https://launchpad.net/ubuntu/+source/clustalo/1.2.4-2/+build/15144863 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux bos02-arm64-036 4.4.0-130-generic #156-Ubuntu SMP Thu Jun 14 08:52:48 UTC 2018 aarch64 Buildd toolchain package versions: launchpad-buildd_163 python-lpbuildd_163 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.4 dpkg-dev_1.18.4ubuntu1.4 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 18 Jul 23:14:00 ntpdate[1852]: adjust time server 10.211.37.1 offset 0.003766 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=cosmic --arch=armhf PACKAGEBUILD-15144863 /home/buildd/filecache-default/fc6c56f66744d62233b3c844f67cb7d83d839bbc Creating target for build PACKAGEBUILD-15144863 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=cosmic --arch=armhf PACKAGEBUILD-15144863 Starting target for build PACKAGEBUILD-15144863 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=cosmic --arch=armhf PACKAGEBUILD-15144863 'deb http://ftpmaster.internal/ubuntu cosmic main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-security main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-updates main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-15144863 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=cosmic --arch=armhf PACKAGEBUILD-15144863 Updating target for build PACKAGEBUILD-15144863 Get:1 http://ftpmaster.internal/ubuntu cosmic InRelease [242 kB] Get:2 http://ftpmaster.internal/ubuntu cosmic-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic-proposed InRelease [92.5 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main armhf Packages [1031 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main Translation-en [524 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/universe armhf Packages [8355 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/universe Translation-en [5018 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf Packages [91.6 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic-proposed/main Translation-en [54.7 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic-proposed/universe armhf Packages [394 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic-proposed/universe Translation-en [192 kB] Fetched 16.1 MB in 6s (2494 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: g++-7 libargon2-0 libncursesw5 libprocps6 libstdc++-7-dev Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: cpp-8 g++-8 gcc-8 libargon2-1 libasan5 libgcc-8-dev libncurses6 libncursesw6 libprocps7 libstdc++-8-dev libtinfo6 libubsan1 The following packages will be upgraded: adduser apt base-files base-passwd bash binutils binutils-arm-linux-gnueabihf binutils-common bsdutils build-essential cpp cpp-7 debconf debianutils dpkg dpkg-dev e2fslibs e2fsprogs fdisk g++ g++-7 gcc gcc-7 gcc-7-base gcc-8-base gpg gpg-agent gpgconf gpgv libapparmor1 libapt-pkg5.0 libargon2-0 libasan4 libatomic1 libaudit-common libaudit1 libbinutils libblkid1 libcap-ng0 libcc1-0 libcilkrts5 libcom-err2 libcomerr2 libcryptsetup12 libdpkg-perl libext2fs2 libfdisk1 libgcc-7-dev libgcc1 libgcrypt20 libgmp10 libgomp1 libgpg-error0 libkmod2 liblz4-1 libmount1 libncurses5 libncursesw5 libnpth0 libp11-kit0 libpcre3 libperl5.26 libpng16-16 libreadline7 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libslang2 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++-7-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo5 libubsan0 libudev1 libusb-0.1-4 libuuid1 linux-libc-dev make mount ncurses-base ncurses-bin openssl perl perl-base perl-modules-5.26 pinentry-curses pkgbinarymangler procps readline-common sed systemd systemd-sysv tar tzdata util-linux 102 upgraded, 12 newly installed, 0 to remove and 0 not upgraded. Need to get 69.3 MB of archives. After this operation, 68.8 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu cosmic/main armhf base-files armhf 10.1ubuntu4 [58.0 kB] Get:2 http://ftpmaster.internal/ubuntu cosmic/main armhf libtinfo6 armhf 6.1+20180210-4ubuntu1 [71.2 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic/main armhf debianutils armhf 4.8.6 [84.4 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic/main armhf bash armhf 4.4.18-2ubuntu2 [552 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main armhf bsdutils armhf 1:2.32-0.1ubuntu1 [55.5 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main armhf tar armhf 1.30+dfsg-2 [218 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/main armhf dpkg armhf 1.19.0.5ubuntu3 [1096 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/main armhf libext2fs2 armhf 1.44.3-1 [145 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic/main armhf e2fsprogs armhf 1.44.3-1 [375 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic/main armhf ncurses-bin armhf 6.1+20180210-4ubuntu1 [155 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic/main armhf perl-modules-5.26 all 5.26.2-6 [2762 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic/main armhf libperl5.26 armhf 5.26.2-6 [2870 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic/main armhf perl armhf 5.26.2-6 [202 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic/main armhf perl-base armhf 5.26.2-6 [1291 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic/main armhf sed armhf 4.5-1 [177 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic/main armhf libuuid1 armhf 2.32-0.1ubuntu1 [19.2 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic/main armhf libblkid1 armhf 2.32-0.1ubuntu1 [115 kB] Get:18 http://ftpmaster.internal/ubuntu cosmic/main armhf libfdisk1 armhf 2.32-0.1ubuntu1 [155 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic/main armhf libncursesw6 armhf 6.1+20180210-4ubuntu1 [104 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libpcre3 armhf 2:8.39-10ubuntu2 [207 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libselinux1 armhf 2.8-1build1 [59.2 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main armhf libmount1 armhf 2.32-0.1ubuntu1 [125 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/main armhf libsmartcols1 armhf 2.32-0.1ubuntu1 [76.2 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main armhf fdisk armhf 2.32-0.1ubuntu1 [98.7 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main armhf util-linux armhf 2.32-0.1ubuntu1 [858 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic/main armhf base-passwd armhf 3.5.45 [46.0 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic/main armhf ncurses-base all 6.1+20180210-4ubuntu1 [18.4 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgomp1 armhf 8.1.0-11ubuntu1 [66.6 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf gcc-8-base armhf 8.1.0-11ubuntu1 [18.8 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgcc1 armhf 1:8.1.0-11ubuntu1 [37.1 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libcc1-0 armhf 8.1.0-11ubuntu1 [32.5 kB] Get:32 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libatomic1 armhf 8.1.0-11ubuntu1 [7064 B] Get:33 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libstdc++6 armhf 8.1.0-11ubuntu1 [349 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic/main armhf liblz4-1 armhf 1.8.2-1ubuntu1 [76.1 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libudev1 armhf 238-5ubuntu2 [50.7 kB] Get:36 http://ftpmaster.internal/ubuntu cosmic/main armhf libapt-pkg5.0 armhf 1.7.0~alpha2 [731 kB] Get:37 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf debconf all 1.5.67 [124 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic/main armhf adduser all 3.117ubuntu1 [163 kB] Get:39 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgpg-error0 armhf 1.32-1 [48.4 kB] Get:40 http://ftpmaster.internal/ubuntu cosmic/main armhf libgcrypt20 armhf 1.8.3-1ubuntu1 [364 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic/main armhf gpgv armhf 2.2.8-1ubuntu1 [167 kB] Get:42 http://ftpmaster.internal/ubuntu cosmic/main armhf libseccomp2 armhf 2.3.3-3ubuntu1 [30.4 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic/main armhf apt armhf 1.7.0~alpha2 [1127 kB] Get:44 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libapparmor1 armhf 2.12-4ubuntu6 [27.1 kB] Get:45 http://ftpmaster.internal/ubuntu cosmic/main armhf libaudit-common all 1:2.8.3-1ubuntu2 [4064 B] Get:46 http://ftpmaster.internal/ubuntu cosmic/main armhf libcap-ng0 armhf 0.7.9-1 [10.1 kB] Get:47 http://ftpmaster.internal/ubuntu cosmic/main armhf libaudit1 armhf 1:2.8.3-1ubuntu2 [35.5 kB] Get:48 http://ftpmaster.internal/ubuntu cosmic/main armhf libargon2-1 armhf 0~20171227-0.1 [20.7 kB] Get:49 http://ftpmaster.internal/ubuntu cosmic/main armhf libcryptsetup12 armhf 2:2.0.3-6ubuntu1 [123 kB] Get:50 http://ftpmaster.internal/ubuntu cosmic/main armhf libkmod2 armhf 25-1ubuntu1 [35.7 kB] Get:51 http://ftpmaster.internal/ubuntu cosmic/main armhf mount armhf 2.32-0.1ubuntu1 [97.4 kB] Get:52 http://ftpmaster.internal/ubuntu cosmic/main armhf libncurses6 armhf 6.1+20180210-4ubuntu1 [78.5 kB] Get:53 http://ftpmaster.internal/ubuntu cosmic/main armhf libprocps7 armhf 2:3.3.15-2ubuntu1 [29.6 kB] Get:54 http://ftpmaster.internal/ubuntu cosmic/main armhf procps armhf 2:3.3.15-2ubuntu1 [219 kB] Get:55 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf systemd armhf 238-5ubuntu2 [2783 kB] Get:56 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libsystemd0 armhf 238-5ubuntu2 [189 kB] Get:57 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf systemd-sysv armhf 238-5ubuntu2 [13.7 kB] Get:58 http://ftpmaster.internal/ubuntu cosmic/main armhf libcom-err2 armhf 1.44.3-1 [8356 B] Get:59 http://ftpmaster.internal/ubuntu cosmic/main armhf libsepol1 armhf 2.8-1 [219 kB] Get:60 http://ftpmaster.internal/ubuntu cosmic/main armhf libsemanage-common all 2.8-1build1 [7000 B] Get:61 http://ftpmaster.internal/ubuntu cosmic/main armhf libsemanage1 armhf 2.8-1build1 [73.0 kB] Get:62 http://ftpmaster.internal/ubuntu cosmic/main armhf libss2 armhf 1.44.3-1 [9396 B] Get:63 http://ftpmaster.internal/ubuntu cosmic/main armhf libgmp10 armhf 2:6.1.2+dfsg-3 [182 kB] Get:64 http://ftpmaster.internal/ubuntu cosmic/main armhf libp11-kit0 armhf 0.23.12-2 [163 kB] Get:65 http://ftpmaster.internal/ubuntu cosmic/main armhf libtasn1-6 armhf 4.13-3 [31.1 kB] Get:66 http://ftpmaster.internal/ubuntu cosmic/main armhf libncurses5 armhf 6.1+20180210-4ubuntu1 [74.9 kB] Get:67 http://ftpmaster.internal/ubuntu cosmic/main armhf libncursesw5 armhf 6.1+20180210-4ubuntu1 [95.3 kB] Get:68 http://ftpmaster.internal/ubuntu cosmic/main armhf libtinfo5 armhf 6.1+20180210-4ubuntu1 [67.6 kB] Get:69 http://ftpmaster.internal/ubuntu cosmic/main armhf libargon2-0 armhf 0~20171227-0.1 [4536 B] Get:70 http://ftpmaster.internal/ubuntu cosmic/main armhf readline-common all 7.0-5 [52.2 kB] Get:71 http://ftpmaster.internal/ubuntu cosmic/main armhf libreadline7 armhf 7.0-5 [102 kB] Get:72 http://ftpmaster.internal/ubuntu cosmic/main armhf libslang2 armhf 2.3.2-1ubuntu1 [383 kB] Get:73 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libsqlite3-0 armhf 3.24.0-1 [429 kB] Get:74 http://ftpmaster.internal/ubuntu cosmic/main armhf libssl1.1 armhf 1.1.0g-2ubuntu5 [912 kB] Get:75 http://ftpmaster.internal/ubuntu cosmic/main armhf openssl armhf 1.1.0g-2ubuntu5 [510 kB] Get:76 http://ftpmaster.internal/ubuntu cosmic/main armhf tzdata all 2018e-1 [188 kB] Get:77 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libpng16-16 armhf 1.6.34-2 [159 kB] Get:78 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libbinutils armhf 2.31.1-1ubuntu2 [309 kB] Get:79 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf binutils-common armhf 2.31.1-1ubuntu2 [194 kB] Get:80 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf binutils armhf 2.31.1-1ubuntu2 [3344 B] Get:81 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf binutils-arm-linux-gnueabihf armhf 2.31.1-1ubuntu2 [2145 kB] Get:82 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf cpp-8 armhf 8.1.0-11ubuntu1 [5630 kB] Get:83 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf cpp armhf 4:8.1.0-2ubuntu0.3 [27.6 kB] Get:84 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libasan5 armhf 8.1.0-11ubuntu1 [348 kB] Get:85 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libubsan1 armhf 8.1.0-11ubuntu1 [109 kB] Get:86 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgcc-8-dev armhf 8.1.0-11ubuntu1 [632 kB] Get:87 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf gcc-8 armhf 8.1.0-11ubuntu1 [6330 kB] Get:88 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf gcc armhf 4:8.1.0-2ubuntu0.3 [5204 B] Get:89 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libstdc++-8-dev armhf 8.1.0-11ubuntu1 [1591 kB] Get:90 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf g++-8 armhf 8.1.0-11ubuntu1 [6414 kB] Get:91 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf g++ armhf 4:8.1.0-2ubuntu0.3 [1588 B] Get:92 http://ftpmaster.internal/ubuntu cosmic/main armhf make armhf 4.2.1-1.1 [149 kB] Get:93 http://ftpmaster.internal/ubuntu cosmic/main armhf dpkg-dev all 1.19.0.5ubuntu3 [608 kB] Get:94 http://ftpmaster.internal/ubuntu cosmic/main armhf libdpkg-perl all 1.19.0.5ubuntu3 [211 kB] Get:95 http://ftpmaster.internal/ubuntu cosmic/main armhf build-essential armhf 12.5ubuntu2 [4732 B] Get:96 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libasan4 armhf 7.3.0-26ubuntu1 [327 kB] Get:97 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libubsan0 armhf 7.3.0-26ubuntu1 [109 kB] Get:98 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libcilkrts5 armhf 7.3.0-26ubuntu1 [36.0 kB] Get:99 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf g++-7 armhf 7.3.0-26ubuntu1 [6049 kB] Get:100 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf gcc-7 armhf 7.3.0-26ubuntu1 [5949 kB] Get:101 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libstdc++-7-dev armhf 7.3.0-26ubuntu1 [1537 kB] Get:102 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgcc-7-dev armhf 7.3.0-26ubuntu1 [711 kB] Get:103 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf cpp-7 armhf 7.3.0-26ubuntu1 [5297 kB] Get:104 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf gcc-7-base armhf 7.3.0-26ubuntu1 [18.9 kB] Get:105 http://ftpmaster.internal/ubuntu cosmic/main armhf e2fslibs armhf 1.44.3-1 [2704 B] Get:106 http://ftpmaster.internal/ubuntu cosmic/main armhf pinentry-curses armhf 1.1.0-1build2 [31.4 kB] Get:107 http://ftpmaster.internal/ubuntu cosmic/main armhf libnpth0 armhf 1.6-1 [6624 B] Get:108 http://ftpmaster.internal/ubuntu cosmic/main armhf gpg armhf 2.2.8-1ubuntu1 [411 kB] Get:109 http://ftpmaster.internal/ubuntu cosmic/main armhf gpgconf armhf 2.2.8-1ubuntu1 [105 kB] Get:110 http://ftpmaster.internal/ubuntu cosmic/main armhf gpg-agent armhf 2.2.8-1ubuntu1 [189 kB] Get:111 http://ftpmaster.internal/ubuntu cosmic/main armhf libcomerr2 armhf 1.44.3-1 [2704 B] Get:112 http://ftpmaster.internal/ubuntu cosmic/main armhf libusb-0.1-4 armhf 2:0.1.12-32 [15.6 kB] Get:113 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf linux-libc-dev armhf 4.17.0-5.6 [985 kB] Get:114 http://ftpmaster.internal/ubuntu cosmic/main armhf pkgbinarymangler all 141 [53.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 69.3 MB in 3s (27.3 MB/s) (Reading database ... 12378 files and directories currently installed.) Preparing to unpack .../base-files_10.1ubuntu4_armhf.deb ... Unpacking base-files (10.1ubuntu4) over (10.1ubuntu2) ... Setting up base-files (10.1ubuntu4) ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... Selecting previously unselected package libtinfo6:armhf. (Reading database ... 12378 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.1+20180210-4ubuntu1_armhf.deb ... Unpacking libtinfo6:armhf (6.1+20180210-4ubuntu1) ... Setting up libtinfo6:armhf (6.1+20180210-4ubuntu1) ... (Reading database ... 12387 files and directories currently installed.) Preparing to unpack .../debianutils_4.8.6_armhf.deb ... Unpacking debianutils (4.8.6) over (4.8.4) ... Setting up debianutils (4.8.6) ... (Reading database ... 12387 files and directories currently installed.) Preparing to unpack .../bash_4.4.18-2ubuntu2_armhf.deb ... Unpacking bash (4.4.18-2ubuntu2) over (4.4.18-2ubuntu1) ... Setting up bash (4.4.18-2ubuntu2) ... 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 ... 12387 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.32-0.1ubuntu1_armhf.deb ... Unpacking bsdutils (1:2.32-0.1ubuntu1) over (1:2.31.1-0.4ubuntu3) ... Setting up bsdutils (1:2.32-0.1ubuntu1) ... (Reading database ... 12387 files and directories currently installed.) Preparing to unpack .../tar_1.30+dfsg-2_armhf.deb ... Unpacking tar (1.30+dfsg-2) over (1.29b-2) ... Setting up tar (1.30+dfsg-2) ... (Reading database ... 12387 files and directories currently installed.) Preparing to unpack .../dpkg_1.19.0.5ubuntu3_armhf.deb ... Unpacking dpkg (1.19.0.5ubuntu3) over (1.19.0.5ubuntu2) ... Setting up dpkg (1.19.0.5ubuntu3) ... (Reading database ... 12387 files and directories currently installed.) 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Setting up cpp (4:8.1.0-2ubuntu0.3) ... Setting up readline-common (7.0-5) ... Setting up libcc1-0:armhf (8.1.0-11ubuntu1) ... Setting up make (4.2.1-1.1) ... Setting up pkgbinarymangler (141) ... Setting up e2fslibs:armhf (1.44.3-1) ... Setting up libpng16-16:armhf (1.6.34-2) ... Setting up libncursesw5:armhf (6.1+20180210-4ubuntu1) ... Setting up libreadline7:armhf (7.0-5) ... Setting up tzdata (2018e-1) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Jul 18 23:14:56 UTC 2018. Universal Time is now: Wed Jul 18 23:14:56 UTC 2018. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up systemd-sysv (238-5ubuntu2) ... Setting up gpgconf (2.2.8-1ubuntu1) ... Setting up linux-libc-dev:armhf (4.17.0-5.6) ... Setting up perl-modules-5.26 (5.26.2-6) ... Setting up libargon2-0 (0~20171227-0.1) ... Setting up gcc-7-base:armhf (7.3.0-26ubuntu1) ... Setting up binutils-common:armhf (2.31.1-1ubuntu2) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... Setting up libperl5.26:armhf (5.26.2-6) ... Setting up libssl1.1:armhf (1.1.0g-2ubuntu5) ... Setting up openssl (1.1.0g-2ubuntu5) ... Setting up libsqlite3-0:armhf (3.24.0-1) ... Setting up pinentry-curses (1.1.0-1build2) ... Setting up libcomerr2:armhf (1.44.3-1) ... Setting up libslang2:armhf (2.3.2-1ubuntu1) ... Setting up libasan5:armhf (8.1.0-11ubuntu1) ... Setting up libusb-0.1-4:armhf (2:0.1.12-32) ... Setting up gpg (2.2.8-1ubuntu1) ... Setting up libubsan1:armhf (8.1.0-11ubuntu1) ... Setting up libasan4:armhf (7.3.0-26ubuntu1) ... Setting up libbinutils:armhf (2.31.1-1ubuntu2) ... Setting up libcilkrts5:armhf (7.3.0-26ubuntu1) ... Setting up libubsan0:armhf (7.3.0-26ubuntu1) ... Setting up binutils-arm-linux-gnueabihf (2.31.1-1ubuntu2) ... Setting up gpg-agent (2.2.8-1ubuntu1) ... Setting up libgcc-7-dev:armhf (7.3.0-26ubuntu1) ... Setting up cpp-7 (7.3.0-26ubuntu1) ... Setting up libstdc++-7-dev:armhf (7.3.0-26ubuntu1) ... Setting up perl (5.26.2-6) ... Setting up libgcc-8-dev:armhf (8.1.0-11ubuntu1) ... Setting up binutils (2.31.1-1ubuntu2) ... Setting up libstdc++-8-dev:armhf (8.1.0-11ubuntu1) ... Setting up gcc-7 (7.3.0-26ubuntu1) ... Setting up g++-7 (7.3.0-26ubuntu1) ... Setting up libdpkg-perl (1.19.0.5ubuntu3) ... Setting up gcc-8 (8.1.0-11ubuntu1) ... Setting up g++-8 (8.1.0-11ubuntu1) ... Setting up dpkg-dev (1.19.0.5ubuntu3) ... Setting up gcc (4:8.1.0-2ubuntu0.3) ... Setting up g++ (4:8.1.0-2ubuntu0.3) ... Setting up build-essential (12.5ubuntu2) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-15144863 armhf cosmic-proposed -c chroot:build-PACKAGEBUILD-15144863 --arch=armhf --dist=cosmic-proposed --nolog clustalo_1.2.4-2.dsc Initiating build PACKAGEBUILD-15144863 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-130-generic #156-Ubuntu SMP Thu Jun 14 08:52:48 UTC 2018 armv7l sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos02-arm64-036.buildd +==============================================================================+ | clustalo 1.2.4-2 (armhf) 18 Jul 2018 23:14 | +==============================================================================+ Package: clustalo Version: 1.2.4-2 Source Version: 1.2.4-2 Distribution: cosmic-proposed Machine Architecture: arm64 Host Architecture: armhf Build Architecture: armhf I: NOTICE: Log filtering will replace 'build/clustalo-rSVFTE/clustalo-1.2.4' with '<>' I: NOTICE: Log filtering will replace 'build/clustalo-rSVFTE' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-15144863/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- clustalo_1.2.4-2.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-9zM8_X/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-9zM8_X/apt_archive ./ InRelease Get:2 copy:/<>/resolver-9zM8_X/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-9zM8_X/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-9zM8_X/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-9zM8_X/apt_archive ./ Packages [527 B] Fetched 2860 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: g++-7 libargon2-0 libncursesw5 libprocps6 libstdc++-7-dev Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-9zM8_X/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 852 B in 49710d 6h 28min 15s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 13378 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 11~), dh-linktree, libargtable2-dev, doxygen, graphviz, sphinx-common Filtered Build-Depends: debhelper (>= 11~), dh-linktree, libargtable2-dev, doxygen, graphviz, sphinx-common dpkg-deb: building package 'sbuild-build-depends-clustalo-dummy' in '/<>/resolver-PEM0UT/apt_archive/sbuild-build-depends-clustalo-dummy.deb'. Ign:1 copy:/<>/resolver-PEM0UT/apt_archive ./ InRelease Get:2 copy:/<>/resolver-PEM0UT/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-PEM0UT/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-PEM0UT/apt_archive ./ Sources [256 B] Get:5 copy:/<>/resolver-PEM0UT/apt_archive ./ Packages [575 B] Fetched 2950 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install clustalo build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: g++-7 libargon2-0 libncursesw5 libprocps6 libstdc++-7-dev Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-linktree dh-strip-nondeterminism doxygen dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base graphviz groff-base intltool-debian libarchive-zip-perl libargtable2-0 libargtable2-dev libargtable2-docs libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-6.0 libcroco3 libdatrie1 libedit2 libelf1 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgd3 libglib2.0-0 libgraphite2-3 libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libice6 libicu60 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore liblab-gamut1 libllvm6.0 libltdl7 libmagic-mgc libmagic1 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpipeline1 libpixman-1-0 libsigsegv2 libsm6 libthai-data libthai0 libtiff5 libtimedate-perl libtool libwebp6 libx11-6 libx11-data libxapian30 libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2 libxmu6 libxpm4 libxrender1 libxt6 m4 man-db po-debconf sphinx-common ucf x11-common Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make doxygen-latex doxygen-doc doxygen-gui gettext-doc libasprintf-dev libgettextpo-dev gsfonts graphviz-doc groff libgd-tools libtool-doc gfortran | fortran95-compiler gcj-jdk xapian-tools m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx fonts-liberation libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libgts-bin javascript-common libltdl-dev libmail-sendmail-perl python-sphinx | python3-sphinx The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-linktree dh-strip-nondeterminism doxygen dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base graphviz groff-base intltool-debian libarchive-zip-perl libargtable2-0 libargtable2-dev libargtable2-docs libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-6.0 libcroco3 libdatrie1 libedit2 libelf1 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgd3 libglib2.0-0 libgraphite2-3 libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libice6 libicu60 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore liblab-gamut1 libllvm6.0 libltdl7 libmagic-mgc libmagic1 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpipeline1 libpixman-1-0 libsigsegv2 libsm6 libthai-data libthai0 libtiff5 libtimedate-perl libtool libwebp6 libx11-6 libx11-data libxapian30 libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2 libxmu6 libxpm4 libxrender1 libxt6 m4 man-db po-debconf sbuild-build-depends-clustalo-dummy sphinx-common ucf x11-common 0 upgraded, 94 newly installed, 0 to remove and 0 not upgraded. Need to get 49.7 MB of archives. After this operation, 162 MB of additional disk space will be used. Get:1 copy:/<>/resolver-PEM0UT/apt_archive ./ sbuild-build-depends-clustalo-dummy 0.invalid.0 [904 B] Get:2 http://ftpmaster.internal/ubuntu cosmic/main armhf libxau6 armhf 1:1.0.8-1 [7324 B] Get:3 http://ftpmaster.internal/ubuntu cosmic/main armhf libbsd0 armhf 0.9.1-1 [43.1 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic/main armhf libxdmcp6 armhf 1:1.1.2-3 [9316 B] Get:5 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libxcb1 armhf 1.13-2 [40.9 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libx11-data all 2:1.6.5-1 [113 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libx11-6 armhf 2:1.6.5-1 [514 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/main armhf libxext6 armhf 2:1.3.3-1 [25.1 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic/main armhf bsdmainutils armhf 11.1.2ubuntu2 [176 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic/main armhf groff-base armhf 1.22.3-10 [1013 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic/main armhf libpipeline1 armhf 1.5.0-1 [21.1 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic/main armhf man-db armhf 2.8.3-2 [993 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic/main armhf libexpat1 armhf 2.2.5-3 [59.7 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic/main armhf libfreetype6 armhf 2.8.1-2ubuntu2 [280 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic/main armhf ucf all 3.0038 [50.5 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic/main armhf fonts-dejavu-core all 2.37-1 [1041 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic/main armhf fontconfig-config all 2.12.6-0ubuntu2 [55.8 kB] Get:18 http://ftpmaster.internal/ubuntu cosmic/main armhf libfontconfig1 armhf 2.12.6-0ubuntu2 [120 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic/main armhf fontconfig armhf 2.12.6-0ubuntu2 [167 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic/main armhf libjpeg-turbo8 armhf 1.5.2-0ubuntu6 [87.4 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main armhf x11-common all 1:7.7+19ubuntu8 [22.5 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main armhf libice6 armhf 2:1.0.9-2 [33.5 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/main armhf libsm6 armhf 2:1.2.2-1 [13.9 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main armhf libmagic-mgc armhf 1:5.33-3 [192 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main armhf libmagic1 armhf 1:5.33-3 [63.7 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic/main armhf file armhf 1:5.33-3 [22.1 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic/main armhf libelf1 armhf 0.170-0.5 [42.2 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libfribidi0 armhf 1.0.4-1 [24.0 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic/main