https://launchpad.net/ubuntu/+source/clonalframe/1.2-8/+build/14827866 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux bos02-arm64-002 4.4.0-122-generic #146-Ubuntu SMP Mon Apr 23 15:34:58 UTC 2018 aarch64 Buildd toolchain package versions: launchpad-buildd_161 python-lpbuildd_161 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_1:2.7.4-0ubuntu1.3 dpkg-dev_1.18.4ubuntu1.4 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 4 May 22:17:03 ntpdate[1825]: adjust time server 10.211.37.1 offset 0.025258 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=cosmic --arch=arm64 PACKAGEBUILD-14827866 /home/buildd/filecache-default/ba8da4cd8f224e5b98b45e770e42ce881cefd998 Creating target for build PACKAGEBUILD-14827866 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=cosmic --arch=arm64 PACKAGEBUILD-14827866 Starting target for build PACKAGEBUILD-14827866 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=cosmic --arch=arm64 PACKAGEBUILD-14827866 '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-14827866 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=cosmic --arch=arm64 PACKAGEBUILD-14827866 Updating target for build PACKAGEBUILD-14827866 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 arm64 Packages [974 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main Translation-en [516 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/universe arm64 Packages [8311 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/universe Translation-en [4941 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 Packages [71.0 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic-proposed/main Translation-en [40.0 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic-proposed/universe arm64 Packages [98.8 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic-proposed/universe Translation-en [116 kB] Fetched 15.5 MB in 5s (2954 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following package was automatically installed and is no longer required: libncursesw5 Use 'sudo apt autoremove' to remove it. The following NEW packages will be installed: libncurses6 libncursesw6 libtinfo6 The following packages will be upgraded: base-files base-passwd bash binutils binutils-aarch64-linux-gnu binutils-common bsdutils build-essential cpp cpp-7 dpkg dpkg-dev e2fslibs e2fsprogs fdisk g++ g++-7 gcc gcc-7 gcc-7-base gcc-8-base libargon2-0 libasan4 libatomic1 libbinutils libblkid1 libcap-ng0 libcc1-0 libcom-err2 libcomerr2 libdpkg-perl libext2fs2 libfdisk1 libgcc-7-dev libgcc1 libgmp10 libgomp1 libitm1 liblsan0 libmount1 libncurses5 libncursesw5 libprocps6 libreadline7 libsmartcols1 libss2 libstdc++-7-dev libstdc++6 libtinfo5 libtsan0 libubsan0 libuuid1 mount ncurses-base ncurses-bin pinentry-curses procps readline-common util-linux 59 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 30.0 MB of archives. After this operation, 1105 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu cosmic/main arm64 base-files arm64 10.1ubuntu3 [58.0 kB] Get:2 http://ftpmaster.internal/ubuntu cosmic/main arm64 libtinfo6 arm64 6.1+20180210-2ubuntu2 [74.0 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic/main arm64 bash arm64 4.4.18-2ubuntu2 [545 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 bsdutils arm64 1:2.31.1-0.4ubuntu4 [54.4 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 dpkg arm64 1.19.0.5ubuntu3 [1096 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libext2fs2 arm64 1.44.1-2 [138 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 e2fsprogs arm64 1.44.1-2 [346 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/main arm64 ncurses-bin arm64 6.1+20180210-2ubuntu2 [154 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic/main arm64 libncursesw6 arm64 6.1+20180210-2ubuntu2 [107 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libuuid1 arm64 2.31.1-0.4ubuntu4 [18.4 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libblkid1 arm64 2.31.1-0.4ubuntu4 [105 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libfdisk1 arm64 2.31.1-0.4ubuntu4 [138 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libmount1 arm64 2.31.1-0.4ubuntu4 [115 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libsmartcols1 arm64 2.31.1-0.4ubuntu4 [70.6 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 fdisk arm64 2.31.1-0.4ubuntu4 [95.2 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 util-linux arm64 2.31.1-0.4ubuntu4 [818 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 base-passwd arm64 3.5.45 [45.8 kB] Get:18 http://ftpmaster.internal/ubuntu cosmic/main arm64 ncurses-base all 6.1+20180210-2ubuntu2 [17.8 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 mount arm64 2.31.1-0.4ubuntu4 [97.8 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic/main arm64 libgomp1 arm64 8.1.0-1ubuntu2 [69.6 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main arm64 libitm1 arm64 8.1.0-1ubuntu2 [24.4 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main arm64 gcc-8-base arm64 8.1.0-1ubuntu2 [18.1 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/main arm64 libstdc++6 arm64 8.1.0-1ubuntu2 [372 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main arm64 liblsan0 arm64 8.1.0-1ubuntu2 [120 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main arm64 libtsan0 arm64 8.1.0-1ubuntu2 [269 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic/main arm64 libcc1-0 arm64 8.1.0-1ubuntu2 [36.5 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic/main arm64 libatomic1 arm64 8.1.0-1ubuntu2 [9120 