint autotools-dev bamtools bsdextrautils bwa debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbamtools2.5.3 libboost-iostreams1.90.0 libboost-program-options1.90.0 libboost-timer1.90.0 libbrotli1 libcom-err2 libcurl3t64-gnutls libcurl4-gnutls libdebhelper-perl libdeflate0 libelf1t64 libexpat1 libfile-stripnondeterminism-perl libgssapi-krb5-2 libhts3t64 libhtscodecs2 libjsoncpp26 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libmagic-mgc libmagic1t64 libmbedcrypto16 libmbedtls21 libmbedx509-7 libncbi-vdb3 libncurses6 libnghttp2-14 libnghttp3-9 libngs-c++3 libngtcp2-16 libngtcp2-crypto-gnutls8 libnlopt0 libpipeline1 libproc2-0 libpsl5t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libpython3.14-minimal libpython3.14-stdlib libssh2-1t64 libssw0 libtool libuchardet0 libxml2-16 libyaml-0-2 m4 man-db media-types megahit ncbi-vdb-data netbase po-debconf procps python3 python3-all python3-joblib python3-minimal python3-packaging python3-yaml python3.13 python3.13-minimal python3.14 python3.14-minimal samtools sensible-utils skesa spades tzdata Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff krb5-doc krb5-user libtool-doc gfortran | fortran95-compiler m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python-joblib-doc python3.13-venv python3.13-doc binfmt-support python3.14-venv python3.14-doc cwltool Recommended packages: curl | wget | lynx ca-certificates libarchive-cpio-perl krb5-locales libgpm2 publicsuffix libltdl-dev libmail-sendmail-perl psmisc linux-sysctl-defaults python3-numpy python3-psutil python3-pytest The following NEW packages will be installed: autoconf automake autopoint autotools-dev bamtools bsdextrautils bwa debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbamtools2.5.3 libboost-iostreams1.90.0 libboost-program-options1.90.0 libboost-timer1.90.0 libbrotli1 libcom-err2 libcurl3t64-gnutls libcurl4-gnutls libdebhelper-perl libdeflate0 libelf1t64 libexpat1 libfile-stripnondeterminism-perl libgssapi-krb5-2 libhts3t64 libhtscodecs2 libjsoncpp26 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libmagic-mgc libmagic1t64 libmbedcrypto16 libmbedtls21 libmbedx509-7 libncbi-vdb3 libncurses6 libnghttp2-14 libnghttp3-9 libngs-c++3 libngtcp2-16 libngtcp2-crypto-gnutls8 libnlopt0 libpipeline1 libproc2-0 libpsl5t64 libpython3-stdlib libpython3.13-minimal libpython3.13-stdlib libpython3.14-minimal libpython3.14-stdlib libssh2-1t64 libssw0 libtool libuchardet0 libxml2-16 libyaml-0-2 m4 man-db media-types megahit ncbi-vdb-data netbase po-debconf procps python3 python3-all python3-joblib python3-minimal python3-packaging python3-yaml python3.13 python3.13-minimal python3.14 python3.14-minimal samtools sbuild-build-depends-main-dummy sensible-utils skesa spades tzdata 0 upgraded, 89 newly installed, 0 to remove and 0 not upgraded. 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unstable/main amd64 python3-packaging all 26.2-2 [84.2 kB] Get:86 http://deb.debian.org/debian unstable/main amd64 python3-yaml amd64 6.0.3-1 [186 kB] Get:87 http://deb.debian.org/debian unstable/main amd64 samtools amd64 1.22.1-1 [697 kB] Get:88 http://deb.debian.org/debian unstable/main amd64 skesa amd64 2.4.0-8+b1 [613 kB] Get:89 http://deb.debian.org/debian unstable/main amd64 spades amd64 4.0.0+really3.15.5+dfsg-3 [9261 kB] Preconfiguring packages ... Fetched 44.4 MB in 0s (155 MB/s) Selecting previously unselected package libexpat1:amd64. (Reading database ... 