https://launchpad.net/ubuntu/+source/muscle/1:5.1.0-1/+build/25478692 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos01-arm64-019 5.4.0-136-generic #153-Ubuntu SMP Thu Nov 24 15:59:04 UTC 2022 aarch64 Buildd toolchain package versions: launchpad-buildd_225~602~ubuntu20.04.1 python3-lpbuildd_225~602~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.6 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 12 Jan 17:18:57 ntpdate[2438]: adjust time server 10.211.37.1 offset 0.000395 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=lunar --arch=armhf PACKAGEBUILD-25478692 --image-type chroot /home/buildd/filecache-default/232c5f007faca678b94fe1cafd15f5ae1164056a Creating target for build PACKAGEBUILD-25478692 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=lunar --arch=armhf PACKAGEBUILD-25478692 Starting target for build PACKAGEBUILD-25478692 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=lunar --arch=armhf PACKAGEBUILD-25478692 'deb http://ftpmaster.internal/ubuntu lunar main universe' 'deb http://ftpmaster.internal/ubuntu lunar-security main universe' 'deb http://ftpmaster.internal/ubuntu lunar-updates main universe' 'deb http://ftpmaster.internal/ubuntu lunar-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-25478692 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=lunar --arch=armhf PACKAGEBUILD-25478692 Updating target for build PACKAGEBUILD-25478692 Get:1 http://ftpmaster.internal/ubuntu lunar InRelease [267 kB] Get:2 http://ftpmaster.internal/ubuntu lunar-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu lunar-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu lunar-proposed InRelease [118 kB] Get:5 http://ftpmaster.internal/ubuntu lunar/main armhf Packages [1322 kB] Get:6 http://ftpmaster.internal/ubuntu lunar/main Translation-en [510 kB] Get:7 http://ftpmaster.internal/ubuntu lunar/universe armhf Packages [14.2 MB] Get:8 http://ftpmaster.internal/ubuntu lunar/universe Translation-en [5880 kB] Get:9 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf Packages [269 kB] Get:10 http://ftpmaster.internal/ubuntu lunar-proposed/main Translation-en [109 kB] Get:11 http://ftpmaster.internal/ubuntu lunar-proposed/universe armhf Packages [1142 kB] Get:12 http://ftpmaster.internal/ubuntu lunar-proposed/universe Translation-en [427 kB] Fetched 24.4 MB in 11s (2277 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be REMOVED: lsb-base* The following packages will be upgraded: adduser bash binutils binutils-arm-linux-gnueabihf binutils-common coreutils cpp-12 debconf diffutils dpkg dpkg-dev g++-12 gcc-12 gcc-12-base gpg gpg-agent gpgconf gpgv libasan8 libatomic1 libbinutils libcap2 libcc1-0 libcrypt-dev libcrypt1 libctf-nobfd0 libctf0 libdpkg-perl libgcc-12-dev libgcc-s1 libgomp1 liblzma5 libmpfr6 libncurses6 libncursesw6 libpcre2-8-0 libperl5.36 libsqlite3-0 libssl3 libstdc++-12-dev libstdc++6 libsystemd-shared libsystemd0 libtinfo6 libubsan1 libudev1 libzstd1 linux-libc-dev ncurses-base ncurses-bin openssl perl perl-base perl-modules-5.36 systemd systemd-sysv sysvinit-utils tzdata xz-utils zlib1g 60 upgraded, 0 newly installed, 1 to remove and 0 not upgraded. Need to get 71.2 MB of archives. After this operation, 1625 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf bash armhf 5.2.15-2ubuntu1 [671 kB] Get:2 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf coreutils armhf 9.1-1ubuntu2 [1290 kB] Get:3 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf diffutils armhf 1:3.8-3 [167 kB] Get:4 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf liblzma5 armhf 5.4.0-0.1 [108 kB] Get:5 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf dpkg armhf 1.21.17ubuntu5 [1293 kB] Get:6 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf ncurses-bin armhf 6.4-1 [175 kB] Get:7 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libperl5.36 armhf 5.36.0-7 [4036 kB] Get:8 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf perl armhf 5.36.0-7 [235 kB] Get:9 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf perl-base armhf 5.36.0-7 [1633 kB] Get:10 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf perl-modules-5.36 all 5.36.0-7 [2984 kB] Get:11 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libcrypt-dev armhf 1:4.4.33-2 [120 kB] Get:12 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libcrypt1 armhf 1:4.4.33-2 [91.3 kB] Get:13 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf zlib1g armhf 1:1.2.13.dfsg-1ubuntu4 [48.9 kB] Get:14 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf ncurses-base all 6.4-1 [21.3 kB] Get:15 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf sysvinit-utils armhf 3.05-7ubuntu1 [25.9 kB] Get:16 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf systemd-sysv armhf 252.4-1ubuntu1 [11.4 kB] Get:17 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libcap2 armhf 1:2.66-3 [23.6 kB] Get:18 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf debconf all 1.5.82 [125 kB] Get:19 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libssl3 armhf 3.0.7-1ubuntu1 [1563 kB] Get:20 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libzstd1 armhf 1.5.2+dfsg2-3 [254 kB] Get:21 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf systemd armhf 252.4-1ubuntu1 [2991 kB] Get:22 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libsystemd-shared armhf 252.4-1ubuntu1 [1683 kB] Get:23 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libsystemd0 armhf 252.4-1ubuntu1 [309 kB] Get:24 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libcc1-0 armhf 12.2.0-12ubuntu1 [38.9 kB] Get:25 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libgomp1 armhf 12.2.0-12ubuntu1 [109 kB] Get:26 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libatomic1 armhf 12.2.0-12ubuntu1 [7654 B] Get:27 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libasan8 armhf 12.2.0-12ubuntu1 [2382 kB] Get:28 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libubsan1 armhf 12.2.0-12ubuntu1 [950 kB] Get:29 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf gcc-12-base armhf 12.2.0-12ubuntu1 [19.4 kB] Get:30 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libstdc++6 armhf 12.2.0-12ubuntu1 [603 kB] Get:31 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf g++-12 armhf 12.2.0-12ubuntu1 [9309 kB] Get:32 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libstdc++-12-dev armhf 12.2.0-12ubuntu1 [2238 kB] Get:33 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libgcc-12-dev armhf 12.2.0-12ubuntu1 [857 kB] Get:34 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf gcc-12 armhf 12.2.0-12ubuntu1 [16.2 MB] Get:35 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf cpp-12 armhf 12.2.0-12ubuntu1 [8151 kB] Get:36 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libgcc-s1 armhf 12.2.0-12ubuntu1 [41.1 kB] Get:37 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libmpfr6 armhf 4.1.1-3 [215 kB] Get:38 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libctf-nobfd0 armhf 2.39.90.20221231-1ubuntu1 [85.4 kB] Get:39 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libctf0 armhf 2.39.90.20221231-1ubuntu1 [86.0 kB] Get:40 