B] Get:28 http://ftpmaster.internal/ubuntu cosmic/main arm64 libgcc1 arm64 1:8.1.0-1ubuntu2 [34.3 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libcap-ng0 arm64 0.7.9-1 [10.3 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libcom-err2 arm64 1.44.1-2 [8852 B] Get:31 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libss2 arm64 1.44.1-2 [9984 B] Get:32 http://ftpmaster.internal/ubuntu cosmic/main arm64 libncurses5 arm64 6.1+20180210-2ubuntu2 [77.0 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic/main arm64 libncursesw5 arm64 6.1+20180210-2ubuntu2 [96.4 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic/main arm64 libtinfo5 arm64 6.1+20180210-2ubuntu2 [70.4 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libgmp10 arm64 2:6.1.2+dfsg-3 [204 kB] Get:36 http://ftpmaster.internal/ubuntu cosmic/main arm64 libprocps6 arm64 2:3.3.12-3ubuntu2 [28.2 kB] Get:37 http://ftpmaster.internal/ubuntu cosmic/main arm64 libncurses6 arm64 6.1+20180210-2ubuntu2 [80.7 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic/main arm64 procps arm64 2:3.3.12-3ubuntu2 [206 kB] Get:39 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libargon2-0 arm64 0~20161029-2 [17.9 kB] Get:40 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 readline-common all 7.0-4ubuntu1 [52.3 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libreadline7 arm64 7.0-4ubuntu1 [106 kB] Get:42 http://ftpmaster.internal/ubuntu cosmic/main arm64 binutils-common arm64 2.30-17ubuntu1 [193 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic/main arm64 binutils arm64 2.30-17ubuntu1 [3360 B] Get:44 http://ftpmaster.internal/ubuntu cosmic/main arm64 binutils-aarch64-linux-gnu arm64 2.30-17ubuntu1 [2183 kB] Get:45 http://ftpmaster.internal/ubuntu cosmic/main arm64 libbinutils arm64 2.30-17ubuntu1 [428 kB] Get:46 http://ftpmaster.internal/ubuntu cosmic/main arm64 libasan4 arm64 7.3.0-17ubuntu1 [335 kB] Get:47 http://ftpmaster.internal/ubuntu cosmic/main arm64 libubsan0 arm64 7.3.0-17ubuntu1 [117 kB] Get:48 http://ftpmaster.internal/ubuntu cosmic/main arm64 g++-7 arm64 7.3.0-17ubuntu1 [6141 kB] Get:49 http://ftpmaster.internal/ubuntu cosmic/main arm64 gcc-7 arm64 7.3.0-17ubuntu1 [5996 kB] Get:50 http://ftpmaster.internal/ubuntu cosmic/main arm64 libstdc++-7-dev arm64 7.3.0-17ubuntu1 [1461 kB] Get:51 http://ftpmaster.internal/ubuntu cosmic/main arm64 libgcc-7-dev arm64 7.3.0-17ubuntu1 [837 kB] Get:52 http://ftpmaster.internal/ubuntu cosmic/main arm64 cpp-7 arm64 7.3.0-17ubuntu1 [5328 kB] Get:53 http://ftpmaster.internal/ubuntu cosmic/main arm64 gcc-7-base arm64 7.3.0-17ubuntu1 [18.9 kB] Get:54 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 cpp arm64 4:7.3.0-3ubuntu3 [27.6 kB] Get:55 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 gcc arm64 4:7.3.0-3ubuntu3 [5232 B] Get:56 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 g++ arm64 4:7.3.0-3ubuntu3 [1580 B] Get:57 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 dpkg-dev all 1.19.0.5ubuntu3 [608 kB] Get:58 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libdpkg-perl all 1.19.0.5ubuntu3 [211 kB] Get:59 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 build-essential arm64 12.5ubuntu2 [4736 B] Get:60 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 e2fslibs arm64 1.44.1-2 [2704 B] Get:61 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libcomerr2 arm64 1.44.1-2 [2692 B] Get:62 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 pinentry-curses arm64 1.1.0-1build1 [32.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 30.0 MB in 1s (28.0 MB/s) (Reading database ... 12590 files and directories currently installed.) Preparing to unpack .../base-files_10.1ubuntu3_arm64.deb ... Unpacking base-files (10.1ubuntu3) over (10.1ubuntu2) ... Setting up base-files (10.1ubuntu3) ... 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:arm64. (Reading database ... 12590 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.1+20180210-2ubuntu2_arm64.deb ... Unpacking libtinfo6:arm64 (6.1+20180210-2ubuntu2) ... Setting up libtinfo6:arm64 (6.1+20180210-2ubuntu2) ... (Reading database ... 12599 files and directories currently installed.) Preparing to unpack .../bash_4.4.18-2ubuntu2_arm64.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 ... 12599 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.31.1-0.4ubuntu4_arm64.deb ... Unpacking bsdutils (1:2.31.1-0.4ubuntu4) over (1:2.31.1-0.4ubuntu3) ... Setting up bsdutils (1:2.31.1-0.4ubuntu4) ... (Reading database ... 12599 files and directories currently installed.) Preparing to unpack .../dpkg_1.19.0.5ubuntu3_arm64.deb ... Unpacking dpkg (1.19.0.5ubuntu3) over (1.19.0.5ubuntu2) ... Setting up dpkg (1.19.0.5ubuntu3) ... (Reading database ... 12599 files and directories currently installed.) Preparing to unpack .../libext2fs2_1.44.1-2_arm64.deb ... Unpacking libext2fs2:arm64 (1.44.1-2) over (1.44.1-1) ... Setting up libext2fs2:arm64 (1.44.1-2) ... (Reading database ... 12599 files and directories currently installed.) 