https://launchpad.net/ubuntu/+source/eigensoft/7.2.1+dfsg-1/+build/15133204 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux bos02-arm64-020 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... 16 Jul 23:17:09 ntpdate[1888]: adjust time server 10.211.37.1 offset 0.000074 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=cosmic --arch=armhf PACKAGEBUILD-15133204 /home/buildd/filecache-default/fc6c56f66744d62233b3c844f67cb7d83d839bbc Creating target for build PACKAGEBUILD-15133204 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=cosmic --arch=armhf PACKAGEBUILD-15133204 Starting target for build PACKAGEBUILD-15133204 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=cosmic --arch=armhf PACKAGEBUILD-15133204 'deb http://ftpmaster.internal/ubuntu cosmic main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu cosmic-security main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu cosmic-updates main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu cosmic-proposed main restricted universe multiverse' Overriding sources.list in build-PACKAGEBUILD-15133204 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=cosmic --arch=armhf PACKAGEBUILD-15133204 Updating target for build PACKAGEBUILD-15133204 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 [972 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main Translation-en [516 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/restricted armhf Packages [8364 B] Get:8 http://ftpmaster.internal/ubuntu cosmic/restricted Translation-en [3584 B] Get:9 http://ftpmaster.internal/ubuntu cosmic/universe armhf Packages [8414 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic/universe Translation-en [5024 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic/multiverse armhf Packages [132 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic/multiverse Translation-en [110 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf Packages [60.6 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic-proposed/main Translation-en [38.8 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic-proposed/universe armhf Packages [199 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic-proposed/universe Translation-en [117 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic-proposed/multiverse armhf Packages [3220 B] Get:18 http://ftpmaster.internal/ubuntu cosmic-proposed/multiverse Translation-en [4048 B] Fetched 16.1 MB in 6s (2542 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: libargon2-0 libncursesw5 libprocps6 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libargon2-1 libncurses6 libncursesw6 libprocps7 libtinfo6 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 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 101 upgraded, 5 newly installed, 0 to remove and 0 not upgraded. Need to get 48.1 MB of archives. After this operation, 1758 kB 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 libselinux1 armhf 2.8-1build1 [59.2 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main armhf libmount1 armhf 2.32-0.1ubuntu1 [125 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main armhf libsmartcols1 armhf 2.32-0.1ubuntu1 [76.2 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/main armhf fdisk armhf 2.32-0.1ubuntu1 [98.7 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main armhf util-linux armhf 2.32-0.1ubuntu1 [858 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main armhf base-passwd armhf 3.5.45 [46.0 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic/main armhf ncurses-base all 6.1+20180210-4ubuntu1 [18.4 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgomp1 armhf 8.1.0-10ubuntu1 [66.6 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf gcc-8-base armhf 8.1.0-10ubuntu1 [19.1 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgcc1 armhf 1:8.1.0-10ubuntu1 [37.1 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libcc1-0 armhf 8.1.0-10ubuntu1 [32.7 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libatomic1 armhf 8.1.0-10ubuntu1 [7048 B] Get:32 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libstdc++6 armhf 8.1.0-10ubuntu1 [350 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic/main armhf liblz4-1 armhf 1.8.2-1ubuntu1 [76.1 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libudev1 armhf 238-5ubuntu2 [50.7 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic/main armhf libapt-pkg5.0 armhf 1.7.0~alpha2 [731 kB] Get:36 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf debconf all 1.5.67 [124 kB] Get:37 http://ftpmaster.internal/ubuntu cosmic/main armhf adduser all 3.117ubuntu1 [163 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgpg-error0 armhf 1.32-1 [48.4 kB] Get:39 http://ftpmaster.internal/ubuntu cosmic/main armhf libgcrypt20 armhf 1.8.3-1ubuntu1 [364 kB] Get:40 http://ftpmaster.internal/ubuntu cosmic/main armhf gpgv armhf 2.2.8-1ubuntu1 [167 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic/main armhf libseccomp2 armhf 2.3.3-3ubuntu1 [30.4 kB] Get:42 http://ftpmaster.internal/ubuntu cosmic/main armhf apt armhf 1.7.0~alpha2 [1127 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libapparmor1 armhf 2.12-4ubuntu6 [27.1 kB] Get:44 http://ftpmaster.internal/ubuntu cosmic/main armhf libaudit-common all 1:2.8.3-1ubuntu2 [4064 B] Get:45 http://ftpmaster.internal/ubuntu cosmic/main armhf libcap-ng0 armhf 0.7.9-1 [10.1 kB] Get:46 http://ftpmaster.internal/ubuntu cosmic/main armhf libaudit1 armhf 1:2.8.3-1ubuntu2 [35.5 kB] Get:47 http://ftpmaster.internal/ubuntu cosmic/main armhf libargon2-1 armhf 0~20171227-0.1 [20.7 kB] Get:48 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libcryptsetup12 armhf 2:2.0.3-6ubuntu1 [123 kB] Get:49 http://ftpmaster.internal/ubuntu cosmic/main armhf libkmod2 armhf 25-1ubuntu1 [35.7 kB] Get:50 http://ftpmaster.internal/ubuntu cosmic/main armhf mount armhf 2.32-0.1ubuntu1 [97.4 kB] Get:51 http://ftpmaster.internal/ubuntu cosmic/main armhf libncurses6 armhf 6.1+20180210-4ubuntu1 [78.5 kB] Get:52 http://ftpmaster.internal/ubuntu cosmic/main armhf libprocps7 armhf 2:3.3.15-2ubuntu1 [29.6 kB] Get:53 http://ftpmaster.internal/ubuntu cosmic/main armhf procps armhf 2:3.3.15-2ubuntu1 [219 kB] Get:54 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf systemd armhf 238-5ubuntu2 [2783 kB] Get:55 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libsystemd0 armhf 