armhf libglib2.0-0 armhf 2.56.1-2ubuntu1 [1014 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic/main armhf libicu60 armhf 60.2-6ubuntu1 [7801 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libxml2 armhf 2.9.4+dfsg1-7build1 [568 kB] Get:32 http://ftpmaster.internal/ubuntu cosmic/main armhf gettext-base armhf 0.19.8.1-6build1 [46.2 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic/main armhf libedit2 armhf 3.1-20180525-1 [63.2 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic/main armhf libsigsegv2 armhf 2.12-2 [13.1 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic/main armhf m4 armhf 1.4.18-1 [181 kB] Get:36 http://ftpmaster.internal/ubuntu cosmic/main armhf autoconf all 2.69-11 [322 kB] Get:37 http://ftpmaster.internal/ubuntu cosmic/main armhf autotools-dev all 20180224.1 [39.6 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic/main armhf automake all 1:1.15.1-3ubuntu2 [509 kB] Get:39 http://ftpmaster.internal/ubuntu cosmic/main armhf autopoint all 0.19.8.1-6build1 [412 kB] Get:40 http://ftpmaster.internal/ubuntu cosmic/main armhf libtool all 2.4.6-2.1build1 [196 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic/main armhf dh-autoreconf all 19 [16.1 kB] Get:42 http://ftpmaster.internal/ubuntu cosmic/main armhf libarchive-zip-perl all 1.60-1ubuntu1 [84.6 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic/main armhf libfile-stripnondeterminism-perl all 0.042-1 [15.2 kB] Get:44 http://ftpmaster.internal/ubuntu cosmic/main armhf libtimedate-perl all 2.3000-2 [37.5 kB] Get:45 http://ftpmaster.internal/ubuntu cosmic/main armhf dh-strip-nondeterminism all 0.042-1 [5188 B] Get:46 http://ftpmaster.internal/ubuntu cosmic/main armhf dwz armhf 0.12-2 [72.0 kB] Get:47 http://ftpmaster.internal/ubuntu cosmic/main armhf libcroco3 armhf 0.6.12-2 [69.4 kB] Get:48 http://ftpmaster.internal/ubuntu cosmic/main armhf gettext armhf 0.19.8.1-6build1 [834 kB] Get:49 http://ftpmaster.internal/ubuntu cosmic/main armhf intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:50 http://ftpmaster.internal/ubuntu cosmic/main armhf po-debconf all 1.0.20 [232 kB] Get:51 http://ftpmaster.internal/ubuntu cosmic/main armhf debhelper all 11.3.2ubuntu1 [883 kB] Get:52 http://ftpmaster.internal/ubuntu cosmic/universe armhf dh-linktree all 0.6 [10.7 kB] Get:53 http://ftpmaster.internal/ubuntu cosmic/main armhf libllvm6.0 armhf 1:6.0.1-2ubuntu1 [13.6 MB] Get:54 http://ftpmaster.internal/ubuntu cosmic/main armhf libclang1-6.0 armhf 1:6.0.1-2ubuntu1 [6361 kB] Get:55 http://ftpmaster.internal/ubuntu cosmic/main armhf libxapian30 armhf 1.4.6-2 [537 kB] Get:56 http://ftpmaster.internal/ubuntu cosmic/main armhf doxygen armhf 1.8.13-10 [3459 kB] Get:57 http://ftpmaster.internal/ubuntu cosmic-proposed/universe armhf libcdt5 armhf 2.40.1-3 [16.9 kB] Get:58 http://ftpmaster.internal/ubuntu cosmic-proposed/universe armhf libcgraph6 armhf 2.40.1-3 [34.1 kB] Get:59 http://ftpmaster.internal/ubuntu cosmic/main armhf libjpeg8 armhf 8c-2ubuntu8 [2202 B] Get:60 http://ftpmaster.internal/ubuntu cosmic/main armhf libjbig0 armhf 2.1-3.1build1 [23.9 kB] Get:61 http://ftpmaster.internal/ubuntu cosmic/main armhf libtiff5 armhf 4.0.9-6 [134 kB] Get:62 http://ftpmaster.internal/ubuntu cosmic/main armhf libwebp6 armhf 0.6.1-2 [152 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http://ftpmaster.internal/ubuntu cosmic/main armhf libdatrie1 armhf 0.2.12-1 [15.0 kB] Get:74 http://ftpmaster.internal/ubuntu cosmic/main armhf libthai0 armhf 0.1.27-2 [14.7 kB] Get:75 http://ftpmaster.internal/ubuntu cosmic/main armhf libpango-1.0-0 armhf 1.42.1-2 [136 kB] Get:76 http://ftpmaster.internal/ubuntu cosmic/main armhf libgraphite2-3 armhf 1.3.11-2 [67.5 kB] Get:77 http://ftpmaster.internal/ubuntu cosmic/main armhf libharfbuzz0b armhf 1.8.3-1 [228 kB] Get:78 http://ftpmaster.internal/ubuntu cosmic/main armhf libpangoft2-1.0-0 armhf 1.42.1-2 [29.1 kB] Get:79 http://ftpmaster.internal/ubuntu cosmic/main armhf libpangocairo-1.0-0 armhf 1.42.1-2 [19.0 kB] Get:80 http://ftpmaster.internal/ubuntu cosmic-proposed/universe armhf libpathplan4 armhf 2.40.1-3 [20.2 kB] Get:81 http://ftpmaster.internal/ubuntu cosmic-proposed/universe armhf libgvc6 armhf 2.40.1-3 [508 kB] Get:82 http://ftpmaster.internal/ubuntu cosmic-proposed/universe armhf libgvpr2 armhf 2.40.1-3 [147 kB] Get:83 http://ftpmaster.internal/ubuntu cosmic-proposed/universe armhf liblab-gamut1 armhf 2.40.1-3 [179 kB] Get:84 http://ftpmaster.internal/ubuntu cosmic/main armhf libxt6 armhf 1:1.1.5-1 [129 kB] Get:85 http://ftpmaster.internal/ubuntu cosmic/main armhf libxmu6 armhf 2:1.1.2-2 [38.3 kB] Get:86 http://ftpmaster.internal/ubuntu cosmic/main armhf libxaw7 armhf 2:1.0.13-1 [141 kB] Get:87 http://ftpmaster.internal/ubuntu cosmic-proposed/universe armhf graphviz armhf 2.40.1-3 [484 kB] Get:88 http://ftpmaster.internal/ubuntu cosmic/universe armhf libargtable2-0 armhf 13-1 [12.0 kB] Get:89 http://ftpmaster.internal/ubuntu cosmic/universe armhf libargtable2-docs all 13-1 [2618 kB] Get:90 http://ftpmaster.internal/ubuntu cosmic/universe armhf libargtable2-dev armhf 13-1 [50.6 kB] Get:91 http://ftpmaster.internal/ubuntu cosmic/main armhf libjs-jquery all 3.2.1-1 [152 kB] Get:92 http://ftpmaster.internal/ubuntu cosmic/main armhf libjs-underscore all 1.8.3~dfsg-1 [59.9 kB] Get:93 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libjs-sphinxdoc all 1.7.6-1 [91.7 kB] Get:94 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf sphinx-common all 1.7.6-1 [437 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 49.7 MB in 2s (25.5 MB/s) Selecting previously unselected package libxau6:armhf. (Reading database ... 13378 files and directories currently installed.) Preparing to unpack .../00-libxau6_1%3a1.0.8-1_armhf.deb ... Unpacking libxau6:armhf (1:1.0.8-1) ... Selecting previously unselected package libbsd0:armhf. Preparing to unpack .../01-libbsd0_0.9.1-1_armhf.deb ... Unpacking libbsd0:armhf (0.9.1-1) ... Selecting previously unselected package libxdmcp6:armhf. Preparing to unpack .../02-libxdmcp6_1%3a1.1.2-3_armhf.deb ... Unpacking libxdmcp6:armhf (1:1.1.2-3) ... Selecting previously unselected package libxcb1:armhf. Preparing to unpack .../03-libxcb1_1.13-2_armhf.deb ... Unpacking libxcb1:armhf (1.13-2) ... Selecting previously unselected package libx11-data. Preparing to unpack .../04-libx11-data_2%3a1.6.5-1_all.deb ... Unpacking libx11-data (2:1.6.5-1) ... Selecting previously unselected package libx11-6:armhf. Preparing to unpack .../05-libx11-6_2%3a1.6.5-1_armhf.deb ... Unpacking libx11-6:armhf (2:1.6.5-1) ... 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Setting up liblab-gamut1 (2.40.1-3) ... Setting up libarchive-zip-perl (1.60-1ubuntu1) ... Setting up libjs-underscore (1.8.3~dfsg-1) ... Setting up libllvm6.0:armhf (1:6.0.1-2ubuntu1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libjbig0:armhf (2.1-3.1build1) ... Setting up libsigsegv2:armhf (2.12-2) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up libelf1:armhf (0.170-0.5) ... Setting up groff-base (1.22.3-10) ... Setting up libglib2.0-0:armhf (2.56.1-2ubuntu1) ... No schema files found: doing nothing. Setting up libclang1-6.0:armhf (1:6.0.1-2ubuntu1) ... Setting up libjs-sphinxdoc (1.7.6-1) ... Setting up libdatrie1:armhf (0.2.12-1) ... Setting up gettext-base (0.19.8.1-6build1) ... Setting up libjpeg-turbo8:armhf (1.5.2-0ubuntu6) ... Setting up libpipeline1:armhf (1.5.0-1) ... Setting up m4 (1.4.18-1) ... Setting up libbsd0:armhf (0.9.1-1) ... Setting up ucf (3.0038) ... Setting up libxml2:armhf (2.9.4+dfsg1-7build1) ... Setting up libfreetype6:armhf (2.8.1-2ubuntu2) ... Setting up libmagic-mgc (1:5.33-3) ... Setting up libmagic1:armhf (1:5.33-3) ... Setting up libgraphite2-3:armhf (1.3.11-2) ... Setting up libcroco3:armhf (0.6.12-2) ... Setting up libpixman-1-0:armhf (0.34.0-2) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... Setting up dwz (0.12-2) ... Setting up autotools-dev (20180224.1) ... Processing triggers for systemd (238-5ubuntu2) ... Setting up libltdl7:armhf (2.4.6-2.1build1) ... Setting up sphinx-common (1.7.6-1) ... Setting up libfribidi0:armhf (1.0.4-1) ... Setting up libargtable2-dev (13-1) ... Setting up libthai-data (0.1.27-2) ... Setting up libxdmcp6:armhf (1:1.1.2-3) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up x11-common (1:7.7+19ubuntu8) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libcdt5 (2.40.1-3) ... Setting up libx11-data (2:1.6.5-1) ... Setting up libxau6:armhf (1:1.0.8-1) ... Setting up autopoint (0.19.8.1-6build1) ... Setting up libcgraph6 (2.40.1-3) ... Setting up libwebp6:armhf (0.6.1-2) ... Setting up libfile-stripnondeterminism-perl (0.042-1) ... Setting up libjpeg8:armhf (8c-2ubuntu8) ... Setting up libgts-0.7-5:armhf (0.7.6+darcs121130-4) ... Setting up fontconfig-config (2.12.6-0ubuntu2) ... Setting up gettext (0.19.8.1-6build1) ... Setting up libgvpr2 (2.40.1-3) ... Setting up doxygen (1.8.13-10) ... Setting up libharfbuzz0b:armhf (1.8.3-1) ... Setting up libtiff5:armhf (4.0.9-6) ... Setting up autoconf (2.69-11) ... Setting up libthai0:armhf (0.1.27-2) ... Setting up file (1:5.33-3) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up