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Setting up binutils-common:arm64 (2.30-17ubuntu1) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... Setting up pinentry-curses (1.1.0-1build1) ... Setting up libcomerr2:arm64 (1.44.1-2) ... Setting up libncurses6:arm64 (6.1+20180210-2ubuntu2) ... Setting up libitm1:arm64 (8.1.0-1ubuntu2) ... Setting up libasan4:arm64 (7.3.0-17ubuntu1) ... Setting up libbinutils:arm64 (2.30-17ubuntu1) ... Setting up libubsan0:arm64 (7.3.0-17ubuntu1) ... Setting up libgcc-7-dev:arm64 (7.3.0-17ubuntu1) ... Setting up cpp-7 (7.3.0-17ubuntu1) ... Setting up procps (2:3.3.12-3ubuntu2) ... Setting up libstdc++-7-dev:arm64 (7.3.0-17ubuntu1) ... Setting up binutils-aarch64-linux-gnu (2.30-17ubuntu1) ... Processing triggers for systemd (237-3ubuntu10) ... Setting up binutils (2.30-17ubuntu1) ... Setting up cpp (4:7.3.0-3ubuntu3) ... Setting up gcc-7 (7.3.0-17ubuntu1) ... Setting up g++-7 (7.3.0-17ubuntu1) ... Setting up gcc (4:7.3.0-3ubuntu3) ... Setting up dpkg-dev (1.19.0.5ubuntu3) ... Setting up g++ (4:7.3.0-3ubuntu3) ... Setting up build-essential (12.5ubuntu2) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-14827866 arm64 cosmic-proposed -c chroot:build-PACKAGEBUILD-14827866 --arch=arm64 --dist=cosmic-proposed --nolog clonalframe_1.2-8.dsc Initiating build PACKAGEBUILD-14827866 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-122-generic #146-Ubuntu SMP Mon Apr 23 15:34:58 UTC 2018 aarch64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos02-arm64-002.buildd +==============================================================================+ | clonalframe 1.2-8 (arm64) 04 May 2018 22:17 | +==============================================================================+ Package: clonalframe Version: 1.2-8 Source Version: 1.2-8 Distribution: cosmic-proposed Machine Architecture: arm64 Host Architecture: arm64 Build Architecture: arm64 I: NOTICE: Log filtering will replace 'build/clonalframe-9DkgMr/clonalframe-1.2' with '<>' I: NOTICE: Log filtering will replace 'build/clonalframe-9DkgMr' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-14827866/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- clonalframe_1.2-8.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-tEm94v/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-tEm94v/apt_archive ./ InRelease Get:2 copy:/<>/resolver-tEm94v/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-tEm94v/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-tEm94v/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-tEm94v/apt_archive ./ Packages [528 B] Fetched 2861 B in 0s (118 kB/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 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-tEm94v/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 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 12614 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_arm64.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~), qt5-qmake, libgsl-dev Filtered Build-Depends: debhelper (>= 11~), qt5-qmake, libgsl-dev dpkg-deb: building package 'sbuild-build-depends-clonalframe-dummy' in '/<>/resolver-V992fk/apt_archive/sbuild-build-depends-clonalframe-dummy.deb'. Ign:1 copy:/<>/resolver-V992fk/apt_archive ./ InRelease Get:2 copy:/<>/resolver-V992fk/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-V992fk/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-V992fk/apt_archive ./ Sources [232 B] Get:5 copy:/<>/resolver-V992fk/apt_archive ./ Packages [553 B] Fetched 2904 B in 0s (133 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install clonalframe build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libfile-stripnondeterminism-perl libglib2.0-0 libgsl-dev libgsl23 libgslcblas0 libicu60 libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libtimedate-perl libtool libxml2 m4 man-db po-debconf qt5-qmake qt5-qmake-bin qtchooser Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make dwz gettext-doc libasprintf-dev libgettextpo-dev groff gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libfile-stripnondeterminism-perl libglib2.0-0 libgsl-dev libgsl23 libgslcblas0 libicu60 libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libtimedate-perl libtool libxml2 m4 man-db po-debconf qt5-qmake qt5-qmake-bin qtchooser sbuild-build-depends-clonalframe-dummy 0 upgraded, 36 newly installed, 0 to remove and 0 not upgraded. Need to get 18.9 MB of archives. After this operation, 75.2 MB of additional disk space will be used. Get:1 copy:/<>/resolver-V992fk/apt_archive ./ sbuild-build-depends-clonalframe-dummy 0.invalid.0 [876 B] Get:2 http://ftpmaster.internal/ubuntu cosmic/main arm64 libbsd0 arm64 0.8.7-1 [36.4 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic/main arm64 bsdmainutils arm64 11.1.2ubuntu2 [175 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic/main arm64 groff-base arm64 1.22.3-10 [1152 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main arm64 libpipeline1 arm64 1.5.0-1 [22.0 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main arm64 man-db arm64 2.8.3-2 [993 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libmagic-mgc arm64 1:5.33-2 [193 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libmagic1 arm64 1:5.33-2 [62.7 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 file arm64 1:5.33-2 [22.6 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic/main arm64 libglib2.0-0 arm64 2.56.1-2ubuntu1 [981 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic/main arm64 libicu60 arm64 60.2-3ubuntu3 [7985 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic/main arm64 libxml2 arm64 2.9.4+dfsg1-6.1ubuntu1 [547 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic/main arm64 gettext-base arm64 0.19.8.1-6build1 [46.5 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libsigsegv2 arm64 2.12-2 [13.3 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic/main arm64 m4 arm64 1.4.18-1 [185 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic/main arm64 autoconf all 2.69-11 [322 