14526 files and directories currently installed.) Preparing to unpack .../libexpat1_2.8.2-1_amd64.deb ... Unpacking libexpat1:amd64 (2.8.2-1) ... Selecting previously unselected package libpython3.14-minimal:amd64. Preparing to unpack .../libpython3.14-minimal_3.14.6-1_amd64.deb ... Unpacking libpython3.14-minimal:amd64 (3.14.6-1) ... Selecting previously unselected package python3.14-minimal. Preparing to unpack .../python3.14-minimal_3.14.6-1_amd64.deb ... Unpacking python3.14-minimal (3.14.6-1) ... Setting up libpython3.14-minimal:amd64 (3.14.6-1) ... Setting up libexpat1:amd64 (2.8.2-1) ... Setting up python3.14-minimal (3.14.6-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 14882 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.14.6-1_amd64.deb ... Unpacking python3-minimal (3.14.6-1) ... 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Processing triggers for libc-bin (2.42-17) ... +------------------------------------------------------------------------------+ | Check architectures Mon, 29 Jun 2026 22:17:29 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any all) +------------------------------------------------------------------------------+ | Build environment Mon, 29 Jun 2026 22:17:29 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 7.0.10+deb14-amd64 #1 SMP PREEMPT_DYNAMIC Debian 7.0.10-1 (2026-05-27) amd64 (x86_64) Toolchain package versions: binutils_2.46.50.20260617-1 dpkg-dev_1.23.7 g++-15_15.3.0-1 gcc-15_15.3.0-1 libc6-dev_2.42-17 libstdc++-15-dev_15.3.0-1 libstdc++6_16.1.0-2 linux-libc-dev_7.0.13-1 Package versions: apt_3.3.1 autoconf_2.73-2 automake_1:1.18.1-4 autopoint_1.0-1 autotools-dev_20240727.1+nmu1 bamtools_2.5.3+dfsg-2 base-files_14.2 base-passwd_3.6.8 bash_5.3-3 binutils_2.46.50.20260617-1 binutils-common_2.46.50.20260617-1 binutils-x86-64-linux-gnu_2.46.50.20260617-1 bsdextrautils_2.42.2-1 build-essential_12.12 bwa_0.7.19-1 bzip2_1.0.8-6+b2 coreutils_9.10-1 cpp_4:15.2.0-5+b1 cpp-15_15.3.0-1 cpp-15-x86-64-linux-gnu_15.3.0-1 cpp-x86-64-linux-gnu_4:15.2.0-5+b1 dash_0.5.12-12 debconf_1.5.92 debhelper_14.2 debian-archive-keyring_2025.1 debianutils_5.23.2 dh-autoreconf_22 dh-strip-nondeterminism_1.15.1-1 diffutils_1:3.12-1 dirmngr_2.4.9-5 dpkg_1.23.7 dpkg-dev_1.23.7 dwz_0.16-4 eatmydata_131-2 file_1:5.47-4 findutils_4.10.0-4 g++_4:15.2.0-5+b1 g++-15_15.3.0-1 g++-15-x86-64-linux-gnu_15.3.0-1 g++-x86-64-linux-gnu_4:15.2.0-5+b1 gcc_4:15.2.0-5+b1 gcc-15_15.3.0-1 gcc-15-base_15.3.0-1 gcc-15-x86-64-linux-gnu_15.3.0-1 gcc-16-base_16.1.0-2 gcc-x86-64-linux-gnu_4:15.2.0-5+b1 gettext_1.0-1 gettext-base_1.0-1 gnupg_2.4.9-5 gnupg-l10n_2.4.9-5 gpg_2.4.9-5 gpg-agent_2.4.9-5 gpgconf_2.4.9-5 gpgsm_2.4.9-5 grep_3.12-1 groff-base_1.24.1-1 gzip_1.13-1 hostname_3.25 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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 libgmp10_2:6.3.0+dfsg-5+b2 libgnutls30t64_3.8.13-1 libgomp1_16.1.0-2 libgpg-error0_1.61-3 libgprofng0_2.46.50.20260617-1 libgssapi-krb5-2_1.22.1-3 libhogweed6t64_3.10.2-1+b1 libhts3t64_1.22.1+ds2-1+b2 libhtscodecs2_1.6.6-1 libhwasan0_16.1.0-2 libidn2-0_2.3.8-5 libisl23_0.27-2 libitm1_16.1.0-2 libjansson4_2.15.0-1 