automake (1:1.15.1-3ubuntu2) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up libice6:armhf (2:1.0.9-2) ... Setting up man-db (2.8.3-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxcb1:armhf (1.13-2) ... Setting up libtool (2.4.6-2.1build1) ... Setting up libfontconfig1:armhf (2.12.6-0ubuntu2) ... Setting up libsm6:armhf (2:1.2.2-1) ... Setting up libxcb-render0:armhf (1.13-2) ... Setting up po-debconf (1.0.20) ... Setting up libx11-6:armhf (2:1.6.5-1) ... Setting up libxcb-shm0:armhf (1.13-2) ... Setting up libxpm4:armhf (1:3.5.12-1) ... Setting up libxt6:armhf (1:1.1.5-1) ... Setting up libxrender1:armhf (1:0.9.10-1) ... Setting up fontconfig (2.12.6-0ubuntu2) ... Regenerating fonts cache... done. Setting up libxext6:armhf (2:1.3.3-1) ... Setting up libgd3:armhf (2.2.5-4) ... Setting up libxmu6:armhf (2:1.1.2-2) ... Setting up libpango-1.0-0:armhf (1.42.1-2) ... Setting up libxaw7:armhf (2:1.0.13-1) ... Setting up libcairo2:armhf (1.15.10-3) ... Setting up libpangoft2-1.0-0:armhf (1.42.1-2) ... Setting up libpangocairo-1.0-0:armhf (1.42.1-2) ... Setting up libgvc6 (2.40.1-3) ... Setting up graphviz (2.40.1-3) ... Setting up dh-autoreconf (19) ... Setting up debhelper (11.3.2ubuntu1) ... Setting up dh-linktree (0.6) ... Setting up dh-strip-nondeterminism (0.042-1) ... Setting up sbuild-build-depends-clustalo-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... Processing triggers for systemd (238-5ubuntu2) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-130-generic arm64 (armv7l) Toolchain package versions: binutils_2.31.1-1ubuntu2 dpkg-dev_1.19.0.5ubuntu3 g++-7_7.3.0-26ubuntu1 g++-8_8.1.0-11ubuntu1 gcc-7_7.3.0-26ubuntu1 gcc-8_8.1.0-11ubuntu1 libc6-dev_2.27-3ubuntu1 libstdc++-7-dev_7.3.0-26ubuntu1 libstdc++-8-dev_8.1.0-11ubuntu1 libstdc++6_8.1.0-11ubuntu1 linux-libc-dev_4.17.0-5.6 Package versions: adduser_3.117ubuntu1 advancecomp_2.1-1 apt_1.7.0~alpha2 autoconf_2.69-11 automake_1:1.15.1-3ubuntu2 autopoint_0.19.8.1-6build1 autotools-dev_20180224.1 base-files_10.1ubuntu4 base-passwd_3.5.45 bash_4.4.18-2ubuntu2 binutils_2.31.1-1ubuntu2 binutils-arm-linux-gnueabihf_2.31.1-1ubuntu2 binutils-common_2.31.1-1ubuntu2 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.32-0.1ubuntu1 build-essential_12.5ubuntu2 bzip2_1.0.6-8.1 ca-certificates_20180409 coreutils_8.28-1ubuntu1 cpp_4:8.1.0-2ubuntu0.3 cpp-7_7.3.0-26ubuntu1 cpp-8_8.1.0-11ubuntu1 dash_0.5.8-2.10 debconf_1.5.67 debhelper_11.3.2ubuntu1 debianutils_4.8.6 dh-autoreconf_19 dh-linktree_0.6 dh-strip-nondeterminism_0.042-1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu3 doxygen_1.8.13-10 dpkg_1.19.0.5ubuntu3 dpkg-dev_1.19.0.5ubuntu3 dwz_0.12-2 e2fslibs_1.44.3-1 e2fsprogs_1.44.3-1 fakeroot_1.22-2ubuntu1 fdisk_2.32-0.1ubuntu1 file_1:5.33-3 findutils_4.6.0+git+20170828-2 fontconfig_2.12.6-0ubuntu2 fontconfig-config_2.12.6-0ubuntu2 fonts-dejavu-core_2.37-1 g++_4:8.1.0-2ubuntu0.3 g++-7_7.3.0-26ubuntu1 g++-8_8.1.0-11ubuntu1 gcc_4:8.1.0-2ubuntu0.3 gcc-7_7.3.0-26ubuntu1 gcc-7-base_7.3.0-26ubuntu1 gcc-8_8.1.0-11ubuntu1 gcc-8-base_8.1.0-11ubuntu1 gettext_0.19.8.1-6build1 gettext-base_0.19.8.1-6build1 gpg_2.2.8-1ubuntu1 gpg-agent_2.2.8-1ubuntu1 gpgconf_2.2.8-1ubuntu1 gpgv_2.2.8-1ubuntu1 graphviz_2.40.1-3 grep_3.1-2 groff-base_1.22.3-10 gzip_1.6-5ubuntu1 hostname_3.20 init_1.51 init-system-helpers_1.51 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libapparmor1_2.12-4ubuntu6 libapt-pkg5.0_1.7.0~alpha2 libarchive-zip-perl_1.60-1ubuntu1 libargon2-0_0~20171227-0.1 libargon2-1_0~20171227-0.1 libargtable2-0_13-1 libargtable2-dev_13-1 libargtable2-docs_13-1 libasan4_7.3.0-26ubuntu1 libasan5_8.1.0-11ubuntu1 libassuan0_2.5.1-2 libatomic1_8.1.0-11ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.3-1ubuntu2 libaudit1_1:2.8.3-1ubuntu2 libbinutils_2.31.1-1ubuntu2 libblkid1_2.32-0.1ubuntu1 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.27-3ubuntu1 libc-dev-bin_2.27-3ubuntu1 libc6_2.27-3ubuntu1 libc6-dev_2.27-3ubuntu1 libcairo2_1.15.10-3 libcap-ng0_0.7.9-1 libcap2_1:2.25-1.2 libcc1-0_8.1.0-11ubuntu1 libcdt5_2.40.1-3 libcgraph6_2.40.1-3 libcilkrts5_7.3.0-26ubuntu1 libclang1-6.0_1:6.0.1-2ubuntu1 libcom-err2_1.44.3-1 libcomerr2_1.44.3-1 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.3-6ubuntu1 libdatrie1_0.2.12-1 libdb5.3_5.3.28-13.1ubuntu1 libdebconfclient0_0.213ubuntu1 libdevmapper1.02.1_2:1.02.145-4.1ubuntu3 libdpkg-perl_1.19.0.5ubuntu3 libedit2_3.1-20180525-1 libelf1_0.170-0.5 libexpat1_2.2.5-3 libext2fs2_1.44.3-1 libfakeroot_1.22-2ubuntu1 libfdisk1_2.32-0.1ubuntu1 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.042-1 libfontconfig1_2.12.6-0ubuntu2 libfreetype6_2.8.1-2ubuntu2 libfribidi0_1.0.4-1 libgcc-7-dev_7.3.0-26ubuntu1 libgcc-8-dev_8.1.0-11ubuntu1 libgcc1_1:8.1.0-11ubuntu1 libgcrypt20_1.8.3-1ubuntu1 libgd3_2.2.5-4 libgdbm-compat4_1.14.1-6 libgdbm5_1.14.1-6 libglib2.0-0_2.56.1-2ubuntu1 libgmp10_2:6.1.2+dfsg-3 libgnutls30_3.5.18-1ubuntu1 libgomp1_8.1.0-11ubuntu1 libgpg-error0_1.32-1 libgraphite2-3_1.3.11-2 libgts-0.7-5_0.7.6+darcs121130-4 libgvc6_2.40.1-3 libgvpr2_2.40.1-3 libharfbuzz0b_1.8.3-1 libhogweed4_3.4-1 libice6_2:1.0.9-2 libicu60_60.2-6ubuntu1 libidn11_1.33-2.1ubuntu1 libidn2-0_2.0.4-1.1build2 libip4tc0_1.6.1-2ubuntu2 libisl19_0.19-1 libjbig0_2.1-3.1build1 libjpeg-turbo8_1.5.2-0ubuntu6 libjpeg8_8c-2ubuntu8 libjs-jquery_3.2.1-1 libjs-sphinxdoc_1.7.6-1 libjs-underscore_1.8.3~dfsg-1 libjson-c3_0.12.1-1.3 libkmod2_25-1ubuntu1 liblab-gamut1_2.40.1-3 libllvm6.0_1:6.0.1-2ubuntu1 liblockfile-bin_1.14-1.1 liblockfile1_1.14-1.1 libltdl7_2.4.6-2.1build1 liblz4-1_1.8.2-1ubuntu1 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.33-3 libmagic1_1:5.33-3 libmount1_2.32-0.1ubuntu1 libmpc3_1.1.0-1 libmpfr6_4.0.1-1 libncurses5_6.1+20180210-4ubuntu1 libncurses6_6.1+20180210-4ubuntu1 libncursesw5_6.1+20180210-4ubuntu1 libncursesw6_6.1+20180210-4ubuntu1 libnettle6_3.4-1 libnpth0_1.6-1 libp11-kit0_0.23.12-2 libpam-modules_1.1.8-3.6ubuntu2 libpam-modules-bin_1.1.8-3.6ubuntu2 libpam-runtime_1.1.8-3.6ubuntu2 libpam0g_1.1.8-3.6ubuntu2 libpango-1.0-0_1.42.1-2 libpangocairo-1.0-0_1.42.1-2 libpangoft2-1.0-0_1.42.1-2 libpathplan4_2.40.1-3 libpcre3_2:8.39-10ubuntu2 libperl5.26_5.26.2-6 libpipeline1_1.5.0-1 libpixman-1-0_0.34.0-2 libpng16-16_1.6.34-2 libprocps6_2:3.3.12-3ubuntu1 libprocps7_2:3.3.15-2ubuntu1 libreadline7_7.0-5 libseccomp2_2.3.3-3ubuntu1 libselinux1_2.8-1build1 libsemanage-common_2.8-1build1 libsemanage1_2.8-1build1 libsepol1_2.8-1 libsigsegv2_2.12-2 libslang2_2.3.2-1ubuntu1 libsm6_2:1.2.2-1 libsmartcols1_2.32-0.1ubuntu1 libsqlite3-0_3.24.0-1 libss2_1.44.3-1 libssl1.1_1.1.0g-2ubuntu5 libstdc++-7-dev_7.3.0-26ubuntu1 libstdc++-8-dev_8.1.0-11ubuntu1 libstdc++6_8.1.0-11ubuntu1 libsystemd0_238-5ubuntu2 libtasn1-6_4.13-3 libthai-data_0.1.27-2 libthai0_0.1.27-2 libtiff5_4.0.9-6 libtimedate-perl_2.3000-2 libtinfo5_6.1+20180210-4ubuntu1 libtinfo6_6.1+20180210-4ubuntu1 libtool_2.4.6-2.1build1 libubsan0_7.3.0-26ubuntu1 libubsan1_8.1.0-11ubuntu1 libudev1_238-5ubuntu2 libunistring2_0.9.9-0ubuntu1 libusb-0.1-4_2:0.1.12-32 libuuid1_2.32-0.1ubuntu1 libwebp6_0.6.1-2 libx11-6_2:1.6.5-1 libx11-data_2:1.6.5-1 libxapian30_1.4.6-2 libxau6_1:1.0.8-1 libxaw7_2:1.0.13-1 libxcb-render0_1.13-2 libxcb-shm0_1.13-2 libxcb1_1.13-2 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1 libxml2_2.9.4+dfsg1-7build1 libxmu6_2:1.1.2-2 libxpm4_1:3.5.12-1 libxrender1_1:0.9.10-1 libxt6_1:1.1.5-1 libzstd1_1.3.3+dfsg-2ubuntu1 linux-libc-dev_4.17.0-5.6 lockfile-progs_0.1.17build1 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-1 make_4.2.1-1.1 man-db_2.8.3-2 mawk_1.3.3-17ubuntu3 mount_2.32-0.1ubuntu1 multiarch-support_2.27-3ubuntu1 ncurses-base_6.1+20180210-4ubuntu1 ncurses-bin_6.1+20180210-4ubuntu1 openssl_1.1.0g-2ubuntu5 optipng_0.7.6-1.1 passwd_1:4.5-1ubuntu1 patch_2.7.6-2ubuntu1 perl_5.26.2-6 perl-base_5.26.2-6 perl-modules-5.26_5.26.2-6 pinentry-curses_1.1.0-1build2 pkgbinarymangler_141 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 procps_2:3.3.15-2ubuntu1 readline-common_7.0-5 sbuild-build-depends-clustalo-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.5-1 sensible-utils_0.0.12 sphinx-common_1.7.6-1 systemd_238-5ubuntu2 systemd-sysv_238-5ubuntu2 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu1 tar_1.30+dfsg-2 tzdata_2018e-1 ubuntu-keyring_2018.02.28 ucf_3.0038 util-linux_2.32-0.1ubuntu1 x11-common_1:7.7+19ubuntu8 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Wed Jul 18 19:15:32 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./clustalo_1.2.4-2.dsc dpkg-source: info: extracting clustalo in clustalo-1.2.4 dpkg-source: info: unpacking clustalo_1.2.4.orig.tar.gz dpkg-source: info: unpacking clustalo_1.2.4-2.debian.tar.xz Check disc 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-15144863 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15144863 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15144863 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package clustalo dpkg-buildpackage: info: source version 1.2.4-2 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build clustalo-1.2.4 dpkg-buildpackage: info: host architecture armhf fakeroot debian/rules clean