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libbinutils armhf 2.39.90.20221231-1ubuntu1 [490 kB] Get:41 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf binutils-common armhf 2.39.90.20221231-1ubuntu1 [225 kB] Get:42 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf binutils armhf 2.39.90.20221231-1ubuntu1 [3116 B] Get:43 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf binutils-arm-linux-gnueabihf armhf 2.39.90.20221231-1ubuntu1 [2786 kB] Get:44 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libpcre2-8-0 armhf 10.42-1 [197 kB] Get:45 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libncursesw6 armhf 6.4-1 [119 kB] Get:46 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libncurses6 armhf 6.4-1 [87.6 kB] Get:47 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libtinfo6 armhf 6.4-1 [84.4 kB] Get:48 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libudev1 armhf 252.4-1ubuntu1 [81.8 kB] Get:49 http://ftpmaster.internal/ubuntu lunar/main armhf adduser all 3.129ubuntu1 [59.0 kB] Get:50 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf gpgv armhf 2.2.40-1ubuntu2 [193 kB] Get:51 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libsqlite3-0 armhf 3.40.1-1 [564 kB] Get:52 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf openssl armhf 3.0.7-1ubuntu1 [1149 kB] Get:53 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf tzdata all 2022g-2ubuntu1 [397 kB] Get:54 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf xz-utils armhf 5.4.0-0.1 [175 kB] Get:55 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf dpkg-dev all 1.21.17ubuntu5 [1070 kB] Get:56 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libdpkg-perl all 1.21.17ubuntu5 [247 kB] Get:57 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf gpg armhf 2.2.40-1ubuntu2 [482 kB] Get:58 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf gpgconf armhf 2.2.40-1ubuntu2 [117 kB] Get:59 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf gpg-agent armhf 2.2.40-1ubuntu2 [236 kB] Get:60 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf linux-libc-dev armhf 5.19.0-23.24 [1306 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 71.2 MB in 5s (13.2 MB/s) (Reading database ... 12825 files and directories currently installed.) Preparing to unpack .../bash_5.2.15-2ubuntu1_armhf.deb ... Unpacking bash (5.2.15-2ubuntu1) over (5.2-1ubuntu2) ... Setting up bash (5.2.15-2ubuntu1) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 12825 files and directories currently installed.) Preparing to unpack .../coreutils_9.1-1ubuntu2_armhf.deb ... Unpacking coreutils (9.1-1ubuntu2) over (8.32-4.1ubuntu1) ... Setting up coreutils (9.1-1ubuntu2) ... (Reading database ... 12825 files and directories currently installed.) Preparing to unpack .../diffutils_1%3a3.8-3_armhf.deb ... Unpacking diffutils (1:3.8-3) over (1:3.8-1) ... Setting up diffutils (1:3.8-3) ... (Reading database ... 12825 files and directories currently installed.) Preparing to unpack .../liblzma5_5.4.0-0.1_armhf.deb ... Unpacking liblzma5:armhf (5.4.0-0.1) over (5.2.9-0.0) ... Setting up liblzma5:armhf (5.4.0-0.1) ... 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Setting up ncurses-base (6.4-1) ... dpkg: lsb-base: dependency problems, but removing anyway as you requested: sysvinit-utils depends on lsb-base (>= 11.0.0~). procps depends on lsb-base (>= 3.0-10). (Reading database ... 12824 files and directories currently installed.) Removing lsb-base (11.2ubuntu1) ... (Reading database ... 12816 files and directories currently installed.) Preparing to unpack .../sysvinit-utils_3.05-7ubuntu1_armhf.deb ... Unpacking sysvinit-utils (3.05-7ubuntu1) over (3.04-1ubuntu1) ... Setting up sysvinit-utils (3.05-7ubuntu1) ... (Reading database ... 12819 files and directories currently installed.) Preparing to unpack .../systemd-sysv_252.4-1ubuntu1_armhf.deb ... Unpacking systemd-sysv (252.4-1ubuntu1) over (251.4-1ubuntu7) ... Preparing to unpack .../libcap2_1%3a2.66-3_armhf.deb ... Unpacking libcap2:armhf (1:2.66-3) over (1:2.44-1build3) ... Setting up libcap2:armhf (1:2.66-3) ... (Reading database ... 12822 files and directories currently installed.) 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Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up perl-modules-5.36 (5.36.0-7) ... Setting up libmpfr6:armhf (4.1.1-3) ... Setting up libncurses6:armhf (6.4-1) ... Setting up xz-utils (5.4.0-0.1) ... Setting up libatomic1:armhf (12.2.0-12ubuntu1) ... Setting up libsystemd-shared:armhf (252.4-1ubuntu1) ... Setting up libncursesw6:armhf (6.4-1) ... Setting up libubsan1:armhf (12.2.0-12ubuntu1) ... Setting up libcrypt-dev:armhf (1:4.4.33-2) ... Setting up libasan8:armhf (12.2.0-12ubuntu1) ... Setting up gpgconf (2.2.40-1ubuntu2) ... Setting up libbinutils:armhf (2.39.90.20221231-1ubuntu1) ... Setting up openssl (3.0.7-1ubuntu1) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up libcc1-0:armhf (12.2.0-12ubuntu1) ... Setting up libperl5.36:armhf (5.36.0-7) ... Setting up gpg (2.2.40-1ubuntu2) ... Setting up libctf0:armhf (2.39.90.20221231-1ubuntu1) ... Setting up cpp-12 (12.2.0-12ubuntu1) ... Setting up gpg-agent (2.2.40-1ubuntu2) ... Setting up systemd (252.4-1ubuntu1) ... Installing new version of config file /etc/systemd/logind.conf ... Installing new version of config file /etc/systemd/system.conf ... Installing new version of config file /etc/systemd/user.conf ... Initializing machine ID from random generator. Setting up perl (5.36.0-7) ... Setting up libgcc-12-dev:armhf (12.2.0-12ubuntu1) ... Setting up libdpkg-perl (1.21.17ubuntu5) ... Setting up binutils-arm-linux-gnueabihf (2.39.90.20221231-1ubuntu1) ... Setting up systemd-sysv (252.4-1ubuntu1) ... Setting up libstdc++-12-dev:armhf (12.2.0-12ubuntu1) ... Setting up binutils (2.39.90.20221231-1ubuntu1) ... Setting up dpkg-dev (1.21.17ubuntu5) ... Setting up gcc-12 (12.2.0-12ubuntu1) ... Setting up g++-12 (12.2.0-12ubuntu1) ... Processing triggers for debianutils (5.7-0.4) ... Processing triggers for libc-bin (2.36-0ubuntu4) ... (Reading database ... 12843 files and directories currently installed.) Purging configuration files for lsb-base (11.2ubuntu1) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-25478692 armhf lunar-proposed -c chroot:build-PACKAGEBUILD-25478692 --arch=armhf --dist=lunar-proposed --nolog muscle_5.1.0-1.dsc Initiating build PACKAGEBUILD-25478692 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-136-generic #153-Ubuntu SMP Thu Nov 24 15:59:04 UTC 2022 armv7l sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos01-arm64-019.buildd +==============================================================================+ | muscle 1:5.1.0-1 (armhf) Thu, 12 Jan 2023 17:19:35 +0000 | +==============================================================================+ Package: muscle Version: 1:5.1.0-1 Source Version: 1:5.1.0-1 Distribution: lunar-proposed Machine Architecture: arm64 Host Architecture: armhf Build Architecture: armhf Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-25478692/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/muscle-xo7QrB/resolver-w3vgiY' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- muscle_5.1.0-1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/muscle-xo7QrB/muscle-5.1.0' with '<>' I: NOTICE: Log filtering will replace 'build/muscle-xo7QrB' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), debhelper, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), debhelper, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [373 B] Get:5 copy:/<>/apt_archive ./ Packages [454 B] Fetched 1784 B in 0s (89.1 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... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libdw1 libelf1 libfile-stripnondeterminism-perl libicu71 libmagic-mgc libmagic1 libpipeline1 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libdw1 libelf1 libfile-stripnondeterminism-perl libicu71 libmagic-mgc libmagic1 libpipeline1 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db po-debconf sbuild-build-depends-main-dummy 0 upgraded, 32 newly installed, 0 to remove and 0 not upgraded. Need to get 17.9 MB of archives. After this operation, 64.9 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [668 B] Get:2 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libelf1 armhf 0.188-2 [45.7 kB] Get:3 http://ftpmaster.internal/ubuntu lunar/main armhf libicu71 armhf 71.1-3ubuntu1 [10.3 MB] Get:4 http://ftpmaster.internal/ubuntu lunar/main armhf libxml2 armhf 2.9.14+dfsg-1.1 [588 kB] Get:5 http://ftpmaster.internal/ubuntu lunar/main armhf bsdextrautils armhf 2.38.1-4ubuntu1 [76.4 kB] Get:6 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libmagic-mgc armhf 1:5.44-1 [291 kB] Get:7 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libmagic1 armhf 1:5.44-1 [80.5 kB] Get:8 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf file armhf 1:5.44-1 [20.7 kB] Get:9 http://ftpmaster.internal/ubuntu lunar/main armhf gettext-base armhf 0.21-10 [37.3 kB] Get:10 http://ftpmaster.internal/ubuntu lunar/main armhf libuchardet0 armhf 0.0.7-1build2 [75.7 kB] Get:11 http://ftpmaster.internal/ubuntu lunar/main armhf groff-base armhf 1.22.4-9 [849 kB] Get:12 http://ftpmaster.internal/ubuntu lunar/main armhf libpipeline1 armhf 1.5.7-1 [26.2 kB] Get:13 http://ftpmaster.internal/ubuntu lunar/main armhf man-db armhf 2.11.2-1 [1183 kB] Get:14 http://ftpmaster.internal/ubuntu lunar/main armhf m4 armhf 1.4.19-2 [235 kB] Get:15 http://ftpmaster.internal/ubuntu lunar/main armhf autoconf all 2.71-2 [338 kB] Get:16 http://ftpmaster.internal/ubuntu lunar/main armhf autotools-dev all 20220109.1 [44.9 kB] Get:17 http://ftpmaster.internal/ubuntu lunar/main armhf automake all 1:1.16.5-1.3 [558 kB] Get:18 http://ftpmaster.internal/ubuntu lunar/main armhf autopoint all 0.21-10 [421 kB] Get:19 http://ftpmaster.internal/ubuntu lunar/main armhf libdebhelper-perl all 13.10.1ubuntu1 [67.1 kB] Get:20 http://ftpmaster.internal/ubuntu lunar/main armhf libtool all 2.4.7-5 [166 kB] Get:21 http://ftpmaster.internal/ubuntu lunar/main armhf dh-autoreconf all 20 [16.1 kB] Get:22 http://ftpmaster.internal/ubuntu lunar/main armhf libarchive-zip-perl all 1.68-1 [90.2 kB] Get:23 http://ftpmaster.internal/ubuntu lunar/main armhf libsub-override-perl all 0.09-4 [8706 B] Get:24 http://ftpmaster.internal/ubuntu lunar/main armhf libfile-stripnondeterminism-perl all 1.13.0-2 [18.2 kB] Get:25 http://ftpmaster.internal/ubuntu lunar/main armhf dh-strip-nondeterminism all 1.13.0-2 [5308 B] Get:26 http://ftpmaster.internal/ubuntu lunar-proposed/main armhf libdw1 armhf 0.188-2 [226 kB] Get:27 http://ftpmaster.internal/ubuntu lunar/main armhf debugedit armhf 1:5.0-5 [42.8 kB] Get:28 http://ftpmaster.internal/ubuntu lunar/main armhf dwz armhf 0.15-1 [109 kB] Get:29 http://ftpmaster.internal/ubuntu lunar/main armhf gettext armhf 0.21-10 [802 kB] Get:30 http://ftpmaster.internal/ubuntu lunar/main armhf intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:31 http://ftpmaster.internal/ubuntu lunar/main armhf po-debconf all 1.0.21+nmu1 [233 kB] Get:32 http://ftpmaster.internal/ubuntu lunar/main armhf debhelper all 13.10.1ubuntu1 [924 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 17.9 MB in 2s (10.1 MB/s) Selecting previously unselected package libelf1:armhf. (Reading database ... 12843 files and directories currently installed.) Preparing to unpack .../00-libelf1_0.188-2_armhf.deb ... Unpacking libelf1:armhf (0.188-2) ... Selecting previously unselected package libicu71:armhf. Preparing to unpack .../01-libicu71_71.1-3ubuntu1_armhf.deb ... Unpacking libicu71:armhf (71.1-3ubuntu1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../02-libxml2_2.9.14+dfsg-1.1_armhf.deb ... Unpacking libxml2:armhf (2.9.14+dfsg-1.1) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../03-bsdextrautils_2.38.1-4ubuntu1_armhf.deb ... Unpacking bsdextrautils (2.38.1-4ubuntu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../04-libmagic-mgc_1%3a5.44-1_armhf.deb ... Unpacking libmagic-mgc (1:5.44-1) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../05-libmagic1_1%3a5.44-1_armhf.deb ... Unpacking libmagic1:armhf (1:5.44-1) ... 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Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../31-sbuild-build-depends-main-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libpipeline1:armhf (1.5.7-1) ... Setting up libicu71:armhf (71.1-3ubuntu1) ... Setting up bsdextrautils (2.38.1-4ubuntu1) ... Setting up libmagic-mgc (1:5.44-1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.10.1ubuntu1) ... Setting up libmagic1:armhf (1:5.44-1) ... Setting up gettext-base (0.21-10) ... Setting up m4 (1.4.19-2) ... Setting up file (1:5.44-1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-10) ... Setting up autoconf (2.71-2) ... Setting up libuchardet0:armhf (0.0.7-1build2) ... Setting up libsub-override-perl (0.09-4) ... Setting up libelf1:armhf (0.188-2) ... Setting up libxml2:armhf (2.9.14+dfsg-1.1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.0-2) ... Setting up libdw1:armhf (0.188-2) ... Setting up gettext (0.21-10) ... Setting up libtool (2.4.7-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.0-2) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.22.4-9) ... Setting up debugedit (1:5.0-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.11.2-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up debhelper (13.10.1ubuntu1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.36-0ubuntu4) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-136-generic #153-Ubuntu SMP Thu Nov 24 15:59:04 UTC 2022 arm64 (armv7l) Toolchain package versions: binutils_2.39.90.20221231-1ubuntu1 dpkg-dev_1.21.17ubuntu5 g++-12_12.2.0-12ubuntu1 gcc-12_12.2.0-12ubuntu1 libc6-dev_2.36-0ubuntu4 libstdc++-12-dev_12.2.0-12ubuntu1 libstdc++6_12.2.0-12ubuntu1 linux-libc-dev_5.19.0-23.24 Package versions: adduser_3.129ubuntu1 advancecomp_2.4-1 apt_2.5.4 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-10 autotools-dev_20220109.1 base-files_12.3ubuntu1 base-passwd_3.6.1 bash_5.2.15-2ubuntu1 binutils_2.39.90.20221231-1ubuntu1 binutils-arm-linux-gnueabihf_2.39.90.20221231-1ubuntu1 binutils-common_2.39.90.20221231-1ubuntu1 bsdextrautils_2.38.1-4ubuntu1 bsdutils_1:2.38.1-4ubuntu1 