238-5ubuntu2 [189 kB] Get:56 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf systemd-sysv armhf 238-5ubuntu2 [13.7 kB] Get:57 http://ftpmaster.internal/ubuntu cosmic/main armhf libcom-err2 armhf 1.44.3-1 [8356 B] Get:58 http://ftpmaster.internal/ubuntu cosmic/main armhf libsepol1 armhf 2.8-1 [219 kB] Get:59 http://ftpmaster.internal/ubuntu cosmic/main armhf libsemanage-common all 2.8-1build1 [7000 B] Get:60 http://ftpmaster.internal/ubuntu cosmic/main armhf libsemanage1 armhf 2.8-1build1 [73.0 kB] Get:61 http://ftpmaster.internal/ubuntu cosmic/main armhf libss2 armhf 1.44.3-1 [9396 B] Get:62 http://ftpmaster.internal/ubuntu cosmic/main armhf libgmp10 armhf 2:6.1.2+dfsg-3 [182 kB] Get:63 http://ftpmaster.internal/ubuntu cosmic/main armhf libp11-kit0 armhf 0.23.12-2 [163 kB] Get:64 http://ftpmaster.internal/ubuntu cosmic/main armhf libtasn1-6 armhf 4.13-3 [31.1 kB] Get:65 http://ftpmaster.internal/ubuntu cosmic/main armhf libncurses5 armhf 6.1+20180210-4ubuntu1 [74.9 kB] Get:66 http://ftpmaster.internal/ubuntu cosmic/main armhf libncursesw5 armhf 6.1+20180210-4ubuntu1 [95.3 kB] Get:67 http://ftpmaster.internal/ubuntu cosmic/main armhf libtinfo5 armhf 6.1+20180210-4ubuntu1 [67.6 kB] Get:68 http://ftpmaster.internal/ubuntu cosmic/main armhf libargon2-0 armhf 0~20171227-0.1 [4536 B] Get:69 http://ftpmaster.internal/ubuntu cosmic/main armhf readline-common all 7.0-5 [52.2 kB] Get:70 http://ftpmaster.internal/ubuntu cosmic/main armhf libreadline7 armhf 7.0-5 [102 kB] Get:71 http://ftpmaster.internal/ubuntu cosmic/main armhf libslang2 armhf 2.3.2-1ubuntu1 [383 kB] Get:72 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libsqlite3-0 armhf 3.24.0-1 [429 kB] Get:73 http://ftpmaster.internal/ubuntu cosmic/main armhf libssl1.1 armhf 1.1.0g-2ubuntu5 [912 kB] Get:74 http://ftpmaster.internal/ubuntu cosmic/main armhf openssl armhf 1.1.0g-2ubuntu5 [510 kB] Get:75 http://ftpmaster.internal/ubuntu cosmic/main armhf tzdata all 2018e-1 [188 kB] Get:76 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libpng16-16 armhf 1.6.34-2 [159 kB] Get:77 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libbinutils armhf 2.31-1ubuntu1 [310 kB] Get:78 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf binutils-common armhf 2.31-1ubuntu1 [194 kB] Get:79 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf binutils armhf 2.31-1ubuntu1 [3344 B] Get:80 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf binutils-arm-linux-gnueabihf armhf 2.31-1ubuntu1 [2183 kB] Get:81 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libasan4 armhf 7.3.0-25ubuntu1 [327 kB] Get:82 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libubsan0 armhf 7.3.0-25ubuntu1 [108 kB] Get:83 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libcilkrts5 armhf 7.3.0-25ubuntu1 [35.9 kB] Get:84 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf g++-7 armhf 7.3.0-25ubuntu1 [6048 kB] Get:85 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf gcc-7 armhf 7.3.0-25ubuntu1 [5953 kB] Get:86 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libstdc++-7-dev armhf 7.3.0-25ubuntu1 [1536 kB] Get:87 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgcc-7-dev armhf 7.3.0-25ubuntu1 [706 kB] Get:88 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf cpp-7 armhf 7.3.0-25ubuntu1 [5298 kB] Get:89 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf gcc-7-base armhf 7.3.0-25ubuntu1 [19.1 kB] Get:90 http://ftpmaster.internal/ubuntu cosmic/main armhf cpp armhf 4:7.3.0-3ubuntu3 [27.6 kB] Get:91 http://ftpmaster.internal/ubuntu cosmic/main armhf gcc armhf 4:7.3.0-3ubuntu3 [5228 B] Get:92 http://ftpmaster.internal/ubuntu cosmic/main armhf g++ armhf 4:7.3.0-3ubuntu3 [1600 B] Get:93 http://ftpmaster.internal/ubuntu cosmic/main armhf make armhf 4.2.1-1.1 [149 kB] Get:94 http://ftpmaster.internal/ubuntu cosmic/main armhf dpkg-dev all 1.19.0.5ubuntu3 [608 kB] Get:95 http://ftpmaster.internal/ubuntu cosmic/main armhf libdpkg-perl all 1.19.0.5ubuntu3 [211 kB] Get:96 http://ftpmaster.internal/ubuntu cosmic/main armhf build-essential armhf 12.5ubuntu2 [4732 B] Get:97 http://ftpmaster.internal/ubuntu cosmic/main armhf e2fslibs armhf 1.44.3-1 [2704 B] Get:98 http://ftpmaster.internal/ubuntu cosmic/main armhf pinentry-curses armhf 1.1.0-1build2 [31.4 kB] Get:99 http://ftpmaster.internal/ubuntu cosmic/main armhf libnpth0 armhf 1.5-4 [6648 B] Get:100 http://ftpmaster.internal/ubuntu cosmic/main armhf gpg armhf 2.2.8-1ubuntu1 [411 kB] Get:101 http://ftpmaster.internal/ubuntu cosmic/main armhf gpgconf armhf 2.2.8-1ubuntu1 [105 kB] Get:102 http://ftpmaster.internal/ubuntu cosmic/main armhf gpg-agent armhf 2.2.8-1ubuntu1 [189 kB] Get:103 http://ftpmaster.internal/ubuntu cosmic/main armhf libcomerr2 armhf 1.44.3-1 [2704 B] Get:104 http://ftpmaster.internal/ubuntu cosmic/main armhf libusb-0.1-4 armhf 2:0.1.12-32 [15.6 kB] Get:105 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf linux-libc-dev armhf 4.17.0-5.6 [985 kB] Get:106 http://ftpmaster.internal/ubuntu cosmic/main armhf pkgbinarymangler all 140 [53.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 48.1 MB in 2s (27.6 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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RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-15133204 armhf cosmic-proposed -c chroot:build-PACKAGEBUILD-15133204 --arch=armhf --dist=cosmic-proposed --nolog eigensoft_7.2.1+dfsg-1.dsc Initiating build PACKAGEBUILD-15133204 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-arm64-020.buildd +==============================================================================+ | eigensoft 7.2.1+dfsg-1 (armhf) 16 Jul 2018 23:17 | +==============================================================================+ Package: eigensoft Version: 7.2.1+dfsg-1 Source Version: 7.2.1+dfsg-1 Distribution: cosmic-proposed Machine Architecture: arm64 Host Architecture: armhf Build Architecture: armhf I: NOTICE: Log filtering will replace 'build/eigensoft-rnl6Oo/eigensoft-7.2.1+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/eigensoft-rnl6Oo' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-15133204/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- eigensoft_7.2.1+dfsg-1.