sbuild (Debian sbuild) 0.91.10 (27 June 2026) on carme.larted.org.uk +==============================================================================+ | bio-rainbow 2.0.4+dfsg-2 (amd64) Sat, 19 Sep 2026 10:56:14 +0000 | +==============================================================================+ Package: bio-rainbow Version: 2.0.4+dfsg-2 Source Version: 2.0.4+dfsg-2 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 Sat, 19 Sep 2026 10:56:16 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup bio-rainbow_2.0.4+dfsg-2 perl-5.44-throwaway amd64 ------------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup bio-rainbow_2.0.4+dfsg-2 perl-5.44-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: Setting up apt archive... +------------------------------------------------------------------------------+ | Update chroot Sat, 19 Sep 2026 10:56:16 +0000 | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.44 InRelease [3042 B] Get:2 http://deb.debian.org/debian unstable InRelease [193 kB] Get:3 http://deb.debian.org/debian sid InRelease [193 kB] Get:1 file:/srv/reprepro perl-5.44 InRelease [3042 B] Get:4 http://deb.debian.org/debian unstable/main amd64 Packages.diff/Index [63.6 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 Packages T-2026-09-19-0804.46-F-2026-09-19-0804.46.pdiff [23.4 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 Packages T-2026-09-19-0804.46-F-2026-09-19-0804.46.pdiff [23.4 kB] Get:6 http://deb.debian.org/debian sid/main Sources.diff/Index [63.6 kB] Get:7 file:/srv/reprepro perl-5.44/main amd64 Packages [605 kB] Get:8 http://deb.debian.org/debian sid/main Sources T-2026-09-19-0804.46-F-2026-09-19-0804.46.pdiff [4327 B] Get:8 http://deb.debian.org/debian sid/main Sources T-2026-09-19-0804.46-F-2026-09-19-0804.46.pdiff [4327 B] Fetched 541 kB in 3s (169 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: cpp-16 cpp-16-x86-64-linux-gnu g++-16 g++-16-x86-64-linux-gnu gcc-16 gcc-16-base gcc-16-x86-64-linux-gnu libasan8 libatomic1 libcc1-0 libgcc-16-dev libgcc-s1 libgomp1 libhwasan0 libitm1 liblsan0 libquadmath0 libstdc++-16-dev libstdc++6 libtsan2 libubsan1 21 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 72.3 MB of archives. After this operation, 636 MB disk space will be freed. Get:1 http://deb.debian.org/debian unstable/main amd64 libubsan1 amd64 16.2.0-3 [1136 kB] Get:2 http://deb.debian.org/debian unstable/main amd64 libgomp1 amd64 16.2.0-3 [151 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 libitm1 amd64 16.2.0-3 [26.9 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 libatomic1 amd64 16.2.0-3 [10.4 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 libasan8 amd64 16.2.0-3 [2888 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 liblsan0 amd64 16.2.0-3 [1281 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 libhwasan0 amd64 16.2.0-3 [1580 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 libquadmath0 amd64 16.2.0-3 [148 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 gcc-16-base amd64 16.2.0-3 [38.7 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 libstdc++6 amd64 16.2.0-3 [823 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 g++-16 amd64 16.2.0-3 [35.4 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 gcc-16 amd64 16.2.0-3 [538 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 cpp-16 amd64 16.2.0-3 [1272 B] Get:14 http://deb.debian.org/debian unstable/main amd64 cpp-16-x86-64-linux-gnu amd64 16.2.0-3 [13.7 MB] Get:15 http://deb.debian.org/debian unstable/main amd64 libcc1-0 amd64 16.2.0-3 [46.1 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 gcc-16-x86-64-linux-gnu amd64 16.2.0-3 [26.6 MB] Get:17 http://deb.debian.org/debian unstable/main amd64 g++-16-x86-64-linux-gnu amd64 16.2.0-3 [15.1 MB] Get:18 http://deb.debian.org/debian unstable/main amd64 libstdc++-16-dev amd64 16.2.0-3 [2755 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 libgcc-16-dev amd64 16.2.0-3 [2782 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 libtsan2 amd64 16.2.0-3 [2574 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libgcc-s1 amd64 16.2.0-3 [74.0 kB] Fetched 72.3 MB in 1s (137 MB/s) (Reading database ... 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Setting up libgomp1:amd64 (16.2.0-3) ... Setting up libquadmath0:amd64 (16.2.0-3) ... Setting up libatomic1:amd64 (16.2.0-3) ... Setting up libubsan1:amd64 (16.2.0-3) ... Setting up libhwasan0:amd64 (16.2.0-3) ... Setting up libasan8:amd64 (16.2.0-3) ... Setting up cpp-16-x86-64-linux-gnu (16.2.0-3) ... Setting up libtsan2:amd64 (16.2.0-3) ... Setting up libcc1-0:amd64 (16.2.0-3) ... Setting up liblsan0:amd64 (16.2.0-3) ... Setting up libitm1:amd64 (16.2.0-3) ... Setting up libgcc-16-dev:amd64 (16.2.0-3) ... Setting up gcc-16-x86-64-linux-gnu (16.2.0-3) ... Setting up libstdc++-16-dev:amd64 (16.2.0-3) ... Setting up g++-16-x86-64-linux-gnu (16.2.0-3) ... Setting up cpp-16 (16.2.0-3) ... Setting up gcc-16 (16.2.0-3) ... Setting up g++-16 (16.2.0-3) ... Processing triggers for libc-bin (2.43-5) ... +------------------------------------------------------------------------------+ | Fetch source files Sat, 19 Sep 2026 10:56:39 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/bio-rainbow_2.0.4+dfsg-2.dsc exists in /srv/debomatic/incoming; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Sat, 19 Sep 2026 10:56:40 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), help2man, build-essential Filtered Build-Depends: debhelper-compat (= 13), help2man, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/bio-rainbow-5iA9hZ/resolver-TOV3D0/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/build/bio-rainbow-5iA9hZ/resolver-TOV3D0/apt_archive ./ InRelease Get:2 copy:/build/bio-rainbow-5iA9hZ/resolver-TOV3D0/apt_archive ./ Release [609 B] Ign:3 copy:/build/bio-rainbow-5iA9hZ/resolver-TOV3D0/apt_archive ./ Release.gpg Get:4 copy:/build/bio-rainbow-5iA9hZ/resolver-TOV3D0/apt_archive ./ Sources [610 B] Get:5 copy:/build/bio-rainbow-5iA9hZ/resolver-TOV3D0/apt_archive ./ Packages [649 B] Fetched 1868 B in 0s (100 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 bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libdebhelper-perl