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic/main arm64 autotools-dev all 20180224.1 [39.6 kB] Get:18 http://ftpmaster.internal/ubuntu cosmic/main arm64 automake all 1:1.15.1-3ubuntu2 [509 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic/main arm64 autopoint all 0.19.8.1-6build1 [412 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic-proposed/main arm64 libtool all 2.4.6-2.1 [195 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main arm64 dh-autoreconf all 17 [15.8 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main arm64 libarchive-zip-perl all 1.60-1 [83.9 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/main arm64 libfile-stripnondeterminism-perl all 0.040-1.1~build1 [13.8 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main arm64 libtimedate-perl all 2.3000-2 [37.5 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main arm64 dh-strip-nondeterminism all 0.040-1.1~build1 [5208 B] Get:26 http://ftpmaster.internal/ubuntu cosmic/main arm64 libcroco3 arm64 0.6.12-2 [68.2 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic/main arm64 gettext arm64 0.19.8.1-6build1 [823 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic/main arm64 intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic/main arm64 po-debconf all 1.0.20 [232 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic/main arm64 debhelper all 11.2.1ubuntu1 [906 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic/universe arm64 libgslcblas0 arm64 2.4+dfsg-6 [51.6 kB] Get:32 http://ftpmaster.internal/ubuntu cosmic/universe arm64 libgsl23 arm64 2.4+dfsg-6 [730 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic/universe arm64 libgsl-dev arm64 2.4+dfsg-6 [926 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic/main arm64 qt5-qmake-bin arm64 5.9.5+dfsg-0ubuntu1 [848 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic/main arm64 qtchooser arm64 64-ga1b6736-5 [23.3 kB] Get:36 http://ftpmaster.internal/ubuntu cosmic/main arm64 qt5-qmake arm64 5.9.5+dfsg-0ubuntu1 [180 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 18.9 MB in 1s (31.4 MB/s) Selecting previously unselected package libbsd0:arm64. (Reading database ... 12614 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.8.7-1_arm64.deb ... Unpacking libbsd0:arm64 (0.8.7-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2ubuntu2_arm64.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.3-10_arm64.deb ... Unpacking groff-base (1.22.3-10) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../03-libpipeline1_1.5.0-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.0-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.8.3-2_arm64.deb ... Unpacking man-db (2.8.3-2) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../05-libmagic-mgc_1%3a5.33-2_arm64.deb ... Unpacking libmagic-mgc (1:5.33-2) ... Selecting previously unselected package libmagic1:arm64. 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Unpacking sbuild-build-depends-clonalframe-dummy (0.invalid.0) ... Setting up libicu60:arm64 (60.2-3ubuntu3) ... Setting up libarchive-zip-perl (1.60-1) ... Setting up qt5-qmake-bin (5.9.5+dfsg-0ubuntu1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libsigsegv2:arm64 (2.12-2) ... Setting up groff-base (1.22.3-10) ... Setting up libglib2.0-0:arm64 (2.56.1-2ubuntu1) ... No schema files found: doing nothing. Setting up qtchooser (64-ga1b6736-5) ... Setting up gettext-base (0.19.8.1-6build1) ... Setting up libpipeline1:arm64 (1.5.0-1) ... Setting up m4 (1.4.18-1) ... Setting up libbsd0:arm64 (0.8.7-1) ... Setting up libxml2:arm64 (2.9.4+dfsg1-6.1ubuntu1) ... Setting up libmagic-mgc (1:5.33-2) ... Setting up libmagic1:arm64 (1:5.33-2) ... Setting up libcroco3:arm64 (0.6.12-2) ... Setting up qt5-qmake:arm64 (5.9.5+dfsg-0ubuntu1) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... Setting up autotools-dev (20180224.1) ... 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 libgslcblas0:arm64 (2.4+dfsg-6) ... Setting up autopoint (0.19.8.1-6build1) ... Setting up libfile-stripnondeterminism-perl (0.040-1.1~build1) ... Setting up libgsl23:arm64 (2.4+dfsg-6) ... Setting up gettext (0.19.8.1-6build1) ... Setting up libgsl-dev (2.4+dfsg-6) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.33-2) ... 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 man-db (2.8.3-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libtool (2.4.6-2.1) ... Setting up po-debconf (1.0.20) ... Setting up dh-autoreconf (17) ... Setting up dh-strip-nondeterminism (0.040-1.1~build1) ... Setting up debhelper (11.2.1ubuntu1) ... Setting up sbuild-build-depends-clonalframe-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-122-generic arm64 (aarch64) Toolchain package versions: binutils_2.30-17ubuntu1 dpkg-dev_1.19.0.5ubuntu3 g++-7_7.3.0-17ubuntu1 gcc-7_7.3.0-17ubuntu1 libc6-dev_2.27-3ubuntu1 libstdc++-7-dev_7.3.0-17ubuntu1 libstdc++6_8.1.0-1ubuntu2 linux-libc-dev_4.15.0-20.21 Package versions: adduser_3.116ubuntu1 advancecomp_2.1-1 apt_1.6.1 autoconf_2.69-11 automake_1:1.15.1-3ubuntu2 autopoint_0.19.8.1-6build1 autotools-dev_20180224.1 base-files_10.1ubuntu3 base-passwd_3.5.45 bash_4.4.18-2ubuntu2 binutils_2.30-17ubuntu1 binutils-aarch64-linux-gnu_2.30-17ubuntu1 binutils-common_2.30-17ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.31.1-0.4ubuntu4 build-essential_12.5ubuntu2 bzip2_1.0.6-8.1 ca-certificates_20180409 coreutils_8.28-1ubuntu1 cpp_4:7.3.0-3ubuntu3 cpp-7_7.3.0-17ubuntu1 dash_0.5.8-2.10 debconf_1.5.66 debhelper_11.2.1ubuntu1 debianutils_4.8.4 dh-autoreconf_17 