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-1yYu6F/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-1yYu6F/apt_archive ./ InRelease Get:2 copy:/<>/resolver-1yYu6F/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-1yYu6F/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-1yYu6F/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-1yYu6F/apt_archive ./ Packages [525 B] Fetched 2858 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: libargon2-0 libncursesw5 libprocps6 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-1yYu6F/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 ... 12442 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~), gfortran, libblas-dev, liblapack-dev, liblapacke-dev, libgsl-dev Filtered Build-Depends: debhelper (>= 11~), gfortran, libblas-dev, liblapack-dev, liblapacke-dev, libgsl-dev dpkg-deb: building package 'sbuild-build-depends-eigensoft-dummy' in '/<>/resolver-AOqYbm/apt_archive/sbuild-build-depends-eigensoft-dummy.deb'. Ign:1 copy:/<>/resolver-AOqYbm/apt_archive ./ InRelease Get:2 copy:/<>/resolver-AOqYbm/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-AOqYbm/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-AOqYbm/apt_archive ./ Sources [243 B] Get:5 copy:/<>/resolver-AOqYbm/apt_archive ./ Packages [563 B] Fetched 2925 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install eigensoft 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: libargon2-0 libncursesw5 libprocps6 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base gfortran gfortran-7 groff-base intltool-debian libarchive-zip-perl libblas-dev libblas3 libbsd0 libcroco3 libelf1 libfile-stripnondeterminism-perl libgfortran-7-dev libgfortran4 libglib2.0-0 libgsl-dev libgsl23 libgslcblas0 libicu60 liblapack-dev liblapack3 liblapacke liblapacke-dev libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libtimedate-perl libtmglib-dev libtmglib3 libtool libxml2 m4 man-db po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev gfortran-multilib gfortran-doc gfortran-7-multilib gfortran-7-doc libgfortran4-dbg libcoarrays-dev groff liblapack-doc gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libtool-doc 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 dwz file gettext gettext-base gfortran gfortran-7 groff-base intltool-debian libarchive-zip-perl libblas-dev libblas3 libbsd0 libcroco3 libelf1 libfile-stripnondeterminism-perl libgfortran-7-dev libgfortran4 libglib2.0-0 libgsl-dev libgsl23 libgslcblas0 libicu60 liblapack-dev liblapack3 liblapacke liblapacke-dev libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libtimedate-perl libtmglib-dev libtmglib3 libtool libxml2 m4 man-db po-debconf sbuild-build-depends-eigensoft-dummy 0 upgraded, 47 newly installed, 0 to remove and 0 not upgraded. Need to get 27.9 MB of archives. After this operation, 98.8 MB of additional disk space will be used. Get:1 copy:/<>/resolver-AOqYbm/apt_archive ./ sbuild-build-depends-eigensoft-dummy 0.invalid.0 [884 B] Get:2 http://ftpmaster.internal/ubuntu cosmic/main armhf libbsd0 armhf 0.9.1-1 [43.1 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic/main armhf bsdmainutils armhf 11.1.2ubuntu2 [176 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic/main armhf groff-base armhf 1.22.3-10 [1013 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main armhf libpipeline1 armhf 1.5.0-1 [21.1 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main armhf man-db armhf 2.8.3-2 [993 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/main armhf libmagic-mgc armhf 1:5.33-3 [192 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/main armhf libmagic1 armhf 1:5.33-3 [63.7 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic/main armhf file armhf 1:5.33-3 [22.1 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic/main armhf libelf1 armhf 0.170-0.5 [42.2 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic/main armhf libglib2.0-0 armhf 2.56.1-2ubuntu1 [1014 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic/main armhf libicu60 armhf 60.2-6ubuntu1 [7801 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libxml2 armhf 2.9.4+dfsg1-7build1 [568 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic/main armhf gettext-base armhf 0.19.8.1-6build1 [46.2 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic/main armhf libsigsegv2 armhf 2.12-2 [13.1 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic/main armhf m4 armhf 1.4.18-1 [181 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic/main armhf autoconf all 2.69-11 [322 kB] Get:18 http://ftpmaster.internal/ubuntu cosmic/main armhf autotools-dev all 20180224.1 [39.6 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic/main armhf automake all 1:1.15.1-3ubuntu2 [509 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic/main armhf autopoint all 0.19.8.1-6build1 [412 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main armhf libtool all 2.4.6-2.1 [195 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main armhf dh-autoreconf all 19 [16.1 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/main armhf libarchive-zip-perl all 1.60-1ubuntu1 [84.6 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main armhf libfile-stripnondeterminism-perl all 0.042-1 [15.2 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main armhf libtimedate-perl all 2.3000-2 [37.5 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic/main armhf dh-strip-nondeterminism all 0.042-1 [5188 B] Get:27 http://ftpmaster.internal/ubuntu cosmic/main armhf dwz armhf 0.12-2 [72.0 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic/main armhf libcroco3 armhf 0.6.12-2 [69.4 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic/main armhf gettext armhf 0.19.8.1-6build1 [834 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic/main armhf intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic/main armhf po-debconf all 1.0.20 [232 kB] Get:32 http://ftpmaster.internal/ubuntu cosmic/main armhf debhelper all 11.3.2ubuntu1 [883 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgfortran4 armhf 7.3.0-25ubuntu1 [201 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf libgfortran-7-dev armhf 7.3.0-25ubuntu1 [249 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic-proposed/main armhf gfortran-7 armhf 7.3.0-25ubuntu1 [5634 kB] Get:36 http://ftpmaster.internal/ubuntu cosmic/main armhf gfortran armhf 4:7.3.0-3ubuntu3 [1352 B] Get:37 http://ftpmaster.internal/ubuntu cosmic/main armhf libblas3 armhf 3.8.0-1 [97.7 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic/main