libelf1t64 libfile-stripnondeterminism-perl liblocale-gettext-perl libmagic-mgc libmagic1t64 libpipeline1 libtool libuchardet0 libxml2-16 m4 man-db po-debconf sensible-utils Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff libtool-doc gfortran | fortran95-compiler m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx python3:any python3-requests libarchive-cpio-perl libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libdebhelper-perl libelf1t64 libfile-stripnondeterminism-perl liblocale-gettext-perl libmagic-mgc libmagic1t64 libpipeline1 libtool libuchardet0 libxml2-16 m4 man-db po-debconf sbuild-build-depends-main-dummy sensible-utils 0 upgraded, 31 newly installed, 0 to remove and 0 not upgraded. Need to get 12.2 MB/12.2 MB of archives. After this operation, 55.2 MB of additional disk space will be used. Get:1 copy:/build/bio-rainbow-5iA9hZ/resolver-TOV3D0/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [860 B] Get:2 file:/srv/reprepro perl-5.44/main amd64 liblocale-gettext-perl amd64 1.07-10+b2 [14.9 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.47-4 [345 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.47-4 [111 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.47-4 [43.0 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 1.0-5 [334 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2+b2 [69.0 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.24.1-1 [1336 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.42.3-1 [102 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-3 [49.2 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.21-1 [332 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.73-2 [516 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1+nmu1 [60.0 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.19-2 [891 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 autopoint all 1.0-5 [820 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 14.5 [77.7 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 libtool all 2.6.2-3 [552 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 23 [12.7 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.15.1-1 [17.1 kB] Get:23 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.1-1 [6020 B] Get:24 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.196-1 [61.2 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.17-1 [109 kB] Get:26 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.4+dfsg-1 [683 kB] Get:27 http://deb.debian.org/debian unstable/main amd64 gettext amd64 1.0-5 [2704 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:29 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.22 [216 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 debhelper all 14.5 [944 kB] Get:31 http://deb.debian.org/debian unstable/main amd64 help2man amd64 1.49.3 [198 kB] Preconfiguring packages ... Fetched 12.2 MB in 0s (130 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 15722 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-10+b2_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-10+b2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.47-4_amd64.deb ... Unpacking libmagic-mgc (1:5.47-4) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../03-libmagic1t64_1%3a5.47-4_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.47-4) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.47-4_amd64.deb ... Unpacking file (1:5.47-4) ... Selecting previously unselected package gettext-base. 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Preparing to unpack .../24-libxml2-16_2.15.4+dfsg-1_amd64.deb ... Unpacking libxml2-16:amd64 (2.15.4+dfsg-1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_1.0-5_amd64.deb ... Unpacking gettext (1.0-5) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.22_all.deb ... Unpacking po-debconf (1.0.22) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_14.5_all.deb ... Unpacking debhelper (14.5) ... Selecting previously unselected package help2man. Preparing to unpack .../29-help2man_1.49.3_amd64.deb ... Unpacking help2man (1.49.3) ... Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../30-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libpipeline1:amd64 (1.5.8-3) ... Setting up bsdextrautils (2.42.3-1) ... Setting up libmagic-mgc (1:5.47-4) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.15.4+dfsg-1) ... Setting up libdebhelper-perl (14.5) ... Setting up libmagic1t64:amd64 (1:5.47-4) ... Setting up gettext-base (1.0-5) ... Setting up m4 (1.4.21-1) ... Setting up file (1:5.47-4) ... Setting up libelf1t64:amd64 (0.196-1) ... Setting up autotools-dev (20240727.1+nmu1) ... Setting up autopoint (1.0-5) ... Setting up autoconf (2.73-2) ... Setting up dwz (0.17-1) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-2+b2) ... Setting up liblocale-gettext-perl (1.07-10+b2) ... Setting up automake (1:1.19-2) ... update-alternatives: using /usr/bin/automake-1.19 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.1-1) ... Setting up gettext (1.0-5) ... Setting up libtool (2.6.2-3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up help2man (1.49.3) ... Setting up dh-autoreconf (23) ... Setting up dh-strip-nondeterminism (1.15.1-1) ... Setting up groff-base (1.24.1-1) ... Setting up po-debconf (1.0.22) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (14.5) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.43-5) ... +------------------------------------------------------------------------------+ | Check architectures Sat, 19 Sep 2026 10:56:48 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment Sat, 19 Sep 2026 10:56:48 +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_2.47-6 dpkg-dev_1.23.11 g++-15_15.3.0-4 g++-16_16.2.0-3 gcc-15_15.3.0-4 gcc-16_16.2.0-3 libc6-dev_2.43-5 libstdc++-15-dev_15.3.0-4 libstdc++-16-dev_16.2.0-3 libstdc++6_16.2.0-3 linux-libc-dev_7.2.6-1 Package versions: apt_3.3.3 autoconf_2.73-2 automake_1:1.19-2 autopoint_1.0-5 autotools-dev_20240727.1+nmu1 base-files_14.2 base-passwd_3.6.8 bash_5.3-4 binutils_2.47-6 binutils-common_2.47-6 binutils-x86-64-linux-gnu_2.47-6 bsdextrautils_2.42.3-1 build-essential_12.12 bzip2_1.0.8-6+b2 coreutils_9.10-1 cpp_4:16.1.0-3 cpp-15_15.3.0-4 