dh-strip-nondeterminism_0.040-1.1~build1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu3 dpkg_1.19.0.5ubuntu3 dpkg-dev_1.19.0.5ubuntu3 e2fslibs_1.44.1-2 e2fsprogs_1.44.1-2 fakeroot_1.22-2ubuntu1 fdisk_2.31.1-0.4ubuntu4 file_1:5.33-2 findutils_4.6.0+git+20170828-2 g++_4:7.3.0-3ubuntu3 g++-7_7.3.0-17ubuntu1 gcc_4:7.3.0-3ubuntu3 gcc-7_7.3.0-17ubuntu1 gcc-7-base_7.3.0-17ubuntu1 gcc-8-base_8.1.0-1ubuntu2 gettext_0.19.8.1-6build1 gettext-base_0.19.8.1-6build1 gpg_2.2.4-1ubuntu1 gpg-agent_2.2.4-1ubuntu1 gpgconf_2.2.4-1ubuntu1 gpgv_2.2.4-1ubuntu1 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_2.12-4ubuntu5 libapt-pkg5.0_1.6.1 libarchive-zip-perl_1.60-1 libargon2-0_0~20161029-2 libasan4_7.3.0-17ubuntu1 libassuan0_2.5.1-2 libatomic1_8.1.0-1ubuntu2 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.2-1ubuntu1 libaudit1_1:2.8.2-1ubuntu1 libbinutils_2.30-17ubuntu1 libblkid1_2.31.1-0.4ubuntu4 libbsd0_0.8.7-1 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 libcap-ng0_0.7.9-1 libcap2_1:2.25-1.2 libcc1-0_8.1.0-1ubuntu2 libcom-err2_1.44.1-2 libcomerr2_1.44.1-2 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.2-1ubuntu1 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 libext2fs2_1.44.1-2 libfakeroot_1.22-2ubuntu1 libfdisk1_2.31.1-0.4ubuntu4 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.040-1.1~build1 libgcc-7-dev_7.3.0-17ubuntu1 libgcc1_1:8.1.0-1ubuntu2 libgcrypt20_1.8.1-4ubuntu1 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_8.1.0-1ubuntu2 libgpg-error0_1.27-6 libgsl-dev_2.4+dfsg-6 libgsl23_2.4+dfsg-6 libgslcblas0_2.4+dfsg-6 libhogweed4_3.4-1 libicu60_60.2-3ubuntu3 libidn11_1.33-2.1ubuntu1 libidn2-0_2.0.4-1.1build2 libip4tc0_1.6.1-2ubuntu2 libisl19_0.19-1 libitm1_8.1.0-1ubuntu2 libjson-c3_0.12.1-1.3 libkmod2_24-1ubuntu3 liblockfile-bin_1.14-1.1 liblockfile1_1.14-1.1 liblsan0_8.1.0-1ubuntu2 liblz4-1_0.0~r131-2ubuntu3 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.33-2 libmagic1_1:5.33-2 libmount1_2.31.1-0.4ubuntu4 libmpc3_1.1.0-1 libmpfr6_4.0.1-1 libncurses5_6.1+20180210-2ubuntu2 libncurses6_6.1+20180210-2ubuntu2 libncursesw5_6.1+20180210-2ubuntu2 libncursesw6_6.1+20180210-2ubuntu2 libnettle6_3.4-1 libnpth0_1.5-3 libp11-kit0_0.23.9-2 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 libpcre3_2:8.39-9 libperl5.26_5.26.1-6 libpipeline1_1.5.0-1 libpng16-16_1.6.34-1 libprocps6_2:3.3.12-3ubuntu2 libreadline7_7.0-4ubuntu1 libseccomp2_2.3.1-2.1ubuntu4 libselinux1_2.7-2build2 libsemanage-common_2.7-2build2 libsemanage1_2.7-2build2 libsepol1_2.7-1 libsigsegv2_2.12-2 libslang2_2.3.1a-3ubuntu1 libsmartcols1_2.31.1-0.4ubuntu4 libsqlite3-0_3.22.0-1 libss2_1.44.1-2 libssl1.1_1.1.0g-2ubuntu4 libstdc++-7-dev_7.3.0-17ubuntu1 libstdc++6_8.1.0-1ubuntu2 libsystemd0_237-3ubuntu10 libtasn1-6_4.13-2 libtimedate-perl_2.3000-2 libtinfo5_6.1+20180210-2ubuntu2 libtinfo6_6.1+20180210-2ubuntu2 libtool_2.4.6-2.1 libtsan0_8.1.0-1ubuntu2 libubsan0_7.3.0-17ubuntu1 libudev1_237-3ubuntu10 libunistring2_0.9.9-0ubuntu1 libusb-0.1-4_2:0.1.12-31 libustr-1.0-1_1.0.4-6 libuuid1_2.31.1-0.4ubuntu4 libxml2_2.9.4+dfsg1-6.1ubuntu1 libzstd1_1.3.3+dfsg-2ubuntu1 linux-libc-dev_4.15.0-20.21 lockfile-progs_0.1.17build1 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-1 make_4.1-9.1ubuntu1 man-db_2.8.3-2 mawk_1.3.3-17ubuntu3 mount_2.31.1-0.4ubuntu4 multiarch-support_2.27-3ubuntu1 ncurses-base_6.1+20180210-2ubuntu2 ncurses-bin_6.1+20180210-2ubuntu2 openssl_1.1.0g-2ubuntu4 optipng_0.7.6-1.1 passwd_1:4.5-1ubuntu1 patch_2.7.6-2ubuntu1 perl_5.26.1-6 perl-base_5.26.1-6 perl-modules-5.26_5.26.1-6 pinentry-curses_1.1.0-1build1 pkgbinarymangler_138 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 procps_2:3.3.12-3ubuntu2 qt5-qmake_5.9.5+dfsg-0ubuntu1 qt5-qmake-bin_5.9.5+dfsg-0ubuntu1 qtchooser_64-ga1b6736-5 readline-common_7.0-4ubuntu1 sbuild-build-depends-clonalframe-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.4-2 sensible-utils_0.0.12 systemd_237-3ubuntu10 systemd-sysv_237-3ubuntu10 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu1 tar_1.29b-2 tzdata_2018d-1 ubuntu-keyring_2018.02.28 util-linux_2.31.1-0.4ubuntu4 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Mon Mar 5 16:19:43 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tillea@rki.de" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./clonalframe_1.2-8.dsc dpkg-source: info: extracting clonalframe in clonalframe-1.2 dpkg-source: info: unpacking clonalframe_1.2.orig.tar.gz dpkg-source: info: unpacking clonalframe_1.2-8.debian.tar.xz dpkg-source: info: applying 01_gcc-4.6.patch dpkg-source: info: applying no_qtlibs.patch dpkg-source: info: applying glibc2.27.patch 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-14827866 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-14827866 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-14827866 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package clonalframe dpkg-buildpackage: info: source version 1.2-8 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build clonalframe-1.2 dpkg-buildpackage: info: host architecture arm64 fakeroot debian/rules clean dh clean dh_auto_clean debian/rules override_dh_clean make[1]: Entering directory '/<>' dh_clean rm -rf bin build Makefile make[1]: Leaving directory '/<>' debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a qmake -makefile "QMAKE_CFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_CFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_CXXFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_CXXFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_LFLAGS_RELEASE=-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" "QMAKE_LFLAGS_DEBUG=-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" QMAKE_STRIP=: PREFIX=/usr Info: creating stash file /<>/.qmake.stash debian/rules override_dh_auto_build make[1]: Entering directory '/<>' qmake # did not found a better way to push hardening flags into Makefile sed -i -e "s:CFLAGS *= .