armhf libblas-dev armhf 3.8.0-1 [104 kB] Get:39 http://ftpmaster.internal/ubuntu cosmic/universe armhf libgslcblas0 armhf 2.5+dfsg-4 [62.6 kB] Get:40 http://ftpmaster.internal/ubuntu cosmic/universe armhf libgsl23 armhf 2.5+dfsg-4 [688 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic/universe armhf libgsl-dev armhf 2.5+dfsg-4 [897 kB] Get:42 http://ftpmaster.internal/ubuntu cosmic/main armhf liblapack3 armhf 3.8.0-1 [1640 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic/main armhf liblapack-dev armhf 3.8.0-1 [1690 kB] Get:44 http://ftpmaster.internal/ubuntu cosmic/main armhf liblapacke armhf 3.8.0-1 [288 kB] Get:45 http://ftpmaster.internal/ubuntu cosmic/main armhf libtmglib3 armhf 3.8.0-1 [86.4 kB] Get:46 http://ftpmaster.internal/ubuntu cosmic/main armhf libtmglib-dev armhf 3.8.0-1 [88.7 kB] Get:47 http://ftpmaster.internal/ubuntu cosmic/main armhf liblapacke-dev armhf 3.8.0-1 [275 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 27.9 MB in 1s (23.6 MB/s) Selecting previously unselected package libbsd0:armhf. (Reading database ... 12442 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-1_armhf.deb ... Unpacking libbsd0:armhf (0.9.1-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2ubuntu2_armhf.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.3-10_armhf.deb ... Unpacking groff-base (1.22.3-10) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../03-libpipeline1_1.5.0-1_armhf.deb ... Unpacking libpipeline1:armhf (1.5.0-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.8.3-2_armhf.deb ... Unpacking man-db (2.8.3-2) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../05-libmagic-mgc_1%3a5.33-3_armhf.deb ... Unpacking libmagic-mgc (1:5.33-3) ... Selecting previously unselected package libmagic1:armhf. Preparing to unpack .../06-libmagic1_1%3a5.33-3_armhf.deb ... Unpacking libmagic1:armhf (1:5.33-3) ... Selecting previously unselected package file. Preparing to unpack .../07-file_1%3a5.33-3_armhf.deb ... Unpacking file (1:5.33-3) ... Selecting previously unselected package libelf1:armhf. Preparing to unpack .../08-libelf1_0.170-0.5_armhf.deb ... Unpacking libelf1:armhf (0.170-0.5) ... Selecting previously unselected package libglib2.0-0:armhf. Preparing to unpack .../09-libglib2.0-0_2.56.1-2ubuntu1_armhf.deb ... Unpacking libglib2.0-0:armhf (2.56.1-2ubuntu1) ... Selecting previously unselected package libicu60:armhf. Preparing to unpack .../10-libicu60_60.2-6ubuntu1_armhf.deb ... Unpacking libicu60:armhf (60.2-6ubuntu1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../11-libxml2_2.9.4+dfsg1-7build1_armhf.deb ... Unpacking libxml2:armhf (2.9.4+dfsg1-7build1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../12-gettext-base_0.19.8.1-6build1_armhf.deb ... Unpacking gettext-base (0.19.8.1-6build1) ... Selecting previously unselected package libsigsegv2:armhf. Preparing to unpack .../13-libsigsegv2_2.12-2_armhf.deb ... Unpacking libsigsegv2:armhf (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../14-m4_1.4.18-1_armhf.deb ... Unpacking m4 (1.4.18-1) ... Selecting previously unselected package autoconf. Preparing to unpack .../15-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../16-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../17-automake_1%3a1.15.1-3ubuntu2_all.deb ... Unpacking automake (1:1.15.1-3ubuntu2) ... Selecting previously unselected package autopoint. Preparing to unpack .../18-autopoint_0.19.8.1-6build1_all.deb ... 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Setting up libtimedate-perl (2.3000-2) ... Setting up libsigsegv2:armhf (2.12-2) ... 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 gettext-base (0.19.8.1-6build1) ... 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 libxml2:armhf (2.9.4+dfsg1-7build1) ... Setting up libmagic-mgc (1:5.33-3) ... Setting up libmagic1:armhf (1:5.33-3) ... Setting up libcroco3:armhf (0.6.12-2) ... Setting up libblas3:armhf (3.8.0-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode Processing triggers for libc-bin (2.27-3ubuntu1) ... Setting up dwz (0.12-2) ... Setting up autotools-dev (20180224.1) ... Setting up libgfortran-7-dev:armhf (7.3.0-25ubuntu1) ... Setting up gfortran-7 (7.3.0-25ubuntu1) ... 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:armhf (2.5+dfsg-4) ... Setting up autopoint (0.19.8.1-6build1) ... Setting up libfile-stripnondeterminism-perl (0.042-1) ... Setting up gfortran (4:7.3.0-3ubuntu3) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libgsl23:armhf (2.5+dfsg-4) ... Setting up gettext (0.19.8.1-6build1) ... Setting up libblas-dev:armhf (3.8.0-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode Setting up libgsl-dev (2.5+dfsg-4) ... Setting up liblapack3:armhf (3.8.0-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up autoconf (2.69-11) ... 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 liblapacke:armhf (3.8.0-1) ... Setting up man-db (2.8.3-2) ... Not building database; man-db/auto-update is not 'true'. Setting up liblapack-dev:armhf (3.8.0-1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode Setting up libtool (2.4.6-2.1) ... Setting up libtmglib3:armhf (3.8.0-1) ... Setting up po-debconf (1.0.20) ... Setting up libtmglib-dev:armhf (3.8.0-1) ... Setting up liblapacke-dev:armhf (3.8.0-1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (0.042-1) ... Setting up debhelper (11.3.2ubuntu1) ... Setting up sbuild-build-depends-eigensoft-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.27-3ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-130-generic arm64 (armv7l) Toolchain package versions: binutils_2.31-1ubuntu1 dpkg-dev_1.19.0.5ubuntu3 g++-7_7.3.0-25ubuntu1 gcc-7_7.3.0-25ubuntu1 libc6-dev_2.27-3ubuntu1 libstdc++-7-dev_7.3.0-25ubuntu1 libstdc++6_8.1.0-10ubuntu1 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_2.31-1ubuntu1 binutils-arm-linux-gnueabihf_2.31-1ubuntu1 binutils-common_2.31-1ubuntu1 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_4:7.3.0-3ubuntu3 cpp-7_7.3.0-25ubuntu1 dash_0.5.8-2.10 debconf_1.5.67 debhelper_11.3.2ubuntu1 debianutils_4.8.6 dh-autoreconf_19 dh-strip-nondeterminism_0.042-1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu3 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 g++_4:7.3.0-3ubuntu3 g++-7_7.3.0-25ubuntu1 gcc_4:7.3.0-3ubuntu3 gcc-7_7.3.0-25ubuntu1 gcc-7-base_7.3.0-25ubuntu1 gcc-8-base_8.1.0-10ubuntu1 