build-essential_12.9ubuntu3 bzip2_1.0.8-5build1 ca-certificates_20211016ubuntu1 coreutils_9.1-1ubuntu2 cpp_4:12.2.0-1ubuntu1 cpp-12_12.2.0-12ubuntu1 dash_0.5.11+git20210903+057cd650a4ed-9ubuntu1 debconf_1.5.82 debhelper_13.10.1ubuntu1 debianutils_5.7-0.4 debugedit_1:5.0-5 dh-autoreconf_20 dh-strip-nondeterminism_1.13.0-2 diffutils_1:3.8-3 dpkg_1.21.17ubuntu5 dpkg-dev_1.21.17ubuntu5 dwz_0.15-1 e2fsprogs_1.46.6~rc1-1ubuntu1 fakeroot_1.30.1-1ubuntu1 file_1:5.44-1 findutils_4.9.0-3ubuntu1 g++_4:12.2.0-1ubuntu1 g++-12_12.2.0-12ubuntu1 gcc_4:12.2.0-1ubuntu1 gcc-12_12.2.0-12ubuntu1 gcc-12-base_12.2.0-12ubuntu1 gettext_0.21-10 gettext-base_0.21-10 gpg_2.2.40-1ubuntu2 gpg-agent_2.2.40-1ubuntu2 gpgconf_2.2.40-1ubuntu2 gpgv_2.2.40-1ubuntu2 grep_3.8-3 groff-base_1.22.4-9 gzip_1.12-1ubuntu1 hostname_3.23ubuntu2 init_1.65.2 init-system-helpers_1.65.2 intltool-debian_0.35.0+20060710.6 libacl1_2.3.1-2 libapparmor1_3.0.8-1ubuntu1 libapt-pkg6.0_2.5.4 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.3 libasan8_12.2.0-12ubuntu1 libassuan0_2.5.5-5 libatomic1_12.2.0-12ubuntu1 libattr1_1:2.5.1-3 libaudit-common_1:3.0.7-1ubuntu3 libaudit1_1:3.0.7-1ubuntu3 libbinutils_2.39.90.20221231-1ubuntu1 libblkid1_2.38.1-4ubuntu1 libbz2-1.0_1.0.8-5build1 libc-bin_2.36-0ubuntu4 libc-dev-bin_2.36-0ubuntu4 libc6_2.36-0ubuntu4 libc6-dev_2.36-0ubuntu4 libcap-ng0_0.8.3-1build1 libcap2_1:2.66-3 libcc1-0_12.2.0-12ubuntu1 libcom-err2_1.46.6~rc1-1ubuntu1 libcrypt-dev_1:4.4.33-2 libcrypt1_1:4.4.33-2 libcryptsetup12_2:2.5.0-6ubuntu3 libctf-nobfd0_2.39.90.20221231-1ubuntu1 libctf0_2.39.90.20221231-1ubuntu1 libdb5.3_5.3.28+dfsg1-0.10 libdebconfclient0_0.264ubuntu1 libdebhelper-perl_13.10.1ubuntu1 libdevmapper1.02.1_2:1.02.185-1ubuntu1 libdpkg-perl_1.21.17ubuntu5 libdw1_0.188-2 libelf1_0.188-2 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+------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: muscle Binary: muscle Architecture: any Version: 1:5.1.0-1 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Charles Plessy , Andreas Tille Homepage: https://www.drive5.com/muscle/ Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/muscle Vcs-Git: https://salsa.debian.org/med-team/muscle.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), debhelper Package-List: muscle deb science optional arch=any Checksums-Sha1: 1c3932b45e1b3f21314d2d6c13927e2de32b580a 185437 muscle_5.1.0.orig.tar.gz 0bdc9bd1ebfa5ad850463e7a2335005188459415 9004 muscle_5.1.0-1.debian.tar.xz Checksums-Sha256: 2bba8b06e3ccabf6465fa26f459763b2029d7e7b9596881063e3aaba60d9e87d 185437 muscle_5.1.0.orig.tar.gz 7cf091b531f07184d31e2aeb23cf653f0580f782509f140f2847924f182dd15d 9004 muscle_5.1.0-1.debian.tar.xz Files: 32cf293ee6104e0aab36ac07b5ec951e 185437 muscle_5.1.0.orig.tar.gz aa7d5bae27ed7d3b04623968fe6c5269 9004 muscle_5.1.0-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmO/0zsRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFxZw/+OOA0d0gnCpQVTIzufBcJ5NivYrIynm2I 2swKNgdAPxcA+JRvdYF2Ry66FoVioZ8t9iMvvmPvQRxeVYzaMha7m53cuY233xj6 hxbfW6RUbybNwRm50JMtnsE1JGZxSq0gFZWCSrpMlsfr82w2n5odqUqR5twpgay/ b19pWxhoNPbgZxXyZtKwo8vOUFQu50mbb4YyEDO3915k1w+2P16+e524pkyz76SP dkeNlXtdE9kLIRwYtFbIv/5Vb/jN3CQBNTOOPWrYVnOoEXEBe+AaQTgI2m/Xuljj ixnuUYvfoq+bJjjVnqqSCmLmfnsWrK/PvmyjsRWk4UwTTfQicqF/LLyGIOKdLuTw hybkc5zpy89Tm0kP7mV7RTJhwIxqEzqu2h7IcL/66t8GXFsAISnQwd4w2h9xd6NN XVj8D6Bg4f8Dq3bTezn9UMjvVTuspJK2D9rRlPXK+vhEdNiD+vKG29XqWUXXigYk RSC2qiux3qoruZOYe4VsisYgVfpji65qVqeJC1zdvyBNOsjR2WPjq9c8+zl6syCj 6wfhT9sjm9IWtCr2IyaZ5cQkiM6n+dW+2sQU47+sJk3J429TGqUGSn4tzTUfeL4n um7lMYcmnMOGIHACrYLCYK8ODhfQM9Z6V5V1pYy5dJ2nTCe1onE6SB7imyyiUpaj YXZhWUFBrvU= =eHyS -----END PGP SIGNATURE----- gpgv: Signature made Thu Jan 12 09:30:35 2023 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./muscle_5.1.0-1.dsc: no acceptable signature found dpkg-source: info: extracting muscle in /<> dpkg-source: info: unpacking muscle_5.1.0.orig.tar.gz dpkg-source: info: unpacking muscle_5.1.0-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying makefile.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-25478692 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-25478692 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-25478692 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package muscle dpkg-buildpackage: info: source version 1:5.1.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean --sourcedirectory=src dh_auto_clean -O--sourcedirectory=src cd src && make -j4 clean make[1]: Entering directory '/<>/src' rm -rf gitver.txt Linux/ make[1]: Leaving directory '/<>/src' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary-arch dh binary-arch --sourcedirectory=src dh_update_autotools_config -a -O--sourcedirectory=src dh_autoreconf -a -O--sourcedirectory=src dh_auto_configure -a -O--sourcedirectory=src debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build -- 'GPP=$(CXX)' cd src && make -j4 "INSTALL=install --strip-program=true" GPP=\$\(CXX\) make[2]: Entering directory '/<>/src' bash ./gitver.bash mkdir -p Linux/ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/addconfseq.o addconfseq.cpp Repo not found, git hash set to zero g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/align.o align.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/alignpairflat.o alignpairflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/allocflat.o allocflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/alnalnsflat.o alnalnsflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/alnmsasflat.o alnmsasflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/alnmsasflat3.o alnmsasflat3.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/alpha.o alpha.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/alpha3.o alpha3.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/assertsameseqs.o assertsameseqs.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/buildposterior3flat.o buildposterior3flat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/buildpostflat.o buildpostflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/bwdflat3.o bwdflat3.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/calcalnflat.o calcalnflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/calcalnscoreflat.o calcalnscoreflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/calcalnscoresparse.o calcalnscoresparse.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/calcposteriorflat.o calcposteriorflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/colscoreefa.o colscoreefa.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/consflat.o consflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/conspairflat.o conspairflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/defaulthmmparams.o defaulthmmparams.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/derep.o derep.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/diagbox.o diagbox.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/disperse.o disperse.cpp derep.cpp: In member function ‘uint Derep::CalcHash(const Sequence*) const’: derep.cpp:15:19: warning: conversion from ‘long long unsigned int’ to ‘uint64’ {aka ‘long unsigned int’} changes value from ‘14695981039346656037’ to ‘2216829733’ [-Woverflow] 15 | uint64 hash = 0xcbf29ce484222325uL; | ^~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/dividetree.o dividetree.