https://launchpad.net/ubuntu/+archive/test-rebuild-20181220/+build/15814010 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux bos02-s390x-016 4.4.0-141-generic #167-Ubuntu SMP Wed Dec 5 10:32:22 UTC 2018 s390x Buildd toolchain package versions: launchpad-buildd_165 python-lpbuildd_165 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_1:2.7.4-0ubuntu1.6 dpkg-dev_1.18.4ubuntu1.5 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 8 Jan 17:31:14 ntpdate[1751]: adjust time server 10.211.37.1 offset 0.263269 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15814010 /home/buildd/filecache-default/5f92d5ecab7ce0d953bb2def2bd7e5fe5fb7c904 Creating target for build PACKAGEBUILD-15814010 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15814010 Starting target for build PACKAGEBUILD-15814010 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15814010 'deb http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco main' 'deb http://ftpmaster.internal/ubuntu disco main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu disco-security main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu disco-updates main restricted universe multiverse' Overriding sources.list in build-PACKAGEBUILD-15814010 RUN: /usr/share/launchpad-buildd/slavebin/in-target add-trusted-keys --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15814010 Adding trusted keys to build-PACKAGEBUILD-15814010 Warning: apt-key output should not be parsed (stdout is not a terminal) OK Warning: apt-key output should not be parsed (stdout is not a terminal) /etc/apt/trusted.gpg -------------------- pub rsa1024 2009-10-22 [SC] 60C3 1780 3A41 BA51 845E 371A 1E93 77A2 BA9E F27F uid [ unknown] Launchpad Toolchain builds /etc/apt/trusted.gpg.d/ubuntu-keyring-2012-archive.gpg ------------------------------------------------------ pub rsa4096 2012-05-11 [SC] 790B C727 7767 219C 42C8 6F93 3B4F E6AC C0B2 1F32 uid [ unknown] Ubuntu Archive Automatic Signing Key (2012) /etc/apt/trusted.gpg.d/ubuntu-keyring-2012-cdimage.gpg ------------------------------------------------------ pub rsa4096 2012-05-11 [SC] 8439 38DF 228D 22F7 B374 2BC0 D94A A3F0 EFE2 1092 uid [ unknown] Ubuntu CD Image Automatic Signing Key (2012) /etc/apt/trusted.gpg.d/ubuntu-keyring-2018-archive.gpg ------------------------------------------------------ pub rsa4096 2018-09-17 [SC] F6EC B376 2474 EDA9 D21B 7022 8719 20D1 991B C93C uid [ unknown] Ubuntu Archive Automatic Signing Key (2018) RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15814010 Updating target for build PACKAGEBUILD-15814010 Get:1 http://ftpmaster.internal/ubuntu disco InRelease [243 kB] Get:2 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco InRelease [15.4 kB] Get:3 http://ftpmaster.internal/ubuntu disco-security InRelease [65.4 kB] Get:4 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x Packages [23.1 kB] Get:5 http://ftpmaster.internal/ubuntu disco-updates InRelease [65.4 kB] Get:6 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main Translation-en [13.3 kB] Get:7 http://ftpmaster.internal/ubuntu disco/main s390x Packages [941 kB] Get:8 http://ftpmaster.internal/ubuntu disco/main Translation-en [514 kB] Get:9 http://ftpmaster.internal/ubuntu disco/universe s390x Packages [8563 kB] Get:10 http://ftpmaster.internal/ubuntu disco/universe Translation-en [5169 kB] Get:11 http://ftpmaster.internal/ubuntu disco/multiverse s390x Packages [122 kB] Get:12 http://ftpmaster.internal/ubuntu disco/multiverse Translation-en [113 kB] Fetched 15.8 MB in 3s (4599 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: binutils binutils-common binutils-s390x-linux-gnu cpp-8 dash dpkg dpkg-dev e2fslibs e2fsprogs g++-8 gcc-8 gcc-8-base grep init init-system-helpers libasan5 libassuan0 libatomic1 libbinutils libcc1-0 libcom-err2 libcomerr2 libdpkg-perl libext2fs2 libgcc-8-dev libgcc1 libgomp1 libitm1 libsemanage-common libsemanage1 libsqlite3-0 libss2 libstdc++-8-dev libstdc++6 libubsan1 libzstd1 sed tzdata 38 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 27.5 MB of archives. After this operation, 32.8 kB of additional disk space will be used. Get:1 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libcc1-0 s390x 8.2.0-13ubuntu1 [37.1 kB] Get:2 http://ftpmaster.internal/ubuntu disco/main s390x dpkg s390x 1.19.2ubuntu2 [1080 kB] Get:3 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libgomp1 s390x 8.2.0-13ubuntu1 [69.9 kB] Get:4 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libitm1 s390x 8.2.0-13ubuntu1 [26.9 kB] Get:5 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libatomic1 s390x 8.2.0-13ubuntu1 [8424 B] Get:6 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libasan5 s390x 8.2.0-13ubuntu1 [326 kB] Get:7 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libubsan1 s390x 8.2.0-13ubuntu1 [115 kB] Get:8 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x gcc-8-base s390x 8.2.0-13ubuntu1 [18.6 kB] Get:9 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libstdc++6 s390x 8.2.0-13ubuntu1 [396 kB] Get:10 http://ftpmaster.internal/ubuntu disco/main s390x dash s390x 0.5.10.2-3ubuntu1 [83.8 kB] Get:11 http://ftpmaster.internal/ubuntu disco/main s390x grep s390x 3.3-1 [146 kB] Get:12 http://ftpmaster.internal/ubuntu disco/main s390x sed s390x 4.7-1 [187 kB] Get:13 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x g++-8 s390x 8.2.0-13ubuntu1 [6360 kB] Get:14 http://ftpmaster.internal/ubuntu disco/main s390x init-system-helpers all 1.56+nmu1 [38.2 kB] Get:15 http://ftpmaster.internal/ubuntu disco/main s390x libext2fs2 s390x 1.44.5-1 [155 kB] Get:16 http://ftpmaster.internal/ubuntu disco/main s390x e2fsprogs s390x 1.44.5-1 [490 kB] Get:17 http://ftpmaster.internal/ubuntu disco/main s390x init s390x 1.56+nmu1 [6080 B] Get:18 http://ftpmaster.internal/ubuntu disco/main s390x libsemanage-common all 2.8-2 [7016 B] Get:19 http://ftpmaster.internal/ubuntu disco/main s390x libsemanage1 s390x 2.8-2 [78.5 kB] Get:20 http://ftpmaster.internal/ubuntu disco/main s390x libzstd1 s390x 1.3.8+dfsg-3 [204 kB] Get:21 http://ftpmaster.internal/ubuntu disco/main s390x libcom-err2 s390x 1.44.5-1 [9200 B] Get:22 http://ftpmaster.internal/ubuntu disco/main s390x libss2 s390x 1.44.5-1 [10.6 kB] Get:23 http://ftpmaster.internal/ubuntu disco/main s390x libsqlite3-0 s390x 3.26.0-3 [493 kB] Get:24 http://ftpmaster.internal/ubuntu disco/main s390x tzdata all 2018i-1 [189 kB] Get:25 http://ftpmaster.internal/ubuntu disco/main s390x dpkg-dev all 1.19.2ubuntu2 [549 kB] Get:26 http://