gettext_0.19.8.1-6build1 gettext-base_0.19.8.1-6build1 gfortran_4:7.3.0-3ubuntu3 gfortran-7_7.3.0-25ubuntu1 gpg_2.2.8-1ubuntu1 gpg-agent_2.2.8-1ubuntu1 gpgconf_2.2.8-1ubuntu1 gpgv_2.2.8-1ubuntu1 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_2.12-4ubuntu6 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 libasan4_7.3.0-25ubuntu1 libassuan0_2.5.1-2 libatomic1_8.1.0-10ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.3-1ubuntu2 libaudit1_1:2.8.3-1ubuntu2 libbinutils_2.31-1ubuntu1 libblas-dev_3.8.0-1 libblas3_3.8.0-1 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 libcap-ng0_0.7.9-1 libcap2_1:2.25-1.2 libcc1-0_8.1.0-10ubuntu1 libcilkrts5_7.3.0-25ubuntu1 libcom-err2_1.44.3-1 libcomerr2_1.44.3-1 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.3-6ubuntu1 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 libelf1_0.170-0.5 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 libgcc-7-dev_7.3.0-25ubuntu1 libgcc1_1:8.1.0-10ubuntu1 libgcrypt20_1.8.3-1ubuntu1 libgdbm-compat4_1.14.1-6 libgdbm5_1.14.1-6 libgfortran-7-dev_7.3.0-25ubuntu1 libgfortran4_7.3.0-25ubuntu1 libglib2.0-0_2.56.1-2ubuntu1 libgmp10_2:6.1.2+dfsg-3 libgnutls30_3.5.18-1ubuntu1 libgomp1_8.1.0-10ubuntu1 libgpg-error0_1.32-1 libgsl-dev_2.5+dfsg-4 libgsl23_2.5+dfsg-4 libgslcblas0_2.5+dfsg-4 libhogweed4_3.4-1 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 libjson-c3_0.12.1-1.3 libkmod2_25-1ubuntu1 liblapack-dev_3.8.0-1 liblapack3_3.8.0-1 liblapacke_3.8.0-1 liblapacke-dev_3.8.0-1 liblockfile-bin_1.14-1.1 liblockfile1_1.14-1.1 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_1.5-4 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 libpcre3_2:8.39-9 libperl5.26_5.26.2-6 libpipeline1_1.5.0-1 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 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_7.3.0-25ubuntu1 libstdc++6_8.1.0-10ubuntu1 libsystemd0_238-5ubuntu2 libtasn1-6_4.13-3 libtimedate-perl_2.3000-2 libtinfo5_6.1+20180210-4ubuntu1 libtinfo6_6.1+20180210-4ubuntu1 libtmglib-dev_3.8.0-1 libtmglib3_3.8.0-1 libtool_2.4.6-2.1 libubsan0_7.3.0-25ubuntu1 libudev1_238-5ubuntu2 libunistring2_0.9.9-0ubuntu1 libusb-0.1-4_2:0.1.12-32 libuuid1_2.32-0.1ubuntu1 libxml2_2.9.4+dfsg1-7build1 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_140 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-core-dummy_0.invalid.0 sbuild-build-depends-eigensoft-dummy_0.invalid.0 sed_4.5-1 sensible-utils_0.0.12 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 util-linux_2.32-0.1ubuntu1 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Mon Jul 16 14:17:17 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 ./eigensoft_7.2.1+dfsg-1.dsc dpkg-source: info: extracting eigensoft in eigensoft-7.2.1+dfsg dpkg-source: info: unpacking eigensoft_7.2.1+dfsg.orig.tar.xz dpkg-source: info: unpacking eigensoft_7.2.1+dfsg-1.debian.tar.xz dpkg-source: info: applying blas.patch dpkg-source: info: applying lapacke.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-15133204 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15133204 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15133204 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package eigensoft dpkg-buildpackage: info: source version 7.2.1+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build eigensoft-7.2.1+dfsg dpkg-buildpackage: info: host architecture armhf fakeroot debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/<>/eigensoft-7.2.1+dfsg' dh_clean /usr/bin/make -C src clobber make[2]: Entering directory '/<>/eigensoft-7.2.1+dfsg/src' rm -f *.o */*.o */*.a nicksrc/*.o eigensrc/*.o ksrc/*.o rm -f baseprog convertf mergeit pca smshrink eigensrc/pcatoy eigensrc/smartrel eigensrc/smarteigenstrat eigensrc/twstats eigensrc/eigenstrat eigensrc/eigenstratQTL eigensrc/smartpca cd ../bin/ ; rm -f baseprog convertf mergeit pca smshrink pcatoy smartrel smarteigenstrat twstats eigenstrat eigenstratQTL smartpca ; cd ../src make[2]: Leaving directory '/<>/eigensoft-7.2.1+dfsg/src' make[1]: Leaving directory '/<>/eigensoft-7.2.1+dfsg' debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_build make[1]: Entering directory '/<>/eigensoft-7.2.1+dfsg' /usr/bin/make DEBUG_OPTIONS=-g -C src all make[2]: Entering directory '/<>/eigensoft-7.2.1+dfsg/src' cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o baseprog.o baseprog.c cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mcio.o mcio.c mcio.c: In function ‘getgenos’: mcio.c:1368:5: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result [-Wunused-result] system (cmd); ^~~~~~~~~~~~ In file included from ../include/statsubs.h:6:0, from ../include/nicklib.h:4, from ../include/admutils.h:2, from ../include/mcio.h:11, from mcio.c:3: mcio.c: In function ‘getindivs’: ../include/strsubs.h:83:54: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] #define ZALLOC(item,n,type) if ((item = (type *)calloc((n),sizeof(type))) == NULL) \ ^~~~~~~~~~~~~~~~~~~~~~~~ mcio.c:952:3: note: in expansion of macro ‘ZALLOC’ ZALLOC (indivmarkers, nindiv, Indiv *); ^~~~~~ In file included from ../include/strsubs.h:1:0, from ../include/vsubs.h:5, from ../include/mcio.h:10, from mcio.c:3: /usr/include/stdlib.h:541:14: note: in a call to allocation function ‘calloc’ declared here extern void *calloc (size_t __nmemb, size_t __size) ^~~~~~ cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o egsubs.o egsubs.c cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o admutils.o admutils.c admutils.c: In function ‘setid2pops’: admutils.c:1256:31: warning: format ‘%s’ expects a matching ‘char *’ argument [-Wformat=] printf ("(setid2pops): %s not found\n"); ~^ cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o h2d.o h2d.c cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/exclude.o eigensrc/exclude.c /usr/bin/make -C nicksrc make[3]: Entering directory '/<>/eigensoft-7.2.1+dfsg/src/nicksrc' cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gauss.o gauss.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gds.o gds.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o getpars.o getpars.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o linsubs.o linsubs.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o sortit.o sortit.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o statsubs.o statsubs.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o strsubs.o strsubs.