cpp-15-x86-64-linux-gnu_15.3.0-4 cpp-16_16.2.0-3 cpp-16-x86-64-linux-gnu_16.2.0-3 cpp-x86-64-linux-gnu_4:16.1.0-3 dash_0.5.12-12 debconf_1.5.92 debhelper_14.5 debian-archive-keyring_2025.1 debianutils_5.24 dh-autoreconf_23 dh-strip-nondeterminism_1.15.1-1 diffutils_1:3.12-1 dirmngr_2.4.9-7+b1 dpkg_1.23.11 dpkg-dev_1.23.11 dwz_0.17-1 eatmydata_131-2 file_1:5.47-4 findutils_4.11.0-2 g++_4:16.1.0-3 g++-15_15.3.0-4 g++-15-x86-64-linux-gnu_15.3.0-4 g++-16_16.2.0-3 g++-16-x86-64-linux-gnu_16.2.0-3 g++-x86-64-linux-gnu_4:16.1.0-3 gcc_4:16.1.0-3 gcc-15_15.3.0-4 gcc-15-base_15.3.0-4 gcc-15-x86-64-linux-gnu_15.3.0-4 gcc-16_16.2.0-3 gcc-16-base_16.2.0-3 gcc-16-x86-64-linux-gnu_16.2.0-3 gcc-x86-64-linux-gnu_4:16.1.0-3 gettext_1.0-5 gettext-base_1.0-5 gnupg_2.4.9-7 gnupg-l10n_2.4.9-7 gpg_2.4.9-7+b1 gpg-agent_2.4.9-7+b1 gpgconf_2.4.9-7+b1 gpgsm_2.4.9-7+b1 grep_3.12-1 groff-base_1.24.1-1 gzip_1.14-1 help2man_1.49.3 hostname_3.25 init-system-helpers_1.69+nmu1 intltool-debian_0.35.0+20060710.6 libacl1_2.4.0-1 libapt-pkg7.0_3.3.3 libarchive-zip-perl_1.68-1 libasan8_16.2.0-3 libassuan9_3.0.2-2+b2 libatomic1_16.2.0-3 libattr1_1:2.6.0-1 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1+b2 libbinutils_2.47-6 libblkid1_2.42.3-1 libbz2-1.0_1.0.8-6+b2 libc-bin_2.43-5 libc-dev-bin_2.43-5 libc-gconv-modules-extra_2.43-5 libc6_2.43-5 libc6-dev_2.43-5 libcap-ng0_0.9.6-1 libcc1-0_16.2.0-3 libcrypt1_1:4.5.2+20251210-1 libctf-nobfd0_2.47-6 libctf0_2.47-6 libdb5.3t64_5.3.28+dfsg2-11+b1 libdebconfclient0_0.283 libdebhelper-perl_14.5 libdpkg-perl_1.23.11 libeatmydata1_131-2+b2 libelf1t64_0.196-1 libffi8_3.8.0-2 libfile-stripnondeterminism-perl_1.15.1-1 libgcc-15-dev_15.3.0-4 libgcc-16-dev_16.2.0-3 libgcc-s1_16.2.0-3 libgcrypt20_1.12.3-2 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_16.2.0-3 libgpg-error0_1.61-5 libgprofng0_2.47-6 libhogweed6t64_3.10.2-1+b1 libhwasan0_16.2.0-3 libidn2-0_2.3.8-5 libisl23_0.28-1 libitm1_16.2.0-3 libjansson4_2.15.1-1 libksba8_1.8.1-1 libldap2_2.6.14+dfsg-2+b1 liblocale-gettext-perl_1.07-10+b2 liblsan0_16.2.0-3 liblz4-1_1.10.0-10 liblzma5_5.8.4-1 libmagic-mgc_1:5.47-4 libmagic1t64_1:5.47-4 libmd0_1.2.0-2 libmount1_2.42.3-1 libmpc3_1.3.1-3 libmpfr6_4.2.2-3 libncursesw6_6.6+20260608-2 libnettle8t64_3.10.2-1+b1 libnpth0t64_1.8-4 libp11-kit0_0.26.5-1 libpam-modules_1.7.0-8 libpam-modules-bin_1.7.0-8 libpam-runtime_1.7.0-8 libpam0g_1.7.0-8 libpcre2-8-0_10.48-3 libperl5.40_5.40.1-8 libperl5.44_5.44.0-1 libpipeline1_1.5.8-3 libquadmath0_16.2.0-3 libreadline8t64_8.3-4 libsasl2-2_2.1.28+dfsg1-11 libsasl2-modules-db_2.1.28+dfsg1-11 libseccomp2_2.6.1-1+b1 libselinux1_3.11-2 libsframe3_2.47-6 libsmartcols1_2.42.3-1 libsqlite3-0_3.53.4-2 libssl3t64_3.6.4-1 libstdc++-15-dev_15.3.0-4 libstdc++-16-dev_16.2.0-3 libstdc++6_16.2.0-3 libsystemd0_262~rc3-1 libtasn1-6_4.21.0-2+b1 libtinfo6_6.6+20260608-2 libtool_2.6.2-3 libtsan2_16.2.0-3 libtss2-mu-4.0.1-0t64_4.1.3-7 libtss2-rc0t64_4.1.3-7 libtss2-sys1t64_4.1.3-7 libtss2-tcti-device0t64_4.1.3-7 libtss2-tcti-mssim0t64_4.1.3-7 libtss2-tcti-swtpm0t64_4.1.3-7 libubsan1_16.2.0-3 libuchardet0_0.0.8-2+b2 libudev1_262~rc3-1 libunistring5_1.4.2-1 libuuid1_2.42.3-1 libxml2-16_2.15.4+dfsg-1 libxxhash0_0.8.3-2+b2 libzstd1_1.5.7+dfsg-4 linux-libc-dev_7.2.6-1 m4_1.4.21-1 make_4.4.1-3 man-db_2.13.1-1 mawk_1.3.4.20260302-1 mount_2.42.3-1 ncurses-base_6.6+20260608-2 ncurses-bin_6.6+20260608-2 openssl-provider-legacy_3.6.4-1 patch_2.8-2 perl_5.44.0-1 perl-base_5.44.0-1 perl-modules-5.40_5.40.1-8 perl-modules-5.44_5.44.0-1 pinentry-curses_1.3.3-3 po-debconf_1.0.22 readline-common_8.3-4 rpcsvc-proto_1.4.4-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-3 sensible-utils_0.0.26 sqv_1.5.0-1 sysvinit-utils_3.18-1 tar_1.35+dfsg-6 util-linux_2.42.3-1 xz-utils_5.8.4-1 zlib1g_1:1.3.dfsg+really1.3.2-3 +------------------------------------------------------------------------------+ | Build Sat, 19 Sep 2026 10:56:48 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: bio-rainbow Binary: bio-rainbow Architecture: any Version: 2.0.4+dfsg-2 Maintainer: Debian Med Packaging Team Uploaders: Olivier Sallou , Pranav Ballaney Homepage: http://sourceforge.net/projects/bio-rainbow/ Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/bio-rainbow Vcs-Git: https://salsa.debian.org/med-team/bio-rainbow.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), help2man Package-List: bio-rainbow deb science optional arch=any Checksums-Sha1: 69aa7e1ad4254ee1f2aa3f4d62bb49be724654aa 58808 bio-rainbow_2.0.4+dfsg.orig.tar.xz 0167f4b007285a9c2f54f313a7a1c475aaebc0d5 14012 bio-rainbow_2.0.4+dfsg-2.debian.tar.xz Checksums-Sha256: a4e77785f8b5419d8d40aaa0b3b3fe48d3892793dec60049ca5074e43fe46b5e 58808 bio-rainbow_2.0.4+dfsg.orig.tar.xz 2ff6db13165339d6b52e13eea6ab32700a48c662d9409062a18cebe156836a36 14012 bio-rainbow_2.0.4+dfsg-2.debian.tar.xz Files: 9dcb2fb4e52a73ffe32c61f97921c8e0 58808 bio-rainbow_2.0.4+dfsg.orig.tar.xz cb7bb50a5910620b126226506cc13922 14012 bio-rainbow_2.0.4+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl9CvWsRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtG0WRAAjkL/JGdzH8Lv124xrTFM+K7v1nXRx+4S kjbW3pVRURp6XgXFRiJ47x1nknjpS6h7AO2MLQ1zLJ27CyIFdRsZSliH8T3afxIE wn17QfCIwmbYP8S/LMo0viD5xuB5C2LVj9Zncn1M05qacdecUgayX62YVOavQcyz V7CYc5ohABV7Fdq+0GKttEIOy/WSstj3vquHogjA7x0CI+THxPcpUhkmndx7aMFV gEJUm981/Y92LUkqGNHGZp9NGyq9EVHuOQYVZ/1pQI5R5iLJvBXDOYugM0NTRW+d asxNiLY3W0kpYQTkLcrk1kjJFA4EjUzT1Wq1ZZvXso+agEh8V+32ZuJmAIA6D163 YCYpwlk8/dpoOlnWqBv8tue9nm431troD1rHjyVg/1QdlQjvmmrpNPd8NdH7aFw8 X7P4ShZwU0EhAW0ysJi96R49ZpN6AnLNgP4O99EYj2eDe7im9OyOaF/EwXAWCwOf CO9g4d8Cms3WsCmSQySavDjqjgPBF/9yFwuya4PBmbjtOac5p/6wpHMlVUO2c/Uc RpRGvm8awZu7S0d4izN9ouHSOLdfekKZjxscHrLFNCgWK0EdnRuyPJGiCcDtFkgM ZadBsADFHUyO9+AzhE49D5Z3sDU3/nn+m3JEcwE38oLDHUQglaPsZtJybg38hHYz eyvo4OggmpE= =e4K2 -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./bio-rainbow_2.0.4+dfsg-2.dsc: missing OpenPGP keyrings dpkg-source: info: verifying ./bio-rainbow_2.0.4+dfsg-2.