libjsoncpp26_1.9.7-4 libk5crypto3_1.22.1-3 libkeyutils1_1.6.3-6+b2 libkrb5-3_1.22.1-3 libkrb5support0_1.22.1-3 libksba8_1.8.0-3 libldap2_2.6.13+dfsg-1+b1 liblsan0_16.1.0-2 liblz4-1_1.10.0-10 liblzma5_5.8.3-1 libmagic-mgc_1:5.47-4 libmagic1t64_1:5.47-4 libmbedcrypto16_3.6.6-0.1 libmbedtls21_3.6.6-0.1 libmbedx509-7_3.6.6-0.1 libmd0_1.2.0-2 libmount1_2.42.2-1 libmpc3_1.3.1-3 libmpfr6_4.2.2-3 libncbi-vdb3_3.2.1+dfsg-2+b1 libncurses6_6.6+20251231-1+b1 libncursesw6_6.6+20251231-1+b1 libnettle8t64_3.10.2-1+b1 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shovill-examples deb science optional arch=all Checksums-Sha1: ff674f771dd46d766ee38d7d019b019160412d52 6252102 shovill_1.1.0.orig.tar.gz b009093026e305773b92d44a8d8e90128ac5f4f6 5728 shovill_1.1.0-11.debian.tar.xz Checksums-Sha256: b7323e6586238821202cf9644963e584e7397a5cee23e564d00b07fcb344ecd2 6252102 shovill_1.1.0.orig.tar.gz 9c1d11ad9413b8821511e18fa71686eebce505e676409ce87790c7bc4a85770f 5728 shovill_1.1.0-11.debian.tar.xz Files: 1e988851741ece73311ff1fddb412172 6252102 shovill_1.1.0.orig.tar.gz 2fb702c0a894703a88666cf7100d494f 5728 shovill_1.1.0-11.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmkIlaoRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEO+w//dhGZr2BzZMX9REB0gHyqDbUfJu4dHol4 mCWydT9BQ7P/OODpxBzyjlpQWsVsJgeH6cSNqTVCQOb7x5fs//nz03/NG6anJVlI q+Bp/tw275sea0tk0cawX78KDt8wJHugB+mJdHr9Cdt+r5C9UXvcYcBjCgIDaFdC ESrL2rjHmDEWgq49IeH0xneVJHIn1JzUh7oF4jPjuYFX86Tn33l1S8XnGfC6qcdT pzZfMtZioSk0oITUX/GyI/guWw/xxXZ8oHRvXnVInVEi3A558/wyK9oFNR00mHXR 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/build/shovill-u6ZR9g/shovill-1.1.0 dpkg-source: info: unpacking shovill_1.1.0.orig.tar.gz dpkg-source: info: unpacking shovill_1.1.0-11.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying adapter_commandline_arg.patch dpkg-source: info: applying fix-executable-names.patch clean up apt cache ------------------ Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Time Build Commands Mon, 29 Jun 2026 22:17:30 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network shovill_1.1.0-11 perl-5.44-throwaway amd64 ----------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network shovill_1.1.0-11 perl-5.44-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANGUAGE=en_GB:en LC_ALL=C.UTF-8 LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so LOGNAME=debomatic PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/build/shovill-u6ZR9g/shovill-1.1.0 SCHROOT_ALIAS_NAME=perl-5.44-throwaway-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.44-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.44-amd64-debomatic-1ae25b19-65b9-45ae-9965-f23d3a6e4ddf SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -Zxz dpkg-buildpackage: info: source package shovill dpkg-buildpackage: info: source version 1.1.0-11 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source -Zxz --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean dpkg-source -Zxz -b . dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building shovill using existing ../shovill_1.1.0.orig.tar.gz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: building shovill in ../shovill_1.1.0-11.debian.tar.xz dpkg-source: info: building shovill in ../shovill_1.1.0-11.dsc debian/rules binary dh binary dh_update_autotools_config