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vsubs.o vsubs.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o xsearch.o xsearch.c cc -I../../include -D_GNU_SOURCE -Wdate-time -D_FORTIFY_SOURCE=2 -c -o twtable.o twtable.c ar -r libnick.a gauss.o gds.o getpars.o linsubs.o sortit.o statsubs.o strsubs.o vsubs.o xsearch.o twtable.o ar: creating libnick.a make[3]: Leaving directory '/<>/eigensoft-7.2.1+dfsg/src/nicksrc' cc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now baseprog.o mcio.o egsubs.o admutils.o h2d.o eigensrc/exclude.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o baseprog cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o convertf.o convertf.c convertf.c: In function ‘main’: convertf.c:257:5: warning: implicit declaration of function ‘setfamilypopnames’; did you mean ‘setgenotypename’? [-Wimplicit-function-declaration] setfamilypopnames (YES); ^~~~~~~~~~~~~~~~~ setgenotypename cc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now convertf.o mcio.o egsubs.o admutils.o h2d.o eigensrc/exclude.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o convertf cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mergeit.o mergeit.c cc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now mergeit.o mcio.o admutils.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o mergeit cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o pca.o pca.c pca.c: In function ‘main’: pca.c:102:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fp, "%c", &Xchar); ^~~~~~~~~~~~~~~~~~~~~~~~~ pca.c:167:9: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fp, "%c", &Xchar); ^~~~~~~~~~~~~~~~~~~~~~~~~ pca.c:190:7: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fp, "%c", &Xchar); /* should be \n character */ ^~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/eigsubs.o eigensrc/eigsubs.c cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/eigx.o eigensrc/eigx.c cc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now pca.o eigensrc/eigsubs.o eigensrc/eigx.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o pca cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o smshrink.o smshrink.c smshrink.c: In function ‘main’: smshrink.c:624:5: warning: implicit declaration of function ‘setid2pops’; did you mean ‘setsdpos’? [-Wimplicit-function-declaration] setid2pops (id2pops, indivmarkers, numindivs); ^~~~~~~~~~ setsdpos smshrink.c:774:5: warning: implicit declaration of function ‘kjg_fpca’ [-Wimplicit-function-declaration] kjg_fpca (numeigs, fastdim, fastiter, evals, evecs); ^~~~~~~~ smshrink.c:578:5: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result [-Wunused-result] system (buff); ^~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartsubs.o eigensrc/smartsubs.c cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o twsubs.o twsubs.c cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o qpsubs.o qpsubs.c cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o regsubs.o regsubs.c cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gval.o gval.c gval.c: In function ‘setgval’: gval.c:67:5: warning: implicit declaration of function ‘getcolxz’; did you mean ‘get_ncols’? [-Wimplicit-function-declaration] getcolxz (cc, cupt, xindex, xtypes, nrows, i, xmean, xfancy, &n0, &n1); ^~~~~~~~ get_ncols cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ksrc/kjg_fpca.o ksrc/kjg_fpca.c ksrc/kjg_fpca.c: In function ‘kjg_fpca’: ksrc/kjg_fpca.c:31:14: warning: implicit declaration of function ‘get_ncols’; did you mean ‘gethpos’? [-Wimplicit-function-declaration] size_t m = get_ncols (); ^~~~~~~~~ gethpos ksrc/kjg_fpca.c:32:14: warning: implicit declaration of function ‘get_nrows’; did you mean ‘gethpos’? [-Wimplicit-function-declaration] size_t n = get_nrows (); ^~~~~~~~~ gethpos ksrc/kjg_fpca.c: In function ‘kjg_fpca_XTXA’: ksrc/kjg_fpca.c:118:11: warning: implicit declaration of function ‘kjg_geno_get_normalized_rows’ [-Wimplicit-function-declaration] r = kjg_geno_get_normalized_rows (i, KJG_FPCA_ROWS, Y); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ksrc/kjg_gsl.o ksrc/kjg_gsl.c ksrc/kjg_gsl.c: In function ‘kjg_gsl_matrix_fscanf’: ksrc/kjg_gsl.c:38:4: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (stream, "%lg", &x); ^~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now smshrink.o eigensrc/eigsubs.o eigensrc/exclude.o eigensrc/smartsubs.o eigensrc/eigx.o twsubs.o mcio.o qpsubs.o admutils.o egsubs.o regsubs.o gval.o nicksrc/libnick.a ksrc/kjg_fpca.o ksrc/kjg_gsl.o -lgsl -lblas -lm -llapacke -llapack -lpthread -o smshrink cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/pcatoy.o eigensrc/pcatoy.c cc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now eigensrc/pcatoy.o eigensrc/eigsubs.o eigensrc/eigx.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/pcatoy cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartrel.o eigensrc/smartrel.c cc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now eigensrc/smartrel.o twsubs.o mcio.o qpsubs.o admutils.o egsubs.o regsubs.o eigensrc/eigsubs.o eigensrc/eigx.o eigensrc/smartsubs.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/smartrel cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smarteigenstrat.o eigensrc/smarteigenstrat.c eigensrc/smarteigenstrat.c: In function ‘readpcafile’: eigensrc/smarteigenstrat.c:332:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%d", &K); ^~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/smarteigenstrat.c:339:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/smarteigenstrat.c:342:7: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%lf", &V[NSAMPLES * n + k]); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/smarteigenstrat.c:360:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%lf", &tempdouble); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now eigensrc/smarteigenstrat.o mcio.o admutils.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/smarteigenstrat cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/twstats.o eigensrc/twstats.c cc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now eigensrc/twstats.