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/eacluster.o eacluster.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/eadistmx.o eadistmx.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/eadistmxmsas.o eadistmxmsas.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/eesort.o eesort.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/efabestcols.o efabestcols.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/efabestconf.o efabestconf.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/efaexplode.o efaexplode.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/efastats.o efastats.cpp In file included from /usr/include/c++/12/vector:70, from myutils.h:25, from muscle.h:21, from efabestcols.cpp:1: /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void cmd_efa_bestcols()’ at efabestcols.cpp:46:18: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/ensemble.o ensemble.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/fa2efa.o fa2efa.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/fasta.o fasta.cpp In file included from /usr/include/c++/12/bits/stl_algo.h:60, from /usr/include/c++/12/algorithm:61, from myutils.h:32, from muscle.h:21, from efastats.cpp:1: /usr/include/c++/12/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1802 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1908 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/12/vector:70, from myutils.h:25: /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void CmpRef(const Ensemble&, const MSA&, double, std::vector&, std::vector&)’ at efastats.cpp:21:15, inlined from ‘void cmd_efastats()’ at efastats.cpp:41:9: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void CmpRef(const Ensemble&, const MSA&, double, std::vector&, std::vector&)’ at efastats.cpp:22:16, inlined from ‘void cmd_efastats()’ at efastats.cpp:41:9: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void cmd_efastats()’ at efastats.cpp:70:16: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘void cmd_efastats()’ at efastats.cpp:78:6: /usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1937 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1938 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1939 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/12/bits/stl_algo.h:1940:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘void cmd_efastats()’ at efastats.cpp:78:6: /usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1854 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘void cmd_efastats()’ at efastats.cpp:87:7: /usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1937 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1938 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1939 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/12/bits/stl_algo.h:1940:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘void cmd_efastats()’ at efastats.cpp:87:7: /usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1854 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘void cmd_efastats()’ at efastats.cpp:88:7: /usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1937 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1938 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1939 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/12/bits/stl_algo.h:1940:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘void cmd_efastats()’ at efastats.cpp:88:7: /usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1854 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/fasta2.o fasta2.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/fwdflat3.o fwdflat3.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/getconsseq.o getconsseq.cpp In file included from /usr/include/c++/12/bits/stl_algo.h:60, from /usr/include/c++/12/algorithm:61, from myutils.h:32, from muscle.h:21, from ensemble.cpp:1: /usr/include/c++/12/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1802 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1908 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/getpairs.o getpairs.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/getpostpairsalignedflat.o getpostpairsalignedflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/globalinputms.o globalinputms.cpp In file included from /usr/include/c++/12/vector:70, from myutils.h:25: /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 439 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/12/vector:64: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void Ensemble::GetTestUniqueIxs(uint, const std::set >&, std::vector&, std::vector&) const’ at ensemble.cpp:915:19: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void Ensemble::GetDispersion(double, double&, double&) const’ at ensemble.cpp:776:16: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘void Ensemble::GetDispersion(double, double&, double&) const’ at ensemble.cpp:777:17: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘void Ensemble::GetDispersion(double, double&, double&) const’ at ensemble.cpp:780:6: /usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1937 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1938 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1939 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/12/bits/stl_algo.h:1940:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘void Ensemble::GetDispersion(double, double&, double&) const’ at ensemble.cpp:780:6: /usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1854 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘void Ensemble::GetDispersion(double, double&, double&) const’ at ensemble.cpp:781:6: /usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1937 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1938 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1939 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/12/bits/stl_algo.h:1940:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘void Ensemble::GetDispersion(double, double&, double&) const’ at ensemble.cpp:781:6: /usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1854 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/guidetreejoinorder.o guidetreejoinorder.cpp In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, inlined from ‘double Ensemble::GetMedianConf(uint) const’ at ensemble.cpp:672:18: /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1287 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘double Ensemble::GetMedianConf(uint) const’ at ensemble.cpp:674:6: /usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1937 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1938 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1939 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/12/bits/stl_algo.h:1940:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/12/bits/stl_algo.h:4820:18, inlined from ‘double Ensemble::GetMedianConf(uint) const’ at ensemble.cpp:674:6: /usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1854 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/heatmapcolors.o heatmapcolors.