dh_autoreconf create-stamp debian/debhelper-build-stamp dh_prep dh_install dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'shovill-examples' in '../shovill-examples_1.1.0-11_all.deb'. dpkg-deb: building package 'shovill' in '../shovill_1.1.0-11_amd64.deb'. dpkg-genbuildinfo -O../shovill_1.1.0-11_amd64.buildinfo dpkg-genchanges -O../shovill_1.1.0-11_amd64.changes dpkg-genchanges: info: not including original source code in upload dpkg-source -Zxz --after-build . dpkg-buildpackage: info: binary and diff upload (original source NOT included) -------------------------------------------------------------------------------- Build finished at 2026-06-29T22:17:36Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Mon, 29 Jun 2026 22:17:37 +0000 | +------------------------------------------------------------------------------+ shovill_1.1.0-11_amd64.changes: ------------------------------- Format: 1.8 Date: Mon, 03 Nov 2025 12:41:46 +0100 Source: shovill Binary: shovill shovill-examples Architecture: source all amd64 Version: 1.1.0-11 Distribution: perl-5.44-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: shovill - Assemble bacterial isolate genomes from Illumina paired-end reads shovill-examples - Test Data for shovill Closes: 1119922 Changes: shovill (1.1.0-11) unstable; urgency=medium . * Add myself to Uploaders Closes: #1119922 * debputy lint --auto-fix (routine-update) Checksums-Sha1: 217a0551276acdd1601c594ae4f7afd4523fa438 1161 shovill_1.1.0-11.dsc b009093026e305773b92d44a8d8e90128ac5f4f6 5728 shovill_1.1.0-11.debian.tar.xz 9b5843596393636084465cfa3a397413459171c5 6220340 shovill-examples_1.1.0-11_all.deb 678284388554cd68078d9b83fa6810f72f995cb3 7407 shovill_1.1.0-11_amd64.buildinfo 6a7776dbe50f45539f9466b2a6fda6b97fc51e47 12804 shovill_1.1.0-11_amd64.deb Checksums-Sha256: ed06b4e72b3655c91fb5d9317fc6e51586ce0bab98d5534a0c0543832b9d4d22 1161 shovill_1.1.0-11.dsc 9c1d11ad9413b8821511e18fa71686eebce505e676409ce87790c7bc4a85770f 5728 shovill_1.1.0-11.debian.tar.xz 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shovill-examples Architecture: all amd64 source Version: 1.1.0-11 Checksums-Md5: 49d378d639982a112e208bfc73160b55 1161 shovill_1.1.0-11.dsc 0593c232e15368a0e0db2c6ea303e48c 6220340 shovill-examples_1.1.0-11_all.deb 418b0a05ff7a7cffa7564ff32e0e9ef0 12804 shovill_1.1.0-11_amd64.deb Checksums-Sha1: 217a0551276acdd1601c594ae4f7afd4523fa438 1161 shovill_1.1.0-11.dsc 9b5843596393636084465cfa3a397413459171c5 6220340 shovill-examples_1.1.0-11_all.deb 6a7776dbe50f45539f9466b2a6fda6b97fc51e47 12804 shovill_1.1.0-11_amd64.deb Checksums-Sha256: ed06b4e72b3655c91fb5d9317fc6e51586ce0bab98d5534a0c0543832b9d4d22 1161 shovill_1.1.0-11.dsc 80e70280bcb5db555d294345b7349ae189154e84d8d2effb9ace1987c8be1505 6220340 shovill-examples_1.1.0-11_all.deb af2d30e81f1a2201d0e594982b001d7d4cc147a3668eeb51ee8820c5a248f853 12804 shovill_1.1.0-11_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Mon, 29 Jun 2026 22:17:36 +0000 Build-Path: /build/shovill-u6ZR9g/shovill-1.1.0 Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.73-2), automake (= 1:1.18.1-4), autopoint (= 1.0-1), autotools-dev (= 20240727.1+nmu1), bamtools (= 2.5.3+dfsg-2), base-files (= 14.2), base-passwd (= 3.6.8), bash (= 5.3-3), binutils (= 2.46.50.20260617-1), binutils-common (= 