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/twstats cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now eigensrc/eigenstrat.c -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/eigenstrat eigensrc/eigenstrat.c: In function ‘main’: eigensrc/eigenstrat.c:86:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fp, "%c", &Xchar); ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:123:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%d", &K); ^~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:130:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:133:7: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%lf", &V[NSAMPLES * n + k]); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:151:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%lf", &tempdouble); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:165:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppheno, "%c", &Xchar); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:188:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppheno, "%c", &Xchar); /* should be end of file */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:244:7: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fp, "%c", &Xchar); ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:267:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fp, "%c", &Xchar); /* should be \n character */ ^~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now eigensrc/eigenstratQTL.c -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/eigenstratQTL eigensrc/eigenstratQTL.c: In function ‘main’: eigensrc/eigenstratQTL.c:86:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fp, "%c", &Xchar); ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:123:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%d", &K); ^~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:130:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:133:7: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%lf", &V[NSAMPLES * n + k]); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:151:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppca, "%lf", &tempdouble); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:172:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppheno, "%lf", &iscase[n]); /* QTL phenotype */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:174:3: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fppheno, "%lf", &tempdouble); /* to check # entries */ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:227:7: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fp, "%c", &Xchar); ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:250:5: warning: ignoring return value of ‘fscanf’, declared with attribute warn_unused_result [-Wunused-result] fscanf (fp, "%c", &Xchar); /* should be \n character */ ^~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -fdebug-prefix-map=/<>/eigensoft-7.2.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -I../include -I/usr/include/openblas -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartpca.o eigensrc/smartpca.c eigensrc/smartpca.c: In function ‘main’: eigensrc/smartpca.c:644:5: warning: implicit declaration of function ‘setid2pops’; did you mean ‘setsdpos’? [-Wimplicit-function-declaration] setid2pops (id2pops, indivmarkers, numindivs); ^~~~~~~~~~ setsdpos eigensrc/smartpca.c:809:5: warning: implicit declaration of function ‘kjg_fpca’ [-Wimplicit-function-declaration] kjg_fpca (numeigs, fastdim, fastiter, evals, evecs); ^~~~~~~~ eigensrc/smartpca.c:597:5: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result [-Wunused-result] system (buff); ^~~~~~~~~~~~~ cc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now eigensrc/smartpca.o eigensrc/eigsubs.o eigensrc/exclude.o eigensrc/smartsubs.o eigensrc/eigx.o mcio.o qpsubs.o admutils.o egsubs.o regsubs.o gval.o nicksrc/libnick.a ksrc/kjg_fpca.o ksrc/kjg_gsl.o -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/smartpca make[2]: Leaving directory '/<>/eigensoft-7.2.1+dfsg/src' cd src && make install make[2]: Entering directory '/<>/eigensoft-7.2.1+dfsg/src' mv baseprog convertf mergeit pca smshrink eigensrc/pcatoy eigensrc/smartrel eigensrc/smarteigenstrat eigensrc/twstats eigensrc/eigenstrat eigensrc/eigenstratQTL eigensrc/smartpca ../bin make[2]: Leaving directory '/<>/eigensoft-7.2.1+dfsg/src' make[1]: Leaving directory '/<>/eigensoft-7.2.1+dfsg' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a debian/rules override_dh_install make[1]: Entering directory '/<>/eigensoft-7.2.1+dfsg' dh_install find debian/eigensoft/usr/share/ -type f -empty -delete # file consists only from single line with wrong interpreter find debian/eigensoft/usr/share/ -type f -name HGDP.X.perl -delete # Fix wrappers and drop *.perl extension in /usr/bin while keeping # the original name in /usr/lib/debian-med/bin mkdir -p debian/eigensoft/usr/lib/debian-med/bin for pl in evec2pca-ped evec2pca smarteigenstrat smartpca ; do \ rm debian/eigensoft/usr/bin/${pl} ; \ sed -i \ -e "s?\(command[[:space:]]*=[[:space:]]*\"\)\(${pl}\)?\1/usr/lib/eigensoft/\2?" \ -e "s?\(cmd[[:space:]]*=[[:space:]]*\"\)\(${pl}\)?\1/usr/lib/eigensoft/\2?" \ -e "s?\(cmd[[:space:]]*=[[:space:]]*\"\)\(evec2pca.*\)\.perl?\1?" \ -e "s?\(${pl}\)\.perl?\1?" \ debian/eigensoft/usr/bin/${pl}.perl ; \ cp -a debian/eigensoft/usr/bin/${pl}.perl debian/eigensoft/usr/bin/${pl} ; \ mv debian/eigensoft/usr/bin/${pl}.perl debian/eigensoft/usr/lib/debian-med/bin ; \ done rm: cannot remove 'debian/eigensoft/usr/bin/evec2pca-ped': No such file or directory rm: cannot remove 'debian/eigensoft/usr/bin/evec2pca': No such file or directory rm debian/eigensoft/usr/bin/gc.perl make[1]: Leaving directory '/<>/eigensoft-7.2.1+dfsg' dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a debian/rules override_dh_fixperms make[1]: Entering directory '/<>/eigensoft-7.2.1+dfsg' dh_fixperms find debian/*/usr/share/eigensoft -type f -name "*.perl" -exec chmod +x \{\} \; make[1]: Leaving directory '/<>/eigensoft-7.2.1+dfsg' dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/eigensoft/usr/bin/smshrink debian/eigensoft/usr/lib/eigensoft/smartpca were not linked against libblas.so.3 (they use none of the library's symbols) dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 140 INFO: pkgstriptranslations version 140 pkgstriptranslations: processing eigensoft (in debian/eigensoft); do_strip: , oemstrip: pkgstriptranslations: processing eigensoft-dbgsym (in debian/.debhelper/eigensoft/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/eigensoft/DEBIAN/control, package eigensoft, directory debian/eigensoft pkgstripfiles: processing control file: debian/.debhelper/eigensoft/dbgsym-root/DEBIAN/control, package eigensoft-dbgsym, directory debian/.debhelper/eigensoft/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package eigensoft-dbgsym ... pkgstripfiles: No PNG files. dpkg-deb: building package 'eigensoft-dbgsym' in 'debian/.debhelper/scratch-space/build-eigensoft/eigensoft-dbgsym_7.2.1+dfsg-1_armhf.