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 bio-rainbow in /build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg dpkg-source: info: unpacking bio-rainbow_2.0.4+dfsg.orig.tar.xz tar: Ignoring unknown extended header keyword 'LIBARCHIVE.creationtime' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' dpkg-source: info: unpacking bio-rainbow_2.0.4+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying add_hardening.patch dpkg-source: info: applying rename_binary.patch dpkg-source: info: applying spelling.patch clean up apt cache ------------------ Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Time Build Commands Sat, 19 Sep 2026 10:56:49 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network bio-rainbow_2.0.4+dfsg-2 perl-5.44-throwaway amd64 ------------------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network bio-rainbow_2.0.4+dfsg-2 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/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg 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-1a4f3099-94bc-4698-8b15-c40c299ec6c4 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 bio-rainbow dpkg-buildpackage: info: source version 2.0.4+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pranav Ballaney dpkg-source -Zxz --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j2 clean make[1]: Entering directory '/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg' rm -f *.o *.gcda *.gcno *.gcov gmon.out bio-rainbow rbasm ezmsim rbmergetag *.exe make[1]: Leaving directory '/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg' dh_clean dpkg-source -Zxz -b . dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building bio-rainbow using existing ../bio-rainbow_2.0.4+dfsg.orig.tar.xz tar: Ignoring unknown extended header keyword 'LIBARCHIVE.creationtime' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring 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'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' tar: Ignoring unknown extended header keyword 'SCHILY.dev' tar: Ignoring unknown extended header keyword 'SCHILY.ino' tar: Ignoring unknown extended header keyword 'SCHILY.nlink' dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: building bio-rainbow in ../bio-rainbow_2.0.4+dfsg-2.debian.tar.xz dpkg-source: info: building bio-rainbow in ../bio-rainbow_2.0.4+dfsg-2.dsc debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j2 INSTALL="install --strip-program=true" make[1]: Entering directory '/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg' gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -D_FILE_OFFSET_BITS=64 main.c -o main.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -D_FILE_OFFSET_BITS=64 divide.c -o divide.o In file included from rainbow.h:27, from main.c:20: hashset.h: In function ‘load_u32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:492:1: note: in expansion of macro ‘define_hashset’ 492 | define_hashset(u32hash, uint32_t, u32hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_u64hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:493:1: note: in expansion of macro ‘define_hashset’ 493 | define_hashset(u64hash, uint64_t, u64hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_i32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:497:1: note: in expansion of macro ‘define_hashset’ 497 | define_hashset(i32hash, int, i32hash_code, i32hash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_chash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:501:1: note: in expansion of macro ‘define_hashset’ 501 | define_hashset(chash, char*, chash_code, chash_equals); | ^~~~~~~~~~~~~~ In file included from rainbow.h:27, from divide.c:20: hashset.h: In function ‘load_u32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:492:1: note: in expansion of macro ‘define_hashset’ 492 | define_hashset(u32hash, uint32_t, u32hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_u64hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:493:1: note: in expansion of macro ‘define_hashset’ 493 | define_hashset(u64hash, uint64_t, u64hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_i32hash’: hashset.h: In function ‘load_uuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:506:1: note: in expansion of macro ‘define_hashset’ 506 | define_hashset(uuhash, uuhash_t, uuhash_code, uuhash_equals); | ^~~~~~~~~~~~~~ hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:497:1: note: in expansion of macro ‘define_hashset’ 497 | define_hashset(i32hash, int, i32hash_code, i32hash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_chash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:501:1: note: in expansion of macro ‘define_hashset’ 501 | define_hashset(chash, char*, chash_code, chash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_cuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:511:1: note: in expansion of macro ‘define_hashset’ 511 | define_hashset(cuhash, cuhash_t, cuhash_code, cuhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_uuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:506:1: note: in expansion of macro ‘define_hashset’ 506 | define_hashset(uuhash, uuhash_t, uuhash_code, uuhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_cuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:511:1: note: in expansion of macro ‘define_hashset’ 511 | define_hashset(cuhash, cuhash_t, cuhash_code, cuhash_equals); | ^~~~~~~~~~~~~~ In file included from rainbow.h:30: dna.h: At top level: dna.h:72:39: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (7 chars into 6 available) [-Wunterminated-string-initialization] 72 | static const char bit_base_table[6] = "ACGTN-"; | ^~~~~~~~ dna.h:73:41: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (17 chars into 16 available) [-Wunterminated-string-initialization] 73 | static const char bit4_base_table[16] = "-ACMGRSVTWYHKDBN"; | ^~~~~~~~~~~~~~~~~~ In file included from rainbow.h:30: dna.h: At top level: asm_R2.h: In function ‘load_rhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ asm_R2.h:42:1: note: in expansion of macro ‘define_hashset’ 42 | define_hashset(rhash, rhash_t, rhash_code, rhash_eq); | ^~~~~~~~~~~~~~ dna.h:72:39: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (7 chars into 6 available) [-Wunterminated-string-initialization] 72 | static const char bit_base_table[6] = "ACGTN-"; | ^~~~~~~~ dna.h:73:41: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (17 