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/help.o help.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/hmmdump.o hmmdump.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/hmmparams.o hmmparams.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/jalview.o jalview.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/jointrees.o jointrees.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/letterconf.o letterconf.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/letterconfhtml.o letterconfhtml.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/logaln.o logaln.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/logdistmx.o logdistmx.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/logmx.o logmx.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/main.o main.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/make_a2m.o make_a2m.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/maxcc.o maxcc.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/mpcflat.o mpcflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/msa.o msa.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/msa2.o msa2.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/msastats.o msastats.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/multisequence.o multisequence.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/mysparsemx.o mysparsemx.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/myutils.o myutils.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/pairhmm.o pairhmm.cpp myutils.cpp:1626:31: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1626 | Log(" built %s %s\n", __DATE__, __TIME__); | ^~~~~~~~ myutils.cpp:1626:41: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 1626 | Log(" built %s %s\n", __DATE__, __TIME__); | ^~~~~~~~ myutils.cpp:2092:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 2092 | fprintf(f, "Built %s %s\n", __DATE__, __TIME__); | ^~~~~~~~ myutils.cpp:2092:47: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 2092 | fprintf(f, "Built %s %s\n", __DATE__, __TIME__); | ^~~~~~~~ myutils.cpp:2115:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 2115 | fprintf(f, "Built %s %s\n", __DATE__, __TIME__); | ^~~~~~~~ myutils.cpp:2115:47: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 2115 | fprintf(f, "Built %s %s\n", __DATE__, __TIME__); | ^~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/permutetree.o permutetree.cpp myutils.cpp: In function ‘void IncrementRand()’: myutils.cpp:2268:32: warning: right shift count >= width of type [-Wshift-count-overflow] 2268 | g_X[4] = (uint32) (Sum >> 32); | ~~~~^~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/perturbhmm.o perturbhmm.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/pprog.o pprog.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/pprog2.o pprog2.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/pprogt.o pprogt.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/probcons.o probcons.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/progalnflat.o progalnflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/project.o project.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/qscore.o qscore.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/qscore2.o qscore2.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/qscoreefa.o qscoreefa.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/qscorer.o qscorer.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/quarts.o quarts.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/randomchaintree.o randomchaintree.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/refineflat.o refineflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/relabel.o relabel.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/relaxflat.o relaxflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/resample.o resample.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/seb8.o seb8.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/seq.o seq.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/sequence.o sequence.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/setprobconsparams.o setprobconsparams.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/stripgappycols.o stripgappycols.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/stripgappyrows.o stripgappyrows.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/super4.o super4.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/super5.o super5.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/testfb.o testfb.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/testlog.o testlog.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/testscoretype.o testscoretype.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/textfile.o textfile.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/totalprobflat.o totalprobflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/tracebackflat.o tracebackflat.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/transaln.o transaln.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/transq.o transq.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/tree.o tree.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/tree2.o tree2.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/tree4.o tree4.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/treefromfile.o treefromfile.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/treeperm.o treeperm.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/treesplitter.o treesplitter.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/treesubsetnodes.o treesubsetnodes.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/treetofile.o treetofile.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/trimtoref.o trimtoref.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/trimtorefefa.o trimtorefefa.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/uclust.o uclust.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/upgma5.o upgma5.