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package eigensoft ... pkgstripfiles: No PNG files. dpkg-deb: building package 'eigensoft' in '../eigensoft_7.2.1+dfsg-1_armhf.deb'. Renaming eigensoft-dbgsym_7.2.1+dfsg-1_armhf.deb to eigensoft-dbgsym_7.2.1+dfsg-1_armhf.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../eigensoft_7.2.1+dfsg-1_armhf.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build eigensoft-7.2.1+dfsg dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20180716-2319 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ eigensoft_7.2.1+dfsg-1_armhf.changes: ------------------------------------- Format: 1.8 Date: Mon, 16 Jul 2018 16:10:33 +0200 Source: eigensoft Binary: eigensoft Architecture: armhf Version: 7.2.1+dfsg-1 Distribution: cosmic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: eigensoft - reduction of population bias for genetic analyses Changes: eigensoft (7.2.1+dfsg-1) unstable; urgency=medium . [ Steffen Moeller ] * debian/upstream/metadata; Added references to registries and paper . [ Andreas Tille ] * New upstream version * d/watch: Source is now on Github * d/rules: Do not parse d/changelog * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.1.5 Checksums-Sha1: 43f193f547df0ebb7175e2075966745ef753c890 1082276 eigensoft-dbgsym_7.2.1+dfsg-1_armhf.ddeb e2955760b872747baa77e2d49b3cae776bb10c50 5314 eigensoft_7.2.1+dfsg-1_armhf.buildinfo d1b1730fe067d3725a5d753f831c84e554c0369d 314808 eigensoft_7.2.1+dfsg-1_armhf.deb Checksums-Sha256: 18c7e8ece2f5ee20ebbc6a63cd24d27b804e794d6e6af85a97e60aab8f656924 1082276 eigensoft-dbgsym_7.2.1+dfsg-1_armhf.ddeb 7f7d405ad178989f259cb993f535bcb719262586a857e19aa8314e3c9539d0ca 5314 eigensoft_7.2.1+dfsg-1_armhf.buildinfo 5734dc1f34a85c11cbb028aec636344ee3acdffc4637cfa347dfd6b315a52f66 314808 eigensoft_7.2.1+dfsg-1_armhf.deb Files: d55dedf18d44384130fa6501322c8087 1082276 debug optional eigensoft-dbgsym_7.2.1+dfsg-1_armhf.ddeb 9da2722c2d0bbcf25af22f7b826823a3 5314 science optional eigensoft_7.2.1+dfsg-1_armhf.buildinfo fc5d2de48a03db149192475c388ec5e1 314808 science optional eigensoft_7.2.1+dfsg-1_armhf.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ eigensoft_7.2.1+dfsg-1_armhf.deb -------------------------------- new debian package, version 2.0. size 314808 bytes: control archive=3456 bytes. 1217 bytes, 21 lines control 13164 bytes, 161 lines md5sums Package: eigensoft Version: 7.2.1+dfsg-1 Architecture: armhf Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1892 Depends: libblas3 | libblas.so.3, libc6 (>= 2.23), libgsl23 (>= 2.5), liblapack3 | liblapack.so.3, liblapacke, perl:any Recommends: gnuplot Section: science Priority: optional Homepage: http://www.hsph.harvard.edu/faculty/alkes-price/software/ Description: reduction of population bias for genetic analyses The EIGENSOFT package combines functionality from the group's population genetics methods (Patterson et al. 2006) and their EIGENSTRAT stratification method (Price et al. 2006). The EIGENSTRAT method uses principal components analysis to explicitly model ancestry differences between cases and controls along continuous axes of variation; the resulting correction is specific to a candidate marker's variation in frequency across ancestral populations, minimizing spurious associations while maximizing power to detect true associations. The EIGENSOFT package has a built-in plotting script and supports multiple file formats and quantitative phenotypes. drwxr-xr-x root/root 0 2018-07-16 14:10 ./ drwxr-xr-x root/root 0 2018-07-16 14:10 ./usr/ drwxr-xr-x root/root 0 2018-07-16 14:10 ./usr/bin/ -rwxr-xr-x root/root 157424 2018-07-16 14:10 ./usr/bin/baseprog -rwxr-xr-x root/root 165760 2018-07-16 14:10 ./usr/bin/convertf -rwxr-xr-x root/root 9636 2018-07-16 14:10 ./usr/bin/eigenstrat -rwxr-xr-x root/root 9636 2018-07-16 14:10 ./usr/bin/eigenstratQTL -rwxr-xr-x root/root 1462 2018-07-16 14:10 ./usr/bin/evec2pca -rwxr-xr-x root/root 2311 2018-07-16 14:10 ./usr/bin/evec2pca-ped lrwxrwxrwx root/root 0 2018-07-16 14:10 ./usr/bin/gc-eigensoft -> ../lib/debian-med/bin/gc.perl -rwxr-xr-x root/root 157464 2018-07-16 14:10 ./usr/bin/mergeit -rwxr-xr-x root/root 62888 2018-07-16 14:10 ./usr/bin/pca -rwxr-xr-x root/root 58792 2018-07-16 14:10 ./usr/bin/pcatoy -rwxr-xr-x root/root 2112 2018-07-16 14:10 ./usr/bin/smarteigenstrat -rwxr-xr-x root/root 4738 2018-07-16 14:10 ./usr/bin/smartpca -rwxr-xr-x root/root 210864 2018-07-16 14:10 ./usr/bin/smartrel -rwxr-xr-x root/root 243676 2018-07-16 14:10 ./usr/bin/smshrink -rwxr-xr-x root/root 108020 2018-07-16 14:10 ./usr/bin/twstats drwxr-xr-x root/root 0 2018-07-16 14:10 ./usr/lib/ drwxr-xr-x root/root 0 2018-07-16 14:10 ./usr/lib/debian-med/ drwxr-xr-x root/root 0 2018-07-16 14:10 ./usr/lib/debian-med/bin/ -rwxr-xr-x root/root 2311 2018-07-16 14:10 ./usr/lib/debian-med/bin/evec2pca-ped.perl -rwxr-xr-x root/root 1462 2018-07-16 14:10 ./usr/lib/debian-med/bin/evec2pca.perl -rwxr-xr-x root/root 1887 2017-06-30 20:40 ./usr/lib/debian-med/bin/gc.perl -rwxr-xr-x root/root 2112 2018-07-16 14:10 ./usr/lib/debian-med/bin/smarteigenstrat.perl -rwxr-xr-x root/root 4738 2018-07-16 14:10 ./usr/lib/debian-med/bin/smartpca.perl drwxr-xr-x root/root 0 2018-07-16 14:10 ./usr/lib/eigensoft/ -rwxr-xr-x root/root 157432 2018-07-16 14:10 ./usr/lib/eigensoft/smarteigenstrat -rwxr-xr-x 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requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: armhf Build-Space: 13536 Build-Time: 56 Distribution: cosmic-proposed Host Architecture: armhf Install-Time: 22 Job: eigensoft_7.2.1+dfsg-1.dsc Machine Architecture: arm64 Package: eigensoft Package-Time: 80 Source-Version: 7.2.1+dfsg-1 Space: 13536 Status: successful Version: 7.2.1+dfsg-1 -------------------------------------------------------------------------------- Finished at 20180716-2319 Build needed 00:01:20, 13536k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=cosmic --arch=armhf PACKAGEBUILD-15133204 Scanning for processes to kill in build PACKAGEBUILD-15133204