chars into 16 available) [-Wunterminated-string-initialization] 73 | static const char bit4_base_table[16] = "-ACMGRSVTWYHKDBN"; | ^~~~~~~~~~~~~~~~~~ mergectg.h: In function ‘load_rdkhash’: asm_R2.h: In function ‘load_rhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ asm_R2.h:42:1: note: in expansion of macro ‘define_hashset’ 42 | define_hashset(rhash, rhash_t, rhash_code, rhash_eq); | ^~~~~~~~~~~~~~ hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:28:1: note: in expansion of macro ‘define_hashset’ 28 | define_hashset(rdkhash, rd_kmer_t, rd_kmer_code, rd_kmer_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_ctgset’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:48:1: note: in expansion of macro ‘define_hashset’ 48 | define_hashset(ctgset, contig_t, contig_code, contig_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_rdkhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:28:1: note: in expansion of macro ‘define_hashset’ 28 | define_hashset(rdkhash, rd_kmer_t, rd_kmer_code, rd_kmer_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_ctgkhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:74:1: note: in expansion of macro ‘define_hashset’ 74 | define_hashset(ctgkhash, ctg_kmer_t, kmer_code, kmer_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_uuchash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:79:1: note: in expansion of macro ‘define_hashset’ 79 | define_hashset(uuchash, uuchash_t, uuchash_code, uuchash_equals); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_ctgset’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:48:1: note: in expansion of macro ‘define_hashset’ 48 | define_hashset(ctgset, contig_t, contig_code, contig_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_ctgkhash’: rainbow.h: In function ‘load_khash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ rainbow.h:47:1: note: in expansion of macro ‘define_hashset’ 47 | define_hashset(khash, kmer_t, kmer_hashcode, kmer_equals); | ^~~~~~~~~~~~~~ hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:74:1: note: in expansion of macro ‘define_hashset’ 74 | define_hashset(ctgkhash, ctg_kmer_t, kmer_code, kmer_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_uuchash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:79:1: note: in expansion of macro ‘define_hashset’ 79 | define_hashset(uuchash, uuchash_t, uuchash_code, uuchash_equals); | ^~~~~~~~~~~~~~ rainbow.h: In function ‘load_khash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ rainbow.h:47:1: note: in expansion of macro ‘define_hashset’ 47 | define_hashset(khash, kmer_t, kmer_hashcode, kmer_equals); | ^~~~~~~~~~~~~~ At top level: cc1: note: unrecognized command-line option ‘-Wno-self-assign’ may have been intended to silence earlier diagnostics gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -D_FILE_OFFSET_BITS=64 file_reader.c -o file_reader.o At top level: cc1: note: unrecognized command-line option ‘-Wno-self-assign’ may have been intended to silence earlier diagnostics gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -D_FILE_OFFSET_BITS=64 asm_R2.c -o asm_R2.o In file included from asm_R2.h:24, from asm_R2.c:20: hashset.h: In function ‘load_u32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:492:1: note: in expansion of macro ‘define_hashset’ 492 | define_hashset(u32hash, uint32_t, u32hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_u64hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:493:1: note: in expansion of macro ‘define_hashset’ 493 | define_hashset(u64hash, uint64_t, u64hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_i32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:497:1: note: in expansion of macro ‘define_hashset’ 497 | define_hashset(i32hash, int, i32hash_code, i32hash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_chash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:501:1: note: in expansion of macro ‘define_hashset’ 501 | define_hashset(chash, char*, chash_code, chash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_uuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:506:1: note: in expansion of macro ‘define_hashset’ 506 | define_hashset(uuhash, uuhash_t, uuhash_code, uuhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_cuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:511:1: note: in expansion of macro ‘define_hashset’ 511 | define_hashset(cuhash, cuhash_t, cuhash_code, cuhash_equals); | ^~~~~~~~~~~~~~ In file included from asm_R2.h:26: dna.h: At top level: dna.h:72:39: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (7 chars into 6 available) [-Wunterminated-string-initialization] 72 | static const char bit_base_table[6] = "ACGTN-"; | ^~~~~~~~ dna.h:73:41: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (17 chars into 16 available) [-Wunterminated-string-initialization] 73 | static const char bit4_base_table[16] = "-ACMGRSVTWYHKDBN"; | ^~~~~~~~~~~~~~~~~~ asm_R2.h: In function ‘load_rhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ asm_R2.h:42:1: note: in expansion of macro ‘define_hashset’ 42 | define_hashset(rhash, rhash_t, rhash_code, rhash_eq); | ^~~~~~~~~~~~~~ gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -D_FILE_OFFSET_BITS=64 mergectg.c -o mergectg.o In file included from mergectg.h:7, from mergectg.c:20: hashset.h: In function ‘load_u32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:492:1: note: in expansion of macro ‘define_hashset’ 492 | define_hashset(u32hash, uint32_t, u32hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_u64hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:493:1: note: in expansion of macro ‘define_hashset’ 493 | define_hashset(u64hash, uint64_t, u64hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_i32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:497:1: note: in expansion of macro ‘define_hashset’ 497 | define_hashset(i32hash, int, i32hash_code, i32hash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_chash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:501:1: note: in expansion of macro ‘define_hashset’ 501 | define_hashset(chash, char*, chash_code, chash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_uuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:506:1: note: in expansion of macro ‘define_hashset’ 506 | define_hashset(uuhash, uuhash_t, uuhash_code, uuhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_cuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:511:1: note: in expansion of macro ‘define_hashset’ 511 | define_hashset(cuhash, cuhash_t, cuhash_code, cuhash_equals); | ^~~~~~~~~~~~~~ In file included from asm_R2.h:26, from mergectg.h:10: dna.h: At top level: dna.h:72:39: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (7 chars into 6 available) [-Wunterminated-string-initialization] 72 | static const char bit_base_table[6] = "ACGTN-"; | ^~~~~~~~ dna.h:73:41: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (17 chars into 16 available) [-Wunterminated-string-initialization] 73 | static const char bit4_base_table[16] = "-ACMGRSVTWYHKDBN"; | ^~~~~~~~~~~~~~~~~~ asm_R2.h: In function ‘load_rhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ asm_R2.h:42:1: note: in expansion of macro ‘define_hashset’ 42 | define_hashset(rhash, rhash_t, rhash_code, rhash_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_rdkhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:28:1: note: in expansion of macro ‘define_hashset’ 28 | define_hashset(rdkhash, rd_kmer_t, rd_kmer_code, rd_kmer_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_ctgset’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:48:1: note: in expansion of macro ‘define_hashset’ 48 | define_hashset(ctgset, contig_t, contig_code, contig_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_ctgkhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:74:1: note: in expansion of macro ‘define_hashset’ 74 | define_hashset(ctgkhash, ctg_kmer_t, kmer_code, kmer_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_uuchash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:79:1: note: in expansion of macro ‘define_hashset’ 79 | define_hashset(uuchash, uuchash_t, uuchash_code, uuchash_equals); | ^~~~~~~~~~~~~~ rainbow.h: In function ‘load_khash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ rainbow.h:47:1: note: in expansion of macro ‘define_hashset’ 47 | define_hashset(khash, kmer_t, kmer_hashcode, kmer_equals); | ^~~~~~~~~~~~~~ mergectg.c: In function ‘index_rds’: mergectg.c:184:82: warning: variable ‘pos’ set but not used [-Wunused-but-set-variable=] 184 | uint64_t kmask = 0xFFFFFFFFFFFFFFFFLLU >> ((32-merger->RD_KMER_SIZE)*2), pos; | ^~~ At top level: cc1: note: unrecognized command-line option ‘-Wno-self-assign’ may have been intended to silence earlier diagnostics At top level: cc1: note: unrecognized command-line option ‘-Wno-self-assign’ may have been intended to silence earlier diagnostics gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -D_FILE_OFFSET_BITS=64 cluster.c -o cluster.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -D_FILE_OFFSET_BITS=64 ezmsim.c -o ezmsim.o In file included from rainbow.h:27, from cluster.c:20: hashset.h: In function ‘load_u32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:492:1: note: in expansion of macro ‘define_hashset’ 492 | define_hashset(u32hash, uint32_t, u32hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_u64hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:493:1: note: in expansion of macro ‘define_hashset’ 493 | define_hashset(u64hash, uint64_t, u64hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_i32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:497:1: note: in expansion of macro ‘define_hashset’ 497 | define_hashset(i32hash, int, i32hash_code, i32hash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_chash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:501:1: note: in expansion of macro ‘define_hashset’ 501 | define_hashset(chash, char*, chash_code, chash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_uuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:506:1: note: in expansion of macro ‘define_hashset’ 506 | define_hashset(uuhash, uuhash_t, uuhash_code, uuhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_cuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:511:1: note: in expansion of macro ‘define_hashset’ 511 | define_hashset(cuhash, cuhash_t, cuhash_code, cuhash_equals); | ^~~~~~~~~~~~~~ In file included from rainbow.h:30: dna.h: At top level: dna.h:72:39: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (7 chars into 6 available) [-Wunterminated-string-initialization] 72 | static const char bit_base_table[6] = "ACGTN-"; | ^~~~~~~~ dna.h:73:41: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (17 chars into 16 available) [-Wunterminated-string-initialization] 73 | static const char bit4_base_table[16] = "-ACMGRSVTWYHKDBN"; | ^~~~~~~~~~~~~~~~~~ ezmsim.c: In function ‘LR_main’: ezmsim.c:440:33: warning: this statement may fall through [-Wimplicit-fallthrough=] 440 | case 'z': cut = strdup(optarg); | ^~~~~~~~~~~~~~ ezmsim.c:441:17: note: here 441 | case 'p': pos = atoi(optarg); | ^~~~ ezmsim.c: In function ‘EF_main’: ezmsim.c:707:33: warning: this statement may fall through [-Wimplicit-fallthrough=] 707 | case 'z': cut = strdup(optarg); | ^~~~~~~~~~~~~~ ezmsim.c:708:17: note: here 708 | case 'p': pos = atoi(optarg); | ^~~~ asm_R2.h: In function ‘load_rhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ asm_R2.h:42:1: note: in expansion of macro ‘define_hashset’ 42 | define_hashset(rhash, rhash_t, rhash_code, rhash_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_rdkhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:28:1: note: in expansion of macro ‘define_hashset’ 28 | define_hashset(rdkhash, rd_kmer_t, rd_kmer_code, rd_kmer_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_ctgset’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:48:1: note: in expansion of macro ‘define_hashset’ 48 | define_hashset(ctgset, contig_t, contig_code, contig_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_ctgkhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:74:1: note: in expansion of macro ‘define_hashset’ 74 | define_hashset(ctgkhash, ctg_kmer_t, kmer_code, kmer_eq); | ^~~~~~~~~~~~~~ mergectg.h: In function ‘load_uuchash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ mergectg.h:79:1: note: in expansion of macro ‘define_hashset’ 79 | define_hashset(uuchash, uuchash_t, uuchash_code, uuchash_equals); | ^~~~~~~~~~~~~~ rainbow.h: In function ‘load_khash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ rainbow.h:47:1: note: in expansion of macro ‘define_hashset’ 47 | define_hashset(khash, kmer_t, kmer_hashcode, kmer_equals); | ^~~~~~~~~~~~~~ At top level: cc1: note: unrecognized command-line option ‘-Wno-self-assign’ may have been intended to silence earlier diagnostics gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -D_FILE_OFFSET_BITS=64 rbasm_main.c -o rbasm_main.o In file included from asm_R2.h:24, from rbasm_main.c:1: hashset.h: In function ‘load_u32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:492:1: note: in expansion of macro ‘define_hashset’ 492 | define_hashset(u32hash, uint32_t, u32hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_u64hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:493:1: note: in expansion of macro ‘define_hashset’ 493 | define_hashset(u64hash, uint64_t, u64hash_code, uxxhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_i32hash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:497:1: note: in expansion of macro ‘define_hashset’ 497 | define_hashset(i32hash, int, i32hash_code, i32hash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_chash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:501:1: note: in expansion of macro ‘define_hashset’ 501 | define_hashset(chash, char*, chash_code, chash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_uuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:506:1: note: in expansion of macro ‘define_hashset’ 506 | define_hashset(uuhash, uuhash_t, uuhash_code, uuhash_equals); | ^~~~~~~~~~~~~~ hashset.h: In function ‘load_cuhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ hashset.h:511:1: note: in expansion of macro ‘define_hashset’ 511 | define_hashset(cuhash, cuhash_t, cuhash_code, cuhash_equals); | ^~~~~~~~~~~~~~ In file included from asm_R2.h:26: dna.h: At top level: dna.h:72:39: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (7 chars into 6 available) [-Wunterminated-string-initialization] 72 | static const char bit_base_table[6] = "ACGTN-"; | ^~~~~~~~ dna.h:73:41: warning: initializer-string for array of ‘char’ truncates NUL terminator but destination lacks ‘nonstring’ attribute (17 chars into 16 available) [-Wunterminated-string-initialization] 73 | static const char bit4_base_table[16] = "-ACMGRSVTWYHKDBN"; | ^~~~~~~~~~~~~~~~~~ At top level: cc1: note: unrecognized command-line option ‘-Wno-self-assign’ may have been intended to silence earlier diagnostics asm_R2.h: In function ‘load_rhash’: hashset.h:296:16: warning: variable ‘n’ set but not used [-Wunused-but-set-variable=] 296 | size_t n; \ | ^ hashset.h:385:9: note: in expansion of macro ‘load_hashset_macro’ 385 | load_hashset_macro(hash_type); \ | ^~~~~~~~~~~~~~~~~~ asm_R2.h:42:1: note: in expansion of macro ‘define_hashset’ 42 | define_hashset(rhash, rhash_t, rhash_code, rhash_eq); | ^~~~~~~~~~~~~~ gcc -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -o ezmsim ezmsim.o -lm At top level: cc1: note: unrecognized command-line option ‘-Wno-self-assign’ may have been intended to silence earlier diagnostics gcc -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -o bio-rainbow main.o divide.o file_reader.o asm_R2.o mergectg.o cluster.o -lm gcc -Wl,-z,relro -Wl,-z,now -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -W -O2 -Wall -Wno-self-assign -Wno-unused-function -o rbasm asm_R2.o rbasm_main.o file_reader.o -lm make[1]: Leaving directory '/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/bio-rainbow/ dh_install dh_installdocs dh_installchangelogs dh_installexamples debian/rules override_dh_installman make[1]: Entering directory '/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg' # dh_installman is messing up .sh extension as language extension dh_install debian/mans/*.1 usr/share/man/man1 make[1]: Leaving directory '/build/bio-rainbow-5iA9hZ/bio-rainbow-2.0.4+dfsg' dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'bio-rainbow' in '../bio-rainbow_2.0.4+dfsg-2_amd64.deb'. dpkg-deb: building package 'bio-rainbow-dbgsym' in '../bio-rainbow-dbgsym_2.0.4+dfsg-2_amd64.deb'. dpkg-genbuildinfo -O../bio-rainbow_2.0.4+dfsg-2_amd64.buildinfo dpkg-genchanges -O../bio-rainbow_2.0.4+dfsg-2_amd64.changes dpkg-genchanges: info: not including original source code in upload dpkg-source -Zxz --after-build . dpkg-buildpackage: info: binary and diff upload (original source NOT included) -------------------------------------------------------------------------------- Build finished at 2026-09-19T10:57:08Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Sat, 19 Sep 2026 10:57:09 +0000 | +------------------------------------------------------------------------------+ bio-rainbow_2.0.4+dfsg-2_amd64.changes: --------------------------------------- Format: 1.8 Date: Sun, 23 Aug 2020 05:32:47 +0530 Source: bio-rainbow Binary: bio-rainbow bio-rainbow-dbgsym Architecture: source amd64 Version: 2.0.4+dfsg-2 Distribution: perl-5.44-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pranav Ballaney Description: bio-rainbow - clustering and assembling short reads for bioinformatics Changes: bio-rainbow (2.0.4+dfsg-2) unstable; urgency=medium . [ Steffen Möller ] * Updated bio.tools ref * Added ref to conda . 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(= 5.8.4-1), 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="1598140967" +------------------------------------------------------------------------------+ | Package contents Sat, 19 Sep 2026 10:57:09 +0000 | +------------------------------------------------------------------------------+ bio-rainbow-dbgsym_2.0.4+dfsg-2_amd64.deb ----------------------------------------- new Debian package, version 2.0. size 180388 bytes: control archive=700 bytes. 