*:& -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security:" \ -e "s:CXXFLAGS *= .*:& -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security:" \ -e "s:LFLAGS *= .*:& -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now:" Makefile /usr/bin/make make[2]: Entering directory '/<>' g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/alignment_xmfa.o src/alignment_xmfa.cpp src/alignment_xmfa.cpp: In constructor ‘wb::Alignment_xmfa::Alignment_xmfa(char*, bool, int)’: src/alignment_xmfa.cpp:61:125: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘std::vector::size_type {aka long unsigned int}’ [-Wformat=] printf("Warning: ignoring incomplete fragment %d (does not contain strain %s)\n",v.size(),names[missing]); ~~~~~~~~ ^ src/alignment_xmfa.cpp:129:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (j=0;j>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/alignment_structure.o src/alignment_structure.cpp src/alignment_structure.cpp: In constructor ‘wb::Alignment_structure::Alignment_structure(char*, int)’: src/alignment_structure.cpp:45:19: warning: suggest parentheses around comparison in operand of ‘&’ [-Wparentheses] if (ch>='0' & ch<='9') ~~^~~~~ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/alignment.o src/alignment.cpp src/alignment.cpp: In member function ‘void wb::Alignment::writeToFile(char*)’: src/alignment.cpp:236:21: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] char * lets="ATCG"; ^~~~~~ src/alignment.cpp:241:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (unsigned int i=0;i>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/boot.o src/boot.cpp g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/burst.o src/burst.cpp src/burst.cpp: In member function ‘void wb::Burst::burst(wb::Param*)’: src/burst.cpp:170:47: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘std::vector >::size_type {aka long unsigned int}’ [-Wformat=] printf("Nb groups=%d\n",groups->size()); ~~~~~~~~~~~~~~^ src/burst.cpp:188:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (k=1;ksize();k++) ~^~~~~~~~~~~~ src/burst.cpp:190:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if (k>=rid->size()) continue; ~^~~~~~~~~~~~~ src/burst.cpp: In member function ‘void wb::Burst::optimiseFathers(gsl_vector_int*, std::vector >*, int)’: src/burst.cpp:259:42: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if (slvs->at(prop).size()>current && !descended(prop,i,fathers)) { ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ src/burst.cpp:252:89: warning: unused parameter ‘f’ [-Wunused-parameter] void Burst::optimiseFathers(gsl_vector_int * fathers,vector > *slvs,int f) { ^ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/consensus.o src/consensus.cpp src/consensus.cpp: In member function ‘char* wb::Consensus::retConsensus(double)’: src/consensus.cpp:148:14: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] bool all[n]; ^~~ src/consensus.cpp:148:14: note: in a call to built-in allocation function ‘void* __builtin_alloca_with_align(long unsigned int, long unsigned int)’ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/genes.o src/genes.cpp src/genes.cpp: In constructor ‘wb::Genes::Genes(wb::Alignment*, char*, char*)’: src/genes.cpp:34:19: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result] fscanf(mapf,"%d",&buf); ~~~~~~^~~~~~~~~~~~~~~~ src/genes.cpp:53:19: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result] fscanf(genes,"%d %d",&f1,&f2); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/hashcell.o src/hashcell.cpp src/hashcell.cpp: In member function ‘void wb::HashCell::addNode(wb::Tree*)’: src/hashcell.cpp:51:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if (l>=t->recMap->size) break; ~^~~~~~~~~~~~~~~~~ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/move_ages.o src/move_ages.cpp src/move_ages.cpp: In member function ‘virtual void wb::Move_ages::move(wb::Param*)’: src/move_ages.cpp:60:21: warning: suggest braces around empty body in an ‘else’ statement [-Wempty-body] } else ;//printf("Age change rejected because out of range\n"); ^ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/move_delta.o src/move_delta.cpp src/move_delta.cpp: In constructor ‘wb::Move_delta::Move_delta(gsl_rng*, wb::Param*)’: src/move_delta.cpp:24:50: warning: unused parameter ‘p’ [-Wunused-parameter] Move_delta::Move_delta(gsl_rng * rng,Param * p):Move(rng) { ^ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/move_gap.o src/move_gap.cpp src/move_gap.cpp: In constructor ‘wb::Move_gap::Move_gap(gsl_rng*, wb::Param*)’: src/move_gap.cpp:24:46: warning: unused parameter ‘p’ [-Wunused-parameter] Move_gap::Move_gap(gsl_rng * rng,Param * p) : Move(rng) {} ^ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/move_hidden.o src/move_hidden.cpp src/move_hidden.cpp: In constructor ‘wb::Move_hidden::Move_hidden(gsl_rng*, wb::Param*)’: src/move_hidden.cpp:25:52: warning: unused parameter ‘p’ [-Wunused-parameter] Move_hidden::Move_hidden(gsl_rng * rng,Param * p) : Move(rng) ^ src/move_hidden.cpp: In member function ‘void wb::Move_hidden::forwardfast(wb::Param*, wb::Tree*)’: src/move_hidden.cpp:127:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (unsigned int i=0;ia->polySites,old)- gsl_vector_int_get(p->a->polySites,old-1); ^ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/move_hidden2.o src/move_hidden2.cpp g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/move_mu.o src/move_mu.cpp src/move_mu.cpp: In constructor ‘wb::Move_mu::Move_mu(gsl_rng*, wb::Param*)’: src/move_mu.cpp:24:44: warning: unused parameter ‘p’ [-Wunused-parameter] Move_mu::Move_mu(gsl_rng * rng,Param * p):Move(rng) {} ^ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/move_nu.o src/move_nu.cpp src/move_nu.cpp: In constructor ‘wb::Move_nu::Move_nu(gsl_rng*, wb::Param*)’: src/move_nu.cpp:24:44: warning: unused parameter ‘p’ [-Wunused-parameter] Move_nu::Move_nu(gsl_rng * rng,Param * p):Move(rng) {} ^ src/move_nu.cpp: In member function ‘virtual void wb::Move_nu::move(wb::Param*)’: src/move_nu.cpp:56:16: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wdangling-else] if (gsl_vector_char_get(t->recMap,j)==1) ^ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/move_rho.o src/move_rho.cpp src/move_rho.cpp: In constructor ‘wb::Move_rho::Move_rho(gsl_rng*, wb::Param*)’: src/move_rho.cpp:24:46: warning: unused parameter ‘p’ [-Wunused-parameter] Move_rho::Move_rho(gsl_rng * rng,Param * p):Move(rng) ^ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/move_wb.o src/move_wb.cpp src/move_wb.cpp: In member function ‘virtual void wb::Move_wb::move(wb::Param*)’: src/move_wb.cpp:127:17: warning: unused variable ‘sizeys2’ [-Wunused-variable] int sizeys2=propLocs(ys,probys,x,p); ^~~~~~~ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/move.o src/move.cpp g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/param.o src/param.cpp g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/recorder.o src/recorder.cpp g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/tree_coal.o src/tree_coal.cpp g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/tree_simple.o src/tree_simple.cpp g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/tree_upgma.o src/tree_upgma.cpp g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/tree_newick.o src/tree_newick.cpp g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/tree.o src/tree.cpp src/tree.cpp: In static member function ‘static wb::Tree* wb::Tree::move(wb::Tree*, wb::Tree*, double, gsl_vector_char*, gsl_vector_char*, wb::Param*)’: src/tree.cpp:99:12: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wdangling-else] if (z!=NULL) ^ src/tree.cpp: In member function ‘double wb::Tree::llhoodb(wb::Param*)’: src/tree.cpp:229:87: warning: ‘vals[9]’ may be used uninitialized in this function [-Wmaybe-uninitialized] } else if (gsl_vector_char_get(recMap,i)==0) {ret+=vals[8];} else {ret+=vals[9];p->rec++;} ~~~^~~~~~~~~ src/tree.cpp:223:29: warning: ‘vals[5]’ may be used uninitialized in this function [-Wmaybe-uninitialized] {ret+=vals[5];p->rec++;} ~~~^~~~~~~~~ g++ -c -pipe -W -Wall -O3 -static -DHAVE_INLINE -DGSL_RANGE_CHECK_OFF -Isrc -O2 -Wall -W -fPIC -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/util.o src/util.cpp src/util.cpp: In static member function ‘static void wb::Util::normalize(double*, int)’: src/util.cpp:83:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (unsigned int i=0;i>=. -fstack-protector-strong -Wformat -Werror=format-security -I. -I/usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -o build/ClonalFrame.o src/ClonalFrame.cpp src/ClonalFrame.cpp: In function ‘gsl_rng* makerng()’: src/ClonalFrame.cpp:83:14: warning: variable ‘rng_seed’ set but not used [-Wunused-but-set-variable] long int rng_seed; ^~~~~~~~ src/ClonalFrame.cpp: In function ‘int main(int, char**)’: src/ClonalFrame.cpp:263:68: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] if (cleanup==true) {a->cleanUp();a->writeToFile("/tmp/out.xmfa");} ^ src/ClonalFrame.cpp:341:51: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=] printf("Time spent in MH in seconds:%d\n",t2-t); ~~~~^ src/ClonalFrame.cpp: In function ‘gsl_rng* makerng()’: src/ClonalFrame.cpp:96:14: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&seed,sizeof(seed),1,devrandom); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o bin/ClonalFrame build/alignment_xmfa.o build/alignment_structure.o build/alignment.o build/boot.o build/burst.o build/consensus.o build/genes.o build/hashcell.o build/move_ages.o build/move_delta.o build/move_gap.o build/move_hidden.o build/move_hidden2.o build/move_mu.o build/move_nu.o build/move_rho.o build/move_wb.o build/move.o build/param.o build/recorder.o build/tree_coal.o build/tree_simple.o build/tree_upgma.o build/tree_newick.o build/tree.o build/util.o build/ClonalFrame.o -lgsl -lgslcblas make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test -a create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_auto_install -a dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/clonalframe/usr/bin/ClonalFrame was not linked against libgslcblas.so.0 (it uses none of the library's symbols) dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 138 INFO: pkgstriptranslations version 138 pkgstriptranslations: processing clonalframe (in debian/clonalframe); do_strip: , oemstrip: pkgstriptranslations: processing clonalframe-dbgsym (in debian/.debhelper/clonalframe/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/clonalframe/DEBIAN/control, package clonalframe, directory debian/clonalframe pkgstripfiles: Running PNG optimization (using 4 cpus) for package clonalframe ... pkgstripfiles: No PNG files. dpkg-deb: building package 'clonalframe' in '../clonalframe_1.2-8_arm64.