2.46.50.20260617-1), binutils-x86-64-linux-gnu (= 2.46.50.20260617-1), bsdextrautils (= 2.42.2-1), build-essential (= 12.12), bwa (= 0.7.19-1), bzip2 (= 1.0.8-6+b2), coreutils (= 9.10-1), cpp (= 4:15.2.0-5+b1), cpp-15 (= 15.3.0-1), cpp-15-x86-64-linux-gnu (= 15.3.0-1), cpp-x86-64-linux-gnu (= 4:15.2.0-5+b1), dash (= 0.5.12-12), debconf (= 1.5.92), debhelper (= 14.2), debianutils (= 5.23.2), dh-autoreconf (= 22), dh-strip-nondeterminism (= 1.15.1-1), diffutils (= 1:3.12-1), dpkg (= 1.23.7), dpkg-dev (= 1.23.7), dwz (= 0.16-4), file (= 1:5.47-4), findutils (= 4.10.0-4), g++ (= 4:15.2.0-5+b1), g++-15 (= 15.3.0-1), g++-15-x86-64-linux-gnu (= 15.3.0-1), g++-x86-64-linux-gnu (= 4:15.2.0-5+b1), gcc (= 4:15.2.0-5+b1), gcc-15 (= 15.3.0-1), gcc-15-base (= 15.3.0-1), gcc-15-x86-64-linux-gnu (= 15.3.0-1), gcc-16-base (= 16.1.0-2), gcc-x86-64-linux-gnu (= 4:15.2.0-5+b1), gettext (= 1.0-1), gettext-base (= 1.0-1), grep (= 3.12-1), groff-base (= 1.24.1-1), gzip (= 1.13-1), hostname (= 3.25), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-3), 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), libbamtools2.5.3 (= 2.5.3+dfsg-2), libbinutils (= 2.46.50.20260617-1), libblkid1 (= 2.42.2-1), libboost-iostreams1.90.0 (= 1.90.0-6), libboost-program-options1.90.0 (= 1.90.0-6), libboost-timer1.90.0 (= 1.90.0-6), libbrotli1 (= 1.2.0-3), libbz2-1.0 (= 1.0.8-6+b2), libc-bin (= 2.42-17), libc-dev-bin (= 2.42-17), libc-gconv-modules-extra (= 2.42-17), libc6 (= 2.42-17), libc6-dev (= 2.42-17), libcap-ng0 (= 0.9.3-1+b1), libcc1-0 (= 16.1.0-2), libcom-err2 (= 1.47.4-1), libcrypt1 (= 1:4.5.1-1+b1), libctf-nobfd0 (= 2.46.50.20260617-1), libctf0 (= 2.46.50.20260617-1), libcurl3t64-gnutls (= 8.21.0-2), libcurl4-gnutls (= 8.21.0-2), libdb5.3t64 (= 5.3.28+dfsg2-11+b1), libdebconfclient0 (= 0.283), libdebhelper-perl (= 14.2), libdeflate0 (= 1.25-1), libdpkg-perl (= 1.23.7), libelf1t64 (= 0.195-1), libexpat1 (= 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), libgmp10 (= 2:6.3.0+dfsg-5+b2), libgnutls30t64 (= 3.8.13-1), libgomp1 (= 16.1.0-2), libgprofng0 (= 2.46.50.20260617-1), libgssapi-krb5-2 (= 1.22.1-3), libhogweed6t64 (= 3.10.2-1+b1), libhts3t64 (= 1.22.1+ds2-1+b2), libhtscodecs2 (= 1.6.6-1), libhwasan0 (= 16.1.0-2), libidn2-0 (= 2.3.8-5), libisl23 (= 0.27-2), libitm1 (= 16.1.0-2), libjansson4 (= 2.15.0-1), libjsoncpp26 (= 1.9.7-4), libk5crypto3 (= 1.22.1-3), libkeyutils1 (= 1.6.3-6+b2), libkrb5-3 (= 1.22.1-3), libkrb5support0 (= 1.22.1-3), libldap2 (= 2.6.13+dfsg-1+b1), liblsan0 (= 16.1.0-2), liblzma5 (= 5.8.3-1), libmagic-mgc (= 1:5.47-4), libmagic1t64 (= 1:5.47-4), libmbedcrypto16 (= 3.6.6-0.1), libmbedtls21 (= 3.6.6-0.1), libmbedx509-7 (= 3.6.6-0.1), libmd0 (= 1.2.0-2), libmount1 (= 2.42.2-1), libmpc3 (= 1.3.1-3), libmpfr6 (= 4.2.2-3), libncbi-vdb3 (= 3.2.1+dfsg-2+b1), libncurses6 (= 6.6+20251231-1+b1), libncursesw6 (= 6.6+20251231-1+b1), libnettle8t64 (= 3.10.2-1+b1), libnghttp2-14 (= 1.69.0-1), libnghttp3-9 (= 1.15.0-1), libngs-c++3 (= 3.2.1+dfsg-6+b1), libngtcp2-16 (= 1.22.1-1), libngtcp2-crypto-gnutls8 (= 1.22.1-1), libnlopt0 (= 2.7.1-7.1+b2), libp11-kit0 (= 0.26.2-3), libpam-modules (= 1.7.0-6), libpam-modules-bin (= 1.7.0-6), libpam-runtime (= 1.7.0-6), libpam0g (= 1.7.0-6), libpcre2-8-0 (= 10.46-1+b2), libperl5.44 (= 5.44.0~rc1-1), libpipeline1 (= 