dh clean --with linktree debian/rules override_dh_clean make[1]: Entering directory '/<>' dh_clean rm -f _configs.sed rm -rf doc make[1]: Leaving directory '/<>' debian/rules build-arch dh build-arch --with linktree dh_update_autotools_config -a dh_autoreconf -a configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:172: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:5356: _LT_LANG_CXX_CONFIG is expanded from... m4/libtool.m4:785: _LT_LANG is expanded from... m4/libtool.m4:768: LT_LANG is expanded from... configure.ac:172: the top level configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:172: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:5356: _LT_LANG_CXX_CONFIG is expanded from... m4/libtool.m4:785: _LT_LANG is expanded from... m4/libtool.m4:768: LT_LANG is expanded from... configure.ac:172: the top level configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:172: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:5356: _LT_LANG_CXX_CONFIG is expanded from... m4/libtool.m4:785: _LT_LANG is expanded from... m4/libtool.m4:768: LT_LANG is expanded from... configure.ac:172: the top level libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' configure.ac:133: installing './compile' configure.ac:115: installing './missing' src/Makefile.am: installing './depcomp' dh_auto_configure -a ./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --libexecdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking configure: WARNING: unrecognized options: --disable-maintainer-mode configure: Welcome to Clustal Omega - version 1.2.4 (AndreaGiacomo) +NMMMMMMMMMS= MMMMM? :MMMMM8 IMMMMS MMMMM, ~MMMMN ,MMMMM =MMMMM MMMMM ?MMMMM +MMMMM MMMMMS MMMMM MMMMM MMMMM: MMMMM MMMMM+ MMMMM MMMMM~ MMMMM MMMMM MMMMMZ MMMMM MMMMM ,MMMMZ MMMM8 MMMM+ MMMMS MMMM, MMMMO MMMM ,N SMMM MMM8 +8 ,M7 M+ M+ :M8 ,MMMMMMMMMMMMI MMMMMMMMMMMM8 ,MMMMMMMMMMMM8 MMMMMMMMMMMM8 ,MMMMMMMMMMMMN MMMMMMMMMMMM8 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for style of include used by make... GNU checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking minix/config.h usability... no checking minix/config.h presence... no checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking build system type... arm-unknown-linux-gnueabihf checking host system type... arm-unknown-linux-gnueabihf checking whether make sets $(MAKE)... (cached) yes checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert arm-unknown-linux-gnueabihf file names to arm-unknown-linux-gnueabihf format... func_convert_file_noop checking how to convert arm-unknown-linux-gnueabihf file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for gcc... (cached) gcc checking whether we are using the GNU C compiler... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to accept ISO C89... (cached) none needed checking whether gcc understands -c and -o together... (cached) yes checking dependency style of gcc... 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(cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking how to run the C++ preprocessor... g++ -E checking for ANSI C header files... (cached) yes checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking ctype.h usability... yes checking ctype.h presence... yes checking for ctype.h... yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking math.h usability... yes checking math.h presence... yes checking for math.h... yes checking for memory.h... (cached) yes checking stdarg.h usability... yes checking stdarg.h presence... yes checking for stdarg.h... yes checking stdio.h usability... yes checking stdio.h presence... yes checking for stdio.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking time.h usability... yes checking time.h presence... yes checking for time.h... yes checking for unistd.h... 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wanted... no checking whether to build with debug information... no checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating clustalo.pc config.status: creating Doxyfile config.status: creating src/clustal/Makefile config.status: creating src/hhalign/Makefile config.status: creating src/kmpp/Makefile config.status: creating src/squid/Makefile config.status: creating src/config.h config.status: executing src/clustal-omega-config.h commands config.status: creating src/clustal-omega-config.h - prefix CLUSTAL_OMEGA for src/config.h defines config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -a make -j4 make[1]: Entering directory '/<>' Making all in src make[2]: Entering directory '/<>/src' make all-recursive make[3]: Entering directory 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-Wl,-z,now -o libkmpp.la KMeans.lo KmTree.lo KmUtils.lo -largtable2 -lm libtool: link: ar cru .libs/libkmpp.a .libs/KMeans.o .libs/KmTree.o .libs/KmUtils.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libkmpp.a libtool: link: ( cd ".libs" && rm -f "libkmpp.la" && ln -s "../libkmpp.la" "libkmpp.la" ) make[4]: Leaving directory '/<>/src/kmpp' Making all in clustal make[4]: Entering directory '/<>/src/clustal' /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o hhalign_wrapper.lo hhalign_wrapper.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o ktuple_pair.lo ktuple_pair.c /bin/bash ../../libtool 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-Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c list.c -fPIC -DPIC -o .libs/list.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c log.c -fPIC -DPIC -o .libs/log.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c list.c -o list.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c log.c -o log.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 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-fstack-protector-strong -Wformat -Werror=format-security -c -o pair_dist.lo pair_dist.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c muscle_tree.c -o muscle_tree.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c pair_dist.c -fPIC -DPIC -o .libs/pair_dist.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c hhalign_wrapper.c -o hhalign_wrapper.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c pair_dist.c -o pair_dist.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c mbed.c -o mbed.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o progress.lo progress.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c progress.c -fPIC -DPIC -o .libs/progress.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c progress.c -o progress.o >/dev/null 2>&1 /bin/bash 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-DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o tree.lo tree.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c tree.c -fPIC -DPIC -o .libs/tree.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c tree.c -o tree.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c symmatrix.c -o symmatrix.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp 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-Werror=format-security -c seq.c -o seq.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c util.c -o util.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c weights.c -o weights.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=link gcc -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o libclustal.la hhalign_wrapper.lo ktuple_pair.lo list.lo log.lo muscle_upgma.lo muscle_tree.lo mbed.lo pair_dist.lo progress.lo seq.lo symmatrix.lo tree.lo util.lo weights.lo -largtable2 -lm libtool: link: ar cru .libs/libclustal.a .libs/hhalign_wrapper.o .libs/ktuple_pair.o .libs/list.o .libs/log.o .libs/muscle_upgma.o .libs/muscle_tree.o .libs/mbed.o .libs/pair_dist.o .libs/progress.o .libs/seq.o .libs/symmatrix.o .libs/tree.o .libs/util.o .libs/weights.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libclustal.a libtool: link: ( cd ".libs" && rm -f "libclustal.la" && ln -s "../libclustal.la" "libclustal.la" ) make[4]: Leaving directory '/<>/src/clustal' make[4]: Entering directory '/<>/src' /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o clustal-omega.lo clustal-omega.c g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o main.o main.cpp gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mymain.o mymain.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c clustal-omega.c -fPIC -DPIC -o .libs/clustal-omega.o clustal-omega.c: In function ‘PrintLongVersion’: clustal-omega.c:152:49: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] PACKAGE_VERSION, PACKAGE_CODENAME, __DATE__); ^~~~~~~~ libtool: compile: gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c clustal-omega.c -o clustal-omega.