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/usage.o usage.cpp g++ -Wdate-time -D_FORTIFY_SOURCE=2 -DNDEBUG -pthread -g -O2 -ffile-prefix-map=/<>=. -fdebug-prefix-map=/<>=/usr/src/muscle-1:5.1.0-1 -fstack-protector-strong -Wformat -Werror=format-security -O3 -fopenmp -ffast-math -c -o Linux/usorter.o usorter.cpp g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -O3 -fopenmp -pthread -lpthread Linux/addconfseq.o Linux/align.o Linux/alignpairflat.o Linux/allocflat.o Linux/alnalnsflat.o Linux/alnmsasflat.o Linux/alnmsasflat3.o Linux/alpha.o Linux/alpha3.o Linux/assertsameseqs.o Linux/buildposterior3flat.o Linux/buildpostflat.o Linux/bwdflat3.o Linux/calcalnflat.o Linux/calcalnscoreflat.o Linux/calcalnscoresparse.o Linux/calcposteriorflat.o Linux/colscoreefa.o Linux/consflat.o Linux/conspairflat.o Linux/defaulthmmparams.o Linux/derep.o Linux/diagbox.o Linux/disperse.o Linux/dividetree.o Linux/eacluster.o Linux/eadistmx.o Linux/eadistmxmsas.o Linux/eesort.o Linux/efabestcols.o Linux/efabestconf.o Linux/efaexplode.o Linux/efastats.o Linux/ensemble.o Linux/fa2efa.o Linux/fasta.o Linux/fasta2.o Linux/fwdflat3.o Linux/getconsseq.o Linux/getpairs.o Linux/getpostpairsalignedflat.o Linux/globalinputms.o Linux/guidetreejoinorder.o Linux/heatmapcolors.o Linux/help.o Linux/hmmdump.o Linux/hmmparams.o Linux/jalview.o Linux/jointrees.o Linux/letterconf.o Linux/letterconfhtml.o Linux/logaln.o Linux/logdistmx.o Linux/logmx.o Linux/main.o Linux/make_a2m.o Linux/maxcc.o Linux/mpcflat.o Linux/msa.o Linux/msa2.o Linux/msastats.o Linux/multisequence.o Linux/mysparsemx.o Linux/myutils.o Linux/pairhmm.o Linux/permutetree.o Linux/perturbhmm.o Linux/pprog.o Linux/pprog2.o Linux/pprogt.o Linux/probcons.o Linux/progalnflat.o Linux/project.o Linux/qscore.o Linux/qscore2.o Linux/qscoreefa.o Linux/qscorer.o Linux/quarts.o Linux/randomchaintree.o Linux/refineflat.o Linux/relabel.o Linux/relaxflat.o Linux/resample.o Linux/seb8.o Linux/seq.o Linux/sequence.o Linux/setprobconsparams.o Linux/stripgappycols.o Linux/stripgappyrows.o Linux/super4.o Linux/super5.o Linux/testfb.o Linux/testlog.o Linux/testscoretype.o Linux/textfile.o Linux/totalprobflat.o Linux/tracebackflat.o Linux/transaln.o Linux/transq.o Linux/tree.o Linux/tree2.o Linux/tree4.o Linux/treefromfile.o Linux/treeperm.o Linux/treesplitter.o Linux/treesubsetnodes.o Linux/treetofile.o Linux/trimtoref.o Linux/trimtorefefa.o Linux/uclust.o Linux/upgma5.o Linux/usage.o Linux/usorter.o -o Linux/muscle # Warning: do not add -d option to strip, this is not portable #strip Linux/muscle make[2]: Leaving directory '/<>/src' make[1]: Leaving directory '/<>' dh_auto_test -a -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -a -O--sourcedirectory=src dh_prep -a -O--sourcedirectory=src dh_auto_install --destdir=debian/muscle/ -a -O--sourcedirectory=src dh_install -a -O--sourcedirectory=src dh_installdocs -a -O--sourcedirectory=src dh_installchangelogs -a -O--sourcedirectory=src dh_installexamples -a -O--sourcedirectory=src dh_installman -a -O--sourcedirectory=src dh_installsystemduser -a -O--sourcedirectory=src dh_perl -a -O--sourcedirectory=src dh_link -a -O--sourcedirectory=src dh_strip_nondeterminism -a -O--sourcedirectory=src dh_compress -a -O--sourcedirectory=src dh_fixperms -a -O--sourcedirectory=src dh_missing -a -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src dh_strip -a -O--sourcedirectory=src abb7d6d4229942326db035a52dc396af6a493497 dh_makeshlibs -a -O--sourcedirectory=src dh_shlibdeps -a -O--sourcedirectory=src dpkg-shlibdeps: warning: debian/muscle/usr/bin/muscle contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin dh_installdeb -a -O--sourcedirectory=src dh_gencontrol -a -O--sourcedirectory=src dh_md5sums -a -O--sourcedirectory=src dh_builddeb -a -O--sourcedirectory=src INFO: pkgstriptranslations version 149 INFO: pkgstriptranslations version 149 pkgstriptranslations: processing muscle (in debian/muscle); do_strip: , oemstrip: pkgstriptranslations: processing muscle-dbgsym (in debian/.debhelper/muscle/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/muscle/DEBIAN/control, package muscle, directory debian/muscle pkgstripfiles: Running PNG optimization (using 4 cpus) for package muscle ... pkgstripfiles: No PNG files. dpkg-deb: building package 'muscle' in '../muscle_5.1.0-1_armhf.deb'. pkgstripfiles: processing control file: debian/.debhelper/muscle/dbgsym-root/DEBIAN/control, package muscle-dbgsym, directory debian/.debhelper/muscle/dbgsym-root dpkg-deb: building package 'muscle-dbgsym' in 'debian/.debhelper/scratch-space/build-muscle/muscle-dbgsym_5.1.0-1_armhf.deb'. Renaming muscle-dbgsym_5.1.0-1_armhf.deb to muscle-dbgsym_5.1.0-1_armhf.ddeb dpkg-genbuildinfo --build=any -O../muscle_5.1.0-1_armhf.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../muscle_5.1.0-1_armhf.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2023-01-12T17:21:24Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ muscle_5.1.0-1_armhf.changes: ----------------------------- Format: 1.8 Date: Sat, 05 Nov 2022 19:45:38 +0100 Source: muscle Binary: muscle Built-For-Profiles: noudeb Architecture: armhf Version: 1:5.1.0-1 Distribution: lunar-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Lance Lin Description: muscle - Multiple alignment program of protein sequences Changes: muscle (1:5.1.0-1) unstable; urgency=medium . * Team upload. . [ Charles Plessy ] * License is GPL-3 . [ Lance Lin ] * Standards-Version: 4.6.1 (routine-update) * Remove trailing whitespace in debian/control (routine-update) * d/patches/makefile.patch: Refresh patch to match new source Checksums-Sha1: 77aadc25d02b7b2a609381eb41dbfa4114625dbd 5454854 muscle-dbgsym_5.1.0-1_armhf.ddeb e1036f9e75d9e2c0273cca7eb4963c46ca318eaf 5513 muscle_5.1.0-1_armhf.buildinfo 52a9d28f5fe2bd8b6ba743167f98c50f54feec27 278870 muscle_5.1.0-1_armhf.deb Checksums-Sha256: 1bd4a1d8b6ea03ad951adcdb923c77d94a1fd73c668ed9f5b9fe171faefcd693 5454854 muscle-dbgsym_5.1.0-1_armhf.ddeb 6a1fdd5037b288620d5a466b4cad1862ba4a06063d6c50826820358205f36c1d 5513 muscle_5.1.0-1_armhf.buildinfo 1e10fc5bcd3147900a12583173f46b721f6ca770056333186f1ea4c190299385 278870 muscle_5.1.0-1_armhf.deb Files: a2ee738e60c75c751c82c2cf660a18e3 5454854 debug optional muscle-dbgsym_5.1.0-1_armhf.ddeb af0a065e1b44ee293129fc460274b57e 5513 science optional muscle_5.1.0-1_armhf.buildinfo 4d58aaef0b9695f1cceb76a65bd13ff3 278870 science optional muscle_5.1.0-1_armhf.deb /<>/muscle_5.1.0-1_armhf.changes.new could not be renamed to /<>/muscle_5.1.0-1_armhf.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: muscle Binary: muscle muscle-dbgsym Architecture: armhf Version: 1:5.1.0-1 Checksums-Md5: a2ee738e60c75c751c82c2cf660a18e3 5454854 muscle-dbgsym_5.1.0-1_armhf.ddeb 4d58aaef0b9695f1cceb76a65bd13ff3 278870 muscle_5.1.0-1_armhf.deb Checksums-Sha1: 77aadc25d02b7b2a609381eb41dbfa4114625dbd 5454854 muscle-dbgsym_5.1.0-1_armhf.ddeb 52a9d28f5fe2bd8b6ba743167f98c50f54feec27 278870 muscle_5.1.0-1_armhf.deb Checksums-Sha256: 1bd4a1d8b6ea03ad951adcdb923c77d94a1fd73c668ed9f5b9fe171faefcd693 5454854 muscle-dbgsym_5.1.0-1_armhf.ddeb 1e10fc5bcd3147900a12583173f46b721f6ca770056333186f1ea4c190299385 278870 muscle_5.1.0-1_armhf.deb Build-Origin: Ubuntu Build-Architecture: armhf Build-Date: Thu, 12 Jan 2023 17:21:24 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: autoconf (= 2.71-2), automake (= 1:1.16.5-1.3), autopoint (= 0.21-10), autotools-dev (= 20220109.1), base-files (= 12.3ubuntu1), base-passwd (= 3.6.1), bash (= 5.2.15-2ubuntu1), binutils (= 2.39.90.20221231-1ubuntu1), binutils-arm-linux-gnueabihf (= 2.39.90.20221231-1ubuntu1), binutils-common (= 2.39.90.20221231-1ubuntu1), bsdextrautils (= 2.38.1-4ubuntu1), bsdutils (= 1:2.38.1-4ubuntu1), build-essential (= 12.9ubuntu3), bzip2 (= 1.0.8-5build1), coreutils (= 9.1-1ubuntu2), cpp (= 4:12.2.0-1ubuntu1), cpp-12 (= 12.2.0-12ubuntu1), dash (= 0.5.11+git20210903+057cd650a4ed-9ubuntu1), debconf (= 1.5.82), debhelper (= 13.10.1ubuntu1), debianutils (= 5.7-0.4), debugedit (= 1:5.0-5), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.13.0-2), diffutils (= 1:3.8-3), dpkg (= 1.21.17ubuntu5), dpkg-dev (= 1.21.17ubuntu5), dwz (= 0.15-1), file (= 1:5.44-1), findutils (= 4.9.0-3ubuntu1), g++ (= 4:12.2.0-1ubuntu1), g++-12 (= 12.2.0-12ubuntu1), gcc (= 4:12.2.0-1ubuntu1), gcc-12 (= 12.2.0-12ubuntu1), gcc-12-base (= 12.2.0-12ubuntu1), gettext (= 0.21-10), gettext-base (= 0.21-10), grep (= 3.8-3), groff-base (= 1.22.4-9), gzip (= 1.12-1ubuntu1), hostname (= 3.23ubuntu2), init-system-helpers (= 1.65.2), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.1-2), libarchive-zip-perl (= 1.68-1), libasan8 (= 12.2.0-12ubuntu1), libatomic1 (= 12.2.0-12ubuntu1), libattr1 (= 1:2.5.1-3), libaudit-common (= 1:3.0.7-1ubuntu3), libaudit1 (= 1:3.0.7-1ubuntu3), libbinutils (= 2.39.90.20221231-1ubuntu1), libblkid1 (= 2.38.1-4ubuntu1), libbz2-1.0 (= 1.0.8-5build1), libc-bin (= 2.36-0ubuntu4), libc-dev-bin (= 2.36-0ubuntu4), libc6 (= 2.36-0ubuntu4), libc6-dev (= 2.36-0ubuntu4), libcap-ng0 (= 0.8.3-1build1), libcap2 (= 1:2.66-3), libcc1-0 (= 12.2.0-12ubuntu1), libcom-err2 (= 1.46.6~rc1-1ubuntu1), libcrypt-dev (= 1:4.4.33-2), libcrypt1 (= 1:4.4.33-2), libctf-nobfd0 (= 2.39.90.20221231-1ubuntu1), libctf0 (= 2.39.90.20221231-1ubuntu1), libdb5.3 (= 5.3.28+dfsg1-0.10), libdebconfclient0 (= 0.264ubuntu1), libdebhelper-perl (= 13.10.1ubuntu1), libdpkg-perl (= 1.21.17ubuntu5), libdw1 (= 0.188-2), libelf1 (= 0.188-2), libfile-stripnondeterminism-perl (= 1.13.0-2), libgcc-12-dev (= 12.2.0-12ubuntu1), libgcc-s1 (= 12.2.0-12ubuntu1), libgcrypt20 (= 1.10.1-2ubuntu1), libgdbm-compat4 (= 1.23-3), libgdbm6 (= 1.23-3), libgmp10 (= 2:6.2.1+dfsg1-1.1ubuntu1), libgomp1 (= 12.2.0-12ubuntu1), libgpg-error0 (= 1.46-1), libgssapi-krb5-2 (= 1.20.1-1build1), libicu71 (= 71.1-3ubuntu1), libisl23 (= 0.25-1), libjansson4 (= 2.14-2), libk5crypto3 (= 1.20.1-1build1), libkeyutils1 (= 1.6.3-2), libkrb5-3 (= 1.20.1-1build1), libkrb5support0 (= 1.20.1-1build1), liblz4-1 (= 1.9.4-1), liblzma5 (= 5.4.0-0.1), libmagic-mgc (= 1:5.44-1), libmagic1 (= 1:5.44-1), libmd0 (= 1.0.4-2), libmount1 (= 2.38.1-4ubuntu1), libmpc3 (= 1.3.1-1), libmpfr6 (= 4.1.1-3), libnsl-dev (= 1.3.0-2build2), libnsl2 (= 1.3.0-2build2), libpam-modules (= 1.5.2-5ubuntu1), libpam-modules-bin (= 1.5.2-5ubuntu1), libpam-runtime (= 1.5.2-5ubuntu1), libpam0g (= 1.5.2-5ubuntu1), libpcre2-8-0 (= 10.42-1), libperl5.36 (= 5.36.0-7), libpipeline1 (= 1.5.7-1), libseccomp2 (= 2.5.4-1ubuntu2), libselinux1 (= 3.4-1build1), libsmartcols1 (= 2.38.1-4ubuntu1), libssl3 (= 3.0.7-1ubuntu1), libstdc++-12-dev (= 12.2.0-12ubuntu1), libstdc++6 (= 12.2.0-12ubuntu1), libsub-override-perl (= 0.09-4), libsystemd0 (= 252.4-1ubuntu1), libtinfo6 (= 6.4-1), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtool (= 2.4.7-5), libubsan1 (= 12.2.0-12ubuntu1), libuchardet0 (= 0.0.7-1build2), libudev1 (= 252.4-1ubuntu1), libunistring2 (= 1.0-2), libuuid1 (= 2.38.1-4ubuntu1), libxml2 (= 2.9.14+dfsg-1.1), libzstd1 (= 1.5.2+dfsg2-3), linux-libc-dev (= 5.19.0-23.24), login (= 1:4.13+dfsg1-1ubuntu1), lto-disabled-list (= 37), m4 (= 1.4.19-2), make (= 4.3-4.1build1), man-db (= 2.11.2-1), mawk (= 1.3.4.20200120-3.1), ncurses-base (= 6.4-1), ncurses-bin (= 6.4-1), patch (= 2.7.6-7build2), perl (= 5.36.0-7), perl-base (= 5.36.0-7), perl-modules-5.36 (= 5.36.0-7), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.8-1ubuntu2), sensible-utils (= 0.0.17), sysvinit-utils (= 3.05-7ubuntu1), tar (= 1.34+dfsg-1.1), usrmerge (= 33ubuntu1), util-linux (= 2.38.1-4ubuntu1), util-linux-extra (= 2.38.1-4ubuntu1), xz-utils (= 5.4.0-0.1), zlib1g (= 1:1.2.13.dfsg-1ubuntu4) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1667673938" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ muscle_5.1.0-1_armhf.deb ------------------------ new Debian package, version 2.0. size 278870 bytes: control archive=1374 bytes. 1971 bytes, 43 lines control 399 bytes, 6 lines md5sums Package: muscle Version: 1:5.1.0-1 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 538 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.5), libgomp1 (>= 4.9), libstdc++6 (>= 11) Enhances: seaview, t-coffee Conflicts: muscle-doc Replaces: muscle-doc Provides: muscle-doc Section: science Priority: optional Homepage: https://www.drive5.com/muscle/ Description: Multiple alignment program of protein sequences MUSCLE is a multiple alignment program for protein sequences. MUSCLE stands for multiple sequence comparison by log-expectation. In the authors tests, MUSCLE achieved the highest scores of all tested programs on several alignment accuracy benchmarks, and is also one of the fastest programs out there. . Muscle v5 is a major re-write of MUSCLE based on new algorithms. . Users should be aware that command line arguments compared to version 3.x of MUSCLE have changed! . Highest accuracy, scalable to thousands of sequences . Compared to previous versions, Muscle v5 is much more accurate, is often faster, and scales to much larger datasets. At the time of writing (late 2021), Muscle v5 has the highest scores on multiple alignment benchmarks including Balibase, Bralibase, Prefab and Balifam. It can align tens of thousands of sequences with high accuracy on a low-cost commodity computer (say, an 8-core Intel CPU with 32 Gb RAM). On large datasets, Muscle v5 is 20-30% more accurate than MAFFT and Clustal-Omega. . Alignment ensembles . Muscle v5 can generate ensembles of high-accuracy alternative alignments. All replicates have equal average accuracy on benchmark test, including the MSA made with default parameters. By comparing results of downstream analysis (trees, structure prediction...) on different replicates, you can assess the effects of alignment errors on your study. drwxr-xr-x root/root 0 2022-11-05 18:45 ./ drwxr-xr-x root/root 0 2022-11-05 18:45 ./usr/ drwxr-xr-x root/root 0 2022-11-05 18:45 ./usr/bin/ -rwxr-xr-x root/root 531044 2022-11-05 18:45 ./usr/bin/muscle drwxr-xr-x root/root 0 2022-11-05 18:45 ./usr/share/ drwxr-xr-x root/root 0 2022-11-05 18:45 ./usr/share/doc/ drwxr-xr-x root/root 0 2022-11-05 18:45 ./usr/share/doc/muscle/ -rw-r--r-- root/root 717 2022-11-05 18:45 ./usr/share/doc/muscle/NEWS.Debian.gz -rw-r--r-- root/root 760 2022-11-05 18:45 ./usr/share/doc/muscle/changelog.Debian.gz -rw-r--r-- root/root 1679 2022-11-05 18:45 ./usr/share/doc/muscle/copyright drwxr-xr-x root/root 0 2022-11-05 18:45 ./usr/share/doc/muscle/examples/ -rw-r--r-- root/root 2269 2022-11-05 18:45 ./usr/share/doc/muscle/examples/example.fa drwxr-xr-x root/root 0 2022-11-05 18:45 ./usr/share/man/ drwxr-xr-x root/root 0 2022-11-05 18:45 ./usr/share/man/man1/ -rw-r--r-- root/root 1480 2022-11-05 18:45 ./usr/share/man/man1/muscle.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: armhf Build Type: any Build-Space: 73220 Build-Time: 99 Distribution: lunar-proposed Host Architecture: armhf Install-Time: 8 Job: muscle_5.1.0-1.dsc Machine Architecture: arm64 Package: muscle Package-Time: 109 Source-Version: 1:5.1.0-1 Space: 73220 Status: successful Version: 1:5.1.0-1 -------------------------------------------------------------------------------- Finished at 2023-01-12T17:21:24Z Build needed 00:01:49, 73220k disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=lunar --arch=armhf PACKAGEBUILD-25478692 Scanning for processes to kill in build PACKAGEBUILD-25478692