1.5.8-3), libproc2-0 (= 2:4.0.4-9+b2), libpsl5t64 (= 0.22.0-1), libpython3-stdlib (= 3.14.6-1), libpython3.13-minimal (= 3.13.14-1), libpython3.13-stdlib (= 3.13.14-1), libpython3.14-minimal (= 3.14.6-1), libpython3.14-stdlib (= 3.14.6-1), libquadmath0 (= 16.1.0-2), libreadline8t64 (= 8.3-4), libsasl2-2 (= 2.1.28+dfsg1-11), libsasl2-modules-db (= 2.1.28+dfsg1-11), libseccomp2 (= 2.6.0-2+b1), libselinux1 (= 3.10-1), libsframe3 (= 2.46.50.20260617-1), libsmartcols1 (= 2.42.2-1), libsqlite3-0 (= 3.53.3-1), libssh2-1t64 (= 1.11.1-4), libssl3t64 (= 3.6.3-1), libssw0 (= 1.1-16), libstdc++-15-dev (= 15.3.0-1), libstdc++6 (= 16.1.0-2), libsystemd0 (= 261.1-2), libtasn1-6 (= 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 (= 261.1-2), libunistring5 (= 1.4.2-1), libuuid1 (= 2.42.2-1), libxml2-16 (= 2.15.3+dfsg-1), libyaml-0-2 (= 0.2.5-2+b1), 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), megahit (= 1.2.9+dfsg-1), ncbi-vdb-data (= 3.2.1+dfsg-2), ncurses-base (= 6.6+20251231-1), ncurses-bin (= 6.6+20251231-1+b1), netbase (= 6.5), openssl-provider-legacy (= 3.6.3-1), patch (= 2.8-2), perl (= 5.44.0~rc1-1), perl-base (= 5.44.0~rc1-1), perl-modules-5.44 (= 5.44.0~rc1-1), po-debconf (= 1.0.22), procps (= 2:4.0.4-9+b2), python3 (= 3.14.6-1), python3-all (= 3.14.6-1), python3-joblib (= 1.5.3-2), python3-minimal (= 3.14.6-1), python3-packaging (= 26.2-2), python3-yaml (= 6.0.3-1), python3.13 (= 3.13.14-1), python3.13-minimal (= 3.13.14-1), python3.14 (= 3.14.6-1), python3.14-minimal (= 3.14.6-1), readline-common (= 8.3-4), rpcsvc-proto (= 1.4.4-1), samtools (= 1.22.1-1), sed (= 4.9-3), sensible-utils (= 0.0.26), skesa (= 2.4.0-8+b1), spades (= 4.0.0+really3.15.5+dfsg-3), sysvinit-utils (= 3.18-1), tar (= 1.35+dfsg-4), tzdata (= 2026b-1), util-linux (= 2.42.2-1), xz-utils (= 5.8.3-1), zlib1g (= 1:1.3.dfsg+really1.3.2-3) Environment: DEB_BUILD_OPTIONS="parallel=2" LANG="C.UTF-8" LANGUAGE="en_GB:en" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" LD_PRELOAD="libeatmydata.so" SOURCE_DATE_EPOCH="1762170106" +------------------------------------------------------------------------------+ | Package contents Mon, 29 Jun 2026 22:17:37 +0000 | +------------------------------------------------------------------------------+ shovill-examples_1.1.0-11_all.deb --------------------------------- new Debian package, version 2.0. size 6220340 bytes: control archive=940 bytes. 726 bytes, 21 lines control 538 bytes, 7 lines md5sums Package: shovill-examples Source: shovill Version: 1.1.0-11 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 6083 Section: science Priority: optional Multi-Arch: foreign Homepage: https://github.com/tseemann/shovill Description: Test Data for shovill Shovill is a pipeline which uses SPAdes at its core, but alters the steps before and after the primary assembly step to get similar results in less time. Shovill also supports other assemblers like SKESA, Velvet and Megahit, so you can take advantage of the pre- and post-processing the Shovill provides with those too. . This package contains a test data which can be used to test the package. drwxr-xr-x root/root 0 2025-11-03 11:41 ./ drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/ drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/share/ drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/share/doc/ drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/share/doc/shovill-examples/ -rw-r--r-- root/root 3081581 2025-11-03 11:41 ./usr/share/doc/shovill-examples/R1.fq.gz -rw-r--r-- root/root 3081822 2025-11-03 11:41 ./usr/share/doc/shovill-examples/R2.fq.gz -rw-r--r-- root/root 533 2025-11-03 11:41 ./usr/share/doc/shovill-examples/changelog.Debian.gz -rw-r--r-- root/root 866 2025-11-03 11:41 ./usr/share/doc/shovill-examples/copyright -rw-r--r-- root/root 52920 2020-03-13 05:35 ./usr/share/doc/shovill-examples/test.fna.gz -rw-r--r-- root/root 421 2020-03-13 05:35 ./usr/share/doc/shovill-examples/test.sh -rw-r--r-- root/root 1397 2020-03-13 05:35 ./usr/share/doc/shovill-examples/trimmomatic.fa shovill_1.1.0-11_amd64.deb -------------------------- new Debian package, version 2.0. size 12804 bytes: control archive=908 bytes. 775 bytes, 17 lines control 258 bytes, 4 lines md5sums Package: shovill Version: 1.1.0-11 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 39 Depends: perl:any, spades, velvet, skesa, megahit, flash, lighter, samtools, bwa, kmc, seqtk, pilon, trimmomatic, pigz, samclip Section: science Priority: optional Homepage: https://github.com/tseemann/shovill Description: Assemble bacterial isolate genomes from Illumina paired-end reads Shovill is a pipeline which uses SPAdes at its core, but alters the steps before and after the primary assembly step to get similar results in less time. Shovill also supports other assemblers like SKESA, Velvet and Megahit, so you can take advantage of the pre- and post-processing the Shovill provides with those too. drwxr-xr-x root/root 0 2025-11-03 11:41 ./ drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/ drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/bin/ -rwxr-xr-x root/root 26613 2025-11-03 11:41 ./usr/bin/shovill drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/share/ drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/share/doc/ drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/share/doc/shovill/ -rw-r--r-- root/root 528 2025-11-03 11:41 ./usr/share/doc/shovill/changelog.Debian.gz -rw-r--r-- root/root 866 2025-11-03 11:41 ./usr/share/doc/shovill/copyright drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/share/man/ drwxr-xr-x root/root 0 2025-11-03 11:41 ./usr/share/man/man1/ -rw-r--r-- root/root 1062 2025-11-03 11:41 ./usr/share/man/man1/shovill.1.gz +------------------------------------------------------------------------------+ | Post Build Mon, 29 Jun 2026 22:17:37 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Mon, 29 Jun 2026 22:17:37 +0000 | +------------------------------------------------------------------------------+ Purging /build/shovill-u6ZR9g Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Mon, 29 Jun 2026 22:17:38 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 18876 Build-Time: 6 Distribution: perl-5.44-throwaway Host Architecture: amd64 Install-Time: 14 Job: /srv/debomatic/incoming/shovill_1.1.0-11.dsc Machine Architecture: amd64 Package: shovill Package-Time: 23 Source-Version: 1.1.0-11 Space: 18876 Status: successful Version: 1.1.0-11 -------------------------------------------------------------------------------- Finished at 2026-06-29T22:17:36Z Build needed 00:00:23, 18876k disk space