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/clonalframe/dbgsym-root/DEBIAN/control, package clonalframe-dbgsym, directory debian/.debhelper/clonalframe/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package clonalframe-dbgsym ... pkgstripfiles: No PNG files. dpkg-deb: building package 'clonalframe-dbgsym' in 'debian/.debhelper/scratch-space/build-clonalframe/clonalframe-dbgsym_1.2-8_arm64.deb'. Renaming clonalframe-dbgsym_1.2-8_arm64.deb to clonalframe-dbgsym_1.2-8_arm64.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../clonalframe_1.2-8_arm64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build clonalframe-1.2 dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20180504-2218 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ clonalframe_1.2-8_arm64.changes: -------------------------------- Format: 1.8 Date: Mon, 05 Mar 2018 17:15:32 +0100 Source: clonalframe Binary: clonalframe Architecture: arm64 Version: 1.2-8 Distribution: cosmic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: clonalframe - inference of bacterial microevolution using multilocus sequence d Closes: 891335 Changes: clonalframe (1.2-8) unstable; urgency=medium . [ Adrian Bunk ] * comment out erroneous unused code which breaks build with glibc 2.27 Closes: #891335 . [ Andreas Tille ] * cme fix dpkg-copyright * Standards-Version: 4.1.3 * debhelper 11 Checksums-Sha1: 93cd5385895f71c77a713155b40f52f0cc28f5f0 330900 clonalframe-dbgsym_1.2-8_arm64.ddeb 2ded367a4ec2798e2d41d92b4b7556378e9be91c 5179 clonalframe_1.2-8_arm64.buildinfo 545c5d1896e8c0e340aea0a80133a8620c8f67c4 46928 clonalframe_1.2-8_arm64.deb Checksums-Sha256: 5fcb87c50034811be3d2f0b2980a412039562a03423ccb4584036991be82148b 330900 clonalframe-dbgsym_1.2-8_arm64.ddeb 1165d17f0253fcd1d194c630ae93fbc43968a2faa256279711576b4d831d356b 5179 clonalframe_1.2-8_arm64.buildinfo 357854453a0650da29ec0cdd2b745a7890a36a683977148908e259b9681a18da 46928 clonalframe_1.2-8_arm64.deb Files: d06e592d357acccd113f90abc23c7d77 330900 debug optional clonalframe-dbgsym_1.2-8_arm64.ddeb 1847ed24031d810337f487e6d8e51211 5179 science optional clonalframe_1.2-8_arm64.buildinfo b540d0dec73322ba809a0af5d7bdbd58 46928 science optional clonalframe_1.2-8_arm64.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ clonalframe_1.2-8_arm64.deb --------------------------- new debian package, version 2.0. size 46928 bytes: control archive=1180 bytes. 1312 bytes, 24 lines control 348 bytes, 5 lines md5sums Package: clonalframe Version: 1.2-8 Architecture: arm64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 119 Depends: libc6 (>= 2.17), libgcc1 (>= 1:3.0), libgsl23, libgslcblas0, libstdc++6 (>= 5.2) Suggests: clonalframeml Section: science Priority: optional Homepage: http://www.xavierdidelot.xtreemhost.com/clonalframe.htm Description: inference of bacterial microevolution using multilocus sequence data ClonalFrame identifies the clonal relationships between the members of a sample, while also estimating the chromosomal position of homologous recombination events that have disrupted the clonal inheritance. . ClonalFrame can be applied to any kind of sequence data, from a single fragment of DNA to whole genomes. It is well suited for the analysis of MLST data, where 7 gene fragments have been sequenced, but becomes progressively more powerful as the sequenced regions increase in length and number up to whole genomes. However, it requires the sequences to be aligned. If you have genomic data that is not aligned, it is recommend to use Mauve which produces alignment of whole bacterial genomes in exactly the format required for analysis with ClonalFrame. drwxr-xr-x root/root 0 2018-03-05 16:15 ./ drwxr-xr-x root/root 0 2018-03-05 16:15 ./usr/ drwxr-xr-x root/root 0 2018-03-05 16:15 ./usr/bin/ -rwxr-xr-x root/root 104544 2018-03-05 16:15 ./usr/bin/ClonalFrame drwxr-xr-x root/root 0 2018-03-05 16:15 ./usr/share/ drwxr-xr-x root/root 0 2018-03-05 16:15 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-03-05 16:15 ./usr/share/doc/clonalframe/ -rw-r--r-- root/root 412 2018-03-05 16:15 ./usr/share/doc/clonalframe/README.Debian -rw-r--r-- root/root 1085 2018-03-05 16:15 ./usr/share/doc/clonalframe/changelog.Debian.gz -rw-r--r-- root/root 1300 2018-03-05 16:15 ./usr/share/doc/clonalframe/copyright drwxr-xr-x root/root 0 2018-03-05 16:15 ./usr/share/man/ drwxr-xr-x root/root 0 2018-03-05 16:15 ./usr/share/man/man1/ -rw-r--r-- root/root 1055 2018-03-05 16:15 ./usr/share/man/man1/ClonalFrame.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build-Space: 5048 Build-Time: 61 Distribution: cosmic-proposed Host Architecture: arm64 Install-Time: 17 Job: clonalframe_1.2-8.dsc Machine Architecture: arm64 Package: clonalframe Package-Time: 81 Source-Version: 1.2-8 Space: 5048 Status: successful Version: 1.2-8 -------------------------------------------------------------------------------- Finished at 20180504-2218 Build needed 00:01:21, 5048k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=cosmic --arch=arm64 PACKAGEBUILD-14827866 Scanning for processes to kill in build PACKAGEBUILD-14827866 RUN: /usr/share/launchpad-buildd/slavebin/in-target umount-chroot --backend=chroot --series=cosmic --arch=arm64 PACKAGEBUILD-14827866 Stopping target for build PACKAGEBUILD-14827866 RUN: /usr/share/launchpad-buildd/slavebin/in-target remove-build --backend=chroot --series=cosmic --arch=arm64 PACKAGEBUILD-14827866 Removing build PACKAGEBUILD-14827866