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=link gcc -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -static -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o libclustalo.la -rpath /usr/lib/arm-linux-gnueabihf clustal-omega.lo clustal/libclustal.la hhalign/libhhalign.la squid/libsquid.la kmpp/libkmpp.la -largtable2 -lm libtool: link: (cd .libs/libclustalo.lax/libclustal.a && ar x "/<>/src/clustal/.libs/libclustal.a") libtool: link: (cd .libs/libclustalo.lax/libhhalign.a && ar x "/<>/src/hhalign/.libs/libhhalign.a") libtool: link: (cd .libs/libclustalo.lax/libsquid.a && ar x "/<>/src/squid/.libs/libsquid.a") libtool: link: (cd .libs/libclustalo.lax/libkmpp.a && ar x "/<>/src/kmpp/.libs/libkmpp.a") libtool: link: ar cru .libs/libclustalo.a clustal-omega.o .libs/libclustalo.lax/libclustal.a/hhalign_wrapper.o .libs/libclustalo.lax/libclustal.a/ktuple_pair.o .libs/libclustalo.lax/libclustal.a/list.o .libs/libclustalo.lax/libclustal.a/log.o .libs/libclustalo.lax/libclustal.a/mbed.o .libs/libclustalo.lax/libclustal.a/muscle_tree.o .libs/libclustalo.lax/libclustal.a/muscle_upgma.o .libs/libclustalo.lax/libclustal.a/pair_dist.o .libs/libclustalo.lax/libclustal.a/progress.o .libs/libclustalo.lax/libclustal.a/seq.o .libs/libclustalo.lax/libclustal.a/symmatrix.o .libs/libclustalo.lax/libclustal.a/tree.o .libs/libclustalo.lax/libclustal.a/util.o .libs/libclustalo.lax/libclustal.a/weights.o .libs/libclustalo.lax/libhhalign.a/hhalign.o .libs/libclustalo.lax/libsquid.a/a2m.o .libs/libclustalo.lax/libsquid.a/aligneval.o .libs/libclustalo.lax/libsquid.a/alignio.o .libs/libclustalo.lax/libsquid.a/clustal.o .libs/libclustalo.lax/libsquid.a/cluster.o .libs/libclustalo.lax/libsquid.a/dayhoff.o .libs/libclustalo.lax/libsquid.a/eps.o .libs/libclustalo.lax/libsquid.a/file.o .libs/libclustalo.lax/libsquid.a/getopt.o .libs/libclustalo.lax/libsquid.a/gki.o .libs/libclustalo.lax/libsquid.a/gsi.o .libs/libclustalo.lax/libsquid.a/gsi64.o .libs/libclustalo.lax/libsquid.a/hsregex.o .libs/libclustalo.lax/libsquid.a/iupac.o .libs/libclustalo.lax/libsquid.a/msa.o .libs/libclustalo.lax/libsquid.a/msf.o .libs/libclustalo.lax/libsquid.a/phylip.o .libs/libclustalo.lax/libsquid.a/revcomp.o .libs/libclustalo.lax/libsquid.a/rk.o .libs/libclustalo.lax/libsquid.a/selex.o .libs/libclustalo.lax/libsquid.a/seqencode.o .libs/libclustalo.lax/libsquid.a/shuffle.o .libs/libclustalo.lax/libsquid.a/sqerror.o .libs/libclustalo.lax/libsquid.a/sqio.o .libs/libclustalo.lax/libsquid.a/squidcore.o .libs/libclustalo.lax/libsquid.a/sre_ctype.o .libs/libclustalo.lax/libsquid.a/sre_math.o .libs/libclustalo.lax/libsquid.a/sre_random.o .libs/libclustalo.lax/libsquid.a/sre_string.o .libs/libclustalo.lax/libsquid.a/ssi.o .libs/libclustalo.lax/libsquid.a/stack.o .libs/libclustalo.lax/libsquid.a/stockholm.o .libs/libclustalo.lax/libsquid.a/stopwatch.o .libs/libclustalo.lax/libsquid.a/translate.o .libs/libclustalo.lax/libsquid.a/types.o .libs/libclustalo.lax/libsquid.a/vectorops.o .libs/libclustalo.lax/libsquid.a/weight.o .libs/libclustalo.lax/libkmpp.a/KMeans.o .libs/libclustalo.lax/libkmpp.a/KmTree.o .libs/libclustalo.lax/libkmpp.a/KmUtils.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libclustalo.a libtool: link: rm -fr .libs/libclustalo.lax libtool: link: ( cd ".libs" && rm -f "libclustalo.la" && ln -s "../libclustalo.la" "libclustalo.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o clustalo main.o mymain.o libclustalo.la -largtable2 -lm libtool: link: g++ -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o clustalo main.o mymain.o ./.libs/libclustalo.a /usr/lib/arm-linux-gnueabihf/libargtable2.so -lm -fopenmp /usr/bin/ld: ./.libs/libclustalo.a(clustal-omega.o): in function `AlnToHHMFile': ./src/clustal-omega.c:393: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' make[4]: Leaving directory '/<>/src' make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test -a make -j4 check VERBOSE=1 make[1]: Entering directory '/<>' Making check in src make[2]: Entering directory '/<>/src' Making check in hhalign make[3]: Entering directory '/<>/src/hhalign' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/src/hhalign' Making check in squid make[3]: Entering directory '/<>/src/squid' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/src/squid' Making check in kmpp make[3]: Entering directory '/<>/src/kmpp' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/src/kmpp' Making check in clustal make[3]: Entering directory '/<>/src/clustal' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/src/clustal' make[3]: Entering directory '/<>/src' make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>' make[2]: Nothing to be done for 'check-am'. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch --with linktree dh_testroot -a dh_prep -a dh_installdirs -a debian/rules override_dh_auto_install-arch make[1]: Entering directory '/<>' dh_auto_install -a make -j1 install DESTDIR=/<>/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/<>' Making install in src make[3]: Entering directory '/<>/src' Making install in hhalign make[4]: Entering directory '/<>/src/hhalign' make[5]: Entering directory '/<>/src/hhalign' make[5]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/include/clustalo/hhalign' /usr/bin/install -c -m 644 general.h hhfunc.h '/<>/debian/tmp/usr/include/clustalo/hhalign' make[5]: Leaving directory '/<>/src/hhalign' make[4]: Leaving directory '/<>/src/hhalign' Making install in squid make[4]: Entering directory '/<>/src/squid' make[5]: Entering directory '/<>/src/squid' make[5]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/include/clustalo/squid' /usr/bin/install -c -m 644 gki.h gsi64.h msa.h rk.h squid.h stopwatch.h sqfuncs.h sre_random.h ssi.h stockholm.h vectorops.h version.h '/<>/debian/tmp/usr/include/clustalo/squid' make[5]: Leaving directory '/<>/src/squid' make[4]: Leaving directory '/<>/src/squid' Making install in kmpp make[4]: Entering directory '/<>/src/kmpp' make[5]: Entering directory '/<>/src/kmpp' make[5]: Nothing to be done for 'install-exec-am'. make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/<>/src/kmpp' make[4]: Leaving directory '/<>/src/kmpp' Making install in clustal make[4]: Entering directory '/<>/src/clustal' make[5]: Entering directory '/<>/src/clustal' make[5]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/include/clustalo/clustal' /usr/bin/install -c -m 644 hhalign_wrapper.h ktuple_pair.h log.h mbed.h muscle_tree.h pair_dist.h progress.h seq.h symmatrix.h tree.h util.h weights.h '/<>/debian/tmp/usr/include/clustalo/clustal' make[5]: Leaving directory '/<>/src/clustal' make[4]: Leaving directory '/<>/src/clustal' make[4]: Entering directory '/<>/src' make[5]: Entering directory '/<>/src' /bin/mkdir -p '/<>/debian/tmp/usr/lib/arm-linux-gnueabihf' /bin/bash ../libtool --mode=install /usr/bin/install -c libclustalo.la '/<>/debian/tmp/usr/lib/arm-linux-gnueabihf' libtool: install: /usr/bin/install -c .libs/libclustalo.lai /<>/debian/tmp/usr/lib/arm-linux-gnueabihf/libclustalo.la libtool: install: /usr/bin/install -c .libs/libclustalo.a /<>/debian/tmp/usr/lib/arm-linux-gnueabihf/libclustalo.a libtool: install: chmod 644 /<>/debian/tmp/usr/lib/arm-linux-gnueabihf/libclustalo.a libtool: install: ranlib /<>/debian/tmp/usr/lib/arm-linux-gnueabihf/libclustalo.a libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c clustalo '/<>/debian/tmp/usr/bin' libtool: install: /usr/bin/install -c clustalo /<>/debian/tmp/usr/bin/clustalo /bin/mkdir -p '/<>/debian/tmp/usr/include/clustalo/' /usr/bin/install -c -m 644 clustal-omega-config.h clustal-omega.h '/<>/debian/tmp/usr/include/clustalo/' make[5]: Leaving directory '/<>/src' make[4]: Leaving directory '/<>/src' make[3]: Leaving directory '/<>/src' make[3]: Entering directory '/<>' make[4]: Entering directory '/<>' make[4]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/share/doc/clustal-omega' /usr/bin/install -c -m 644 README '/<>/debian/tmp/usr/share/doc/clustal-omega' /bin/mkdir -p '/<>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig' /usr/bin/install -c -m 644 clustalo.pc '/<>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig' make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' rm -rf debian/tmp/usr/lib/pkgconfig rm -f debian/tmp/usr/lib/*/libclustalo.la mv debian/tmp/usr/include debian/libclustalo-dev/usr mv debian/tmp/usr/lib debian/libclustalo-dev/usr mv debian/tmp/usr/bin debian/clustalo/usr make[1]: Leaving directory '/<>' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_perl -a dh_link -a dh_linktree -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: Depends field of package libclustalo-dev: unknown substitution variable ${shlibs:Depends} dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 141 INFO: pkgstriptranslations version 141 INFO: pkgstriptranslations version 141 pkgstriptranslations: processing libclustalo-dev (in debian/libclustalo-dev); do_strip: , oemstrip: pkgstriptranslations: processing clustalo (in debian/clustalo); do_strip: , oemstrip: pkgstriptranslations: processing clustalo-dbgsym (in debian/.debhelper/clustalo/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libclustalo-dev/DEBIAN/control, package libclustalo-dev, directory debian/libclustalo-dev INFO: pkgstripfiles: waiting for lock (libclustalo-dev) ... pkgstripfiles: processing control file: debian/clustalo/DEBIAN/control, package clustalo, directory debian/clustalo pkgstripfiles: processing control file: debian/.debhelper/clustalo/dbgsym-root/DEBIAN/control, package clustalo-dbgsym, directory debian/.debhelper/clustalo/dbgsym-root dpkg-deb: building package 'clustalo-dbgsym' in 'debian/.debhelper/scratch-space/build-clustalo/clustalo-dbgsym_1.2.4-2_armhf.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package clustalo ... pkgstripfiles: No PNG files. dpkg-deb: building package 'clustalo' in '../clustalo_1.2.4-2_armhf.deb'. Renaming clustalo-dbgsym_1.2.4-2_armhf.deb to clustalo-dbgsym_1.2.4-2_armhf.ddeb Searching for duplicated docs in dependency clustalo... symlinking changelog.Debian.gz in libclustalo-dev to file in clustalo pkgstripfiles: Running PNG optimization (using 4 cpus) for package libclustalo-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libclustalo-dev' in '../libclustalo-dev_1.2.4-2_armhf.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../clustalo_1.2.4-2_armhf.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build clustalo-1.2.4 dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20180718-2317 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ clustalo_1.2.4-2_armhf.changes: ------------------------------- Format: 1.8 Date: Wed, 18 Jul 2018 21:11:52 +0200 Source: clustalo Binary: clustalo libclustalo-dev libclustalo-doc Architecture: armhf Version: 1.2.4-2 Distribution: cosmic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: clustalo - General purpose multiple sequence alignment program for proteins libclustalo-dev - library to embed Clustal Omega libclustalo-doc - API documentation for library to embed Clustal Omega Changes: clustalo (1.2.4-2) unstable; urgency=medium . * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.1.5 Checksums-Sha1: 21cd66181a5deb2962334d3d4d3091301690ec15 764568 clustalo-dbgsym_1.2.4-2_armhf.ddeb d2531a267aa2961e58aee8a2bbc24121188e92bc 7155 clustalo_1.2.4-2_armhf.buildinfo df0c3d18eb4884e6ba8f3720448d79d7bd3ce617 228888 clustalo_1.2.4-2_armhf.deb 9dea2ea57ec4650b82b47e253a0a54275c1ea837 281332 libclustalo-dev_1.2.4-2_armhf.deb Checksums-Sha256: 8a624a67a2ae60ab98cb3aa850cd22daf58f71308a65d24389f5a8704a733e9f 764568 clustalo-dbgsym_1.2.4-2_armhf.ddeb ec2e723347fb124fd67d2225ae3ff2f7a2d3f8ce554750052877c38edf556773 7155 clustalo_1.2.4-2_armhf.buildinfo 95743805af2b8bad41b9dab27c209729fab86a03264e46eca8f40c093b61f91d 228888 clustalo_1.2.4-2_armhf.deb a212af7407131a3bd8ca969d74200adfb9a16f95e635ace7911ee14adb4f361d 281332 libclustalo-dev_1.2.4-2_armhf.deb Files: b1254ac510379e7d2d874ba2b1f49524 764568 debug optional clustalo-dbgsym_1.2.4-2_armhf.ddeb 286fe157c285ea50b7dd99d5a9649321 7155 science optional clustalo_1.2.4-2_armhf.buildinfo d2fba6bb32ce89d1f82e09e9381a8223 228888 science optional clustalo_1.2.4-2_armhf.deb e3f12fd93b09dbaaa1438e3759c75ddb 281332 libdevel optional libclustalo-dev_1.2.4-2_armhf.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ clustalo_1.2.4-2_armhf.deb -------------------------- new debian package, version 2.0. size 228888 bytes: control archive=896 bytes. 729 bytes, 15 lines control 406 bytes, 6 lines md5sums Package: clustalo Version: 1.2.4-2 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 424 Depends: libargtable2-0 (>= 7), libc6 (>= 2.27), libgcc1 (>= 1:3.5), libgomp1 (>= 4.9), libstdc++6 (>= 5.2) Section: science Priority: optional Homepage: http://www.clustal.org/omega/ Description: General purpose multiple sequence alignment program for proteins Clustal-Omega is a general purpose multiple sequence alignment (MSA) program for dna/rna/proteins. It produces high quality MSAs and is capable of handling data-sets of hundreds of thousands of sequences in reasonable time. drwxr-xr-x root/root 0 2018-07-18 19:11 ./ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/bin/ -rwxr-xr-x root/root 404136 2018-07-18 19:11 ./usr/bin/clustalo drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/share/ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/share/doc/clustalo/ -rw-r--r-- root/root 10994 2013-08-27 12:07 ./usr/share/doc/clustalo/README.gz -rw-r--r-- root/root 893 2018-07-18 19:11 ./usr/share/doc/clustalo/changelog.Debian.gz -rw-r--r-- root/root 1174 2018-07-18 19:11 ./usr/share/doc/clustalo/copyright drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/share/doc/clustalo/examples/ -rw-r--r-- root/root 2269 2018-07-18 19:11 ./usr/share/doc/clustalo/examples/example.fa drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/share/man/ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/share/man/man1/ -rw-r--r-- root/root 1083 2018-07-18 19:11 ./usr/share/man/man1/clustalo.1.gz libclustalo-dev_1.2.4-2_armhf.deb --------------------------------- new debian package, version 2.0. size 281332 bytes: control archive=1520 bytes. 583 bytes, 16 lines control 2248 bytes, 31 lines md5sums Package: libclustalo-dev Source: clustalo Version: 1.2.4-2 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 809 Depends: libargtable2-dev, clustalo (= 1.2.4-2) Suggests: libclustalo-doc Section: libdevel Priority: optional Homepage: http://www.clustal.org/omega/ Description: library to embed Clustal Omega This package contains headers and libraries to include Clustal Omega in a program. It provides clustal usage with an API. drwxr-xr-x root/root 0 2018-07-18 19:11 ./ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/include/ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/include/clustalo/ -rw-r--r-- root/root 9523 2018-07-18 19:11 ./usr/include/clustalo/clustal-omega-config.h -rw-r--r-- root/root 4740 2018-07-18 19:11 ./usr/include/clustalo/clustal-omega.h drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/include/clustalo/clustal/ -rw-r--r-- root/root 1159 2018-07-18 19:11 ./usr/include/clustalo/clustal/hhalign_wrapper.h -rw-r--r-- root/root 1251 2018-07-18 19:11 ./usr/include/clustalo/clustal/ktuple_pair.h -rw-r--r-- root/root 1787 2018-07-18 19:11 ./usr/include/clustalo/clustal/log.h -rw-r--r-- root/root 866 2018-07-18 19:11 ./usr/include/clustalo/clustal/mbed.h -rw-r--r-- root/root 4112 2018-07-18 19:11 ./usr/include/clustalo/clustal/muscle_tree.h -rw-r--r-- root/root 1303 2018-07-18 19:11 ./usr/include/clustalo/clustal/pair_dist.h -rw-r--r-- root/root 1257 2018-07-18 19:11 ./usr/include/clustalo/clustal/progress.h -rw-r--r-- root/root 4032 2018-07-18 19:11 ./usr/include/clustalo/clustal/seq.h -rw-r--r-- root/root 2310 2018-07-18 19:11 ./usr/include/clustalo/clustal/symmatrix.h -rw-r--r-- root/root 1066 2018-07-18 19:11 ./usr/include/clustalo/clustal/tree.h -rw-r--r-- root/root 2308 2018-07-18 19:11 ./usr/include/clustalo/clustal/util.h -rw-r--r-- root/root 741 2018-07-18 19:11 ./usr/include/clustalo/clustal/weights.h drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/include/clustalo/hhalign/ -rw-r--r-- root/root 2961 2018-07-18 19:11 ./usr/include/clustalo/hhalign/general.h -rw-r--r-- root/root 859 2018-07-18 19:11 ./usr/include/clustalo/hhalign/hhfunc.h drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/include/clustalo/squid/ -rw-r--r-- root/root 1381 2018-07-18 19:11 ./usr/include/clustalo/squid/gki.h -rw-r--r-- root/root 3473 2018-07-18 19:11 ./usr/include/clustalo/squid/gsi64.h -rw-r--r-- root/root 13442 2018-07-18 19:11 ./usr/include/clustalo/squid/msa.h -rw-r--r-- root/root 1264 2018-07-18 19:11 ./usr/include/clustalo/squid/rk.h -rw-r--r-- root/root 10390 2018-07-18 19:11 ./usr/include/clustalo/squid/sqfuncs.h -rw-r--r-- root/root 19594 2018-07-18 19:11 ./usr/include/clustalo/squid/squid.h -rw-r--r-- root/root 489 2018-07-18 19:11 ./usr/include/clustalo/squid/sre_random.h -rw-r--r-- root/root 7610 2018-07-18 19:11 ./usr/include/clustalo/squid/ssi.h -rw-r--r-- root/root 1868 2018-07-18 19:11 ./usr/include/clustalo/squid/stockholm.h -rw-r--r-- root/root 1937 2018-07-18 19:11 ./usr/include/clustalo/squid/stopwatch.h -rw-r--r-- root/root 1434 2018-07-18 19:11 ./usr/include/clustalo/squid/vectorops.h -rw-r--r-- root/root 333 2018-07-18 19:11 ./usr/include/clustalo/squid/version.h drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/lib/ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/lib/arm-linux-gnueabihf/ -rw-r--r-- root/root 690148 2018-07-18 19:11 ./usr/lib/arm-linux-gnueabihf/libclustalo.a drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/lib/arm-linux-gnueabihf/pkgconfig/ -rw-r--r-- root/root 250 2018-07-18 19:11 ./usr/lib/arm-linux-gnueabihf/pkgconfig/clustalo.pc drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/share/ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-07-18 19:11 ./usr/share/doc/libclustalo-dev/ lrwxrwxrwx root/root 0 2018-07-18 19:11 ./usr/share/doc/libclustalo-dev/changelog.Debian.gz -> ../clustalo/changelog.Debian.gz -rw-r--r-- root/root 1174 2018-07-18 19:11 ./usr/share/doc/libclustalo-dev/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: armhf Build-Space: 28684 Build-Time: 142 Distribution: cosmic-proposed Host Architecture: armhf Install-Time: 29 Job: clustalo_1.2.4-2.dsc Machine Architecture: arm64 Package: clustalo Package-Time: 173 Source-Version: 1.2.4-2 Space: 28684 Status: successful Version: 1.2.4-2 -------------------------------------------------------------------------------- Finished at 20180718-2317 Build needed 00:02:53, 28684k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=cosmic --arch=armhf PACKAGEBUILD-15144863 Scanning for processes to kill in build PACKAGEBUILD-15144863