478 bytes, 12 lines control 406 bytes, 4 lines md5sums Package: bio-rainbow-dbgsym Source: bio-rainbow Version: 2.0.4+dfsg-2 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 242 Depends: bio-rainbow (= 2.0.4+dfsg-2) Section: debug Priority: optional Description: debug symbols for bio-rainbow Build-Ids: 0ef625fcc6b613ef784bf72c31cac6fd76e8fb4b b08ca26755c1f309bdd88b530c7b3bdbff2d18a9 c034922367e39bed53e140abfc29f6a4cfc9171a drwxr-xr-x root/root 0 2020-08-23 00:02 ./ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/lib/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/lib/debug/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/lib/debug/.build-id/0e/ -rw-r--r-- root/root 133960 2020-08-23 00:02 ./usr/lib/debug/.build-id/0e/f625fcc6b613ef784bf72c31cac6fd76e8fb4b.debug drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/lib/debug/.build-id/b0/ -rw-r--r-- root/root 58320 2020-08-23 00:02 ./usr/lib/debug/.build-id/b0/8ca26755c1f309bdd88b530c7b3bdbff2d18a9.debug drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/lib/debug/.build-id/c0/ -rw-r--r-- root/root 33008 2020-08-23 00:02 ./usr/lib/debug/.build-id/c0/34922367e39bed53e140abfc29f6a4cfc9171a.debug drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 6672 2020-08-23 00:02 ./usr/lib/debug/.dwz/x86_64-linux-gnu/bio-rainbow.debug drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/share/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/share/doc/ lrwxrwxrwx root/root 0 2020-08-23 00:02 ./usr/share/doc/bio-rainbow-dbgsym -> bio-rainbow bio-rainbow_2.0.4+dfsg-2_amd64.deb ---------------------------------- new Debian package, version 2.0. size 61632 bytes: control archive=1704 bytes. 1361 bytes, 26 lines control 1642 bytes, 23 lines md5sums Package: bio-rainbow Version: 2.0.4+dfsg-2 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 194 Depends: libc6 (>= 2.38), perl:any Section: science Priority: optional Homepage: http://sourceforge.net/projects/bio-rainbow/ Description: clustering and assembling short reads for bioinformatics Efficient tool for clustering and assembling short reads, especially for RAD. . Rainbow is developed to provide an ultra-fast and memory-efficient solution to clustering and assembling short reads produced by RAD-seq. First, Rainbow clusters reads using a spaced seed method. Then, Rainbow implements a heterozygote calling like strategy to divide potential groups into haplotypes in a top-down manner. long a guided tree, it iteratively merges sibling leaves in a bottom-up manner if they are similar enough. Here, the similarity is defined by comparing the 2nd reads of a RAD segment. This approach tries to collapse heterozygote while discriminate repetitive sequences. At last, Rainbow uses a greedy algorithm to locally assemble merged reads into contigs. Rainbow not only outputs the optimal but also suboptimal assembly results. Based on simulation and a real guppy RAD-seq data, it is shown that Rainbow is more competent than the other tools in dealing with RAD-seq data. drwxr-xr-x root/root 0 2020-08-23 00:02 ./ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/bin/ -rwxr-xr-x root/root 84216 2020-08-23 00:02 ./usr/bin/bio-rainbow -rwxr-xr-x root/root 31296 2020-08-23 00:02 ./usr/bin/ezmsim -rwxr-xr-x root/root 39152 2020-08-23 00:02 ./usr/bin/rbasm -rwxr-xr-x root/root 427 2015-07-27 18:28 ./usr/bin/select_all_rbcontig.pl -rwxr-xr-x root/root 535 2015-07-27 18:28 ./usr/bin/select_best_rbcontig.pl -rwxr-xr-x root/root 1597 2015-07-27 18:28 ./usr/bin/select_best_rbcontig_plus_read1.pl -rwxr-xr-x root/root 872 2015-07-27 18:28 ./usr/bin/select_sec_rbcontig.pl drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/share/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/share/doc/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/share/doc/bio-rainbow/ -rw-r--r-- root/root 86 2020-08-23 00:02 ./usr/share/doc/bio-rainbow/README.Debian -rw-r--r-- root/root 731 2020-08-23 00:02 ./usr/share/doc/bio-rainbow/README.test -rw-r--r-- root/root 1932 2020-08-23 00:02 ./usr/share/doc/bio-rainbow/README.txt.gz -rw-r--r-- root/root 717 2020-08-23 00:02 ./usr/share/doc/bio-rainbow/changelog.Debian.gz -rw-r--r-- root/root 1869 2020-08-23 00:02 ./usr/share/doc/bio-rainbow/copyright drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/share/doc/bio-rainbow/examples/ -rw-r--r-- root/root 3321 2020-08-23 00:02 ./usr/share/doc/bio-rainbow/examples/R.1.fastq.gz -rw-r--r-- root/root 3568 2020-08-23 00:02 ./usr/share/doc/bio-rainbow/examples/R.2.fastq.gz -rw-r--r-- root/root 842 2020-08-23 00:02 ./usr/share/doc/bio-rainbow/run-unit-test drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/share/lintian/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 121 2020-08-23 00:02 ./usr/share/lintian/overrides/bio-rainbow drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/share/man/ drwxr-xr-x root/root 0 2020-08-23 00:02 ./usr/share/man/man1/ -rw-r--r-- root/root 928 2020-08-23 00:02 ./usr/share/man/man1/bio-rainbow.1.gz -rw-r--r-- root/root 405 2020-08-23 00:02 ./usr/share/man/man1/ezmsim.1.gz -rw-r--r-- root/root 439 2020-08-23 00:02 ./usr/share/man/man1/rbasm.1.gz -rw-r--r-- root/root 315 2020-08-23 00:02 ./usr/share/man/man1/select_all_rbcontig.pl.1.gz -rw-r--r-- root/root 316 2020-08-23 00:02 ./usr/share/man/man1/select_best_rbcontig.pl.1.gz -rw-r--r-- root/root 348 2020-08-23 00:02 ./usr/share/man/man1/select_best_rbcontig_plus_read1.pl.1.gz -rw-r--r-- root/root 317 2020-08-23 00:02 ./usr/share/man/man1/select_sec_rbcontig.pl.1.gz +------------------------------------------------------------------------------+ | Post Build Sat, 19 Sep 2026 10:57:09 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Sat, 19 Sep 2026 10:57:09 +0000 | +------------------------------------------------------------------------------+ Purging /build/bio-rainbow-5iA9hZ Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Sat, 19 Sep 2026 10:57:10 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 2832 Build-Time: 19 Distribution: perl-5.44-throwaway Host Architecture: amd64 Install-Time: 8 Job: /srv/debomatic/incoming/bio-rainbow_2.0.4+dfsg-2.dsc Machine Architecture: amd64 Package: bio-rainbow Package-Time: 54 Source-Version: 2.0.4+dfsg-2 Space: 2832 Status: successful Version: 2.0.4+dfsg-2 -------------------------------------------------------------------------------- Finished at 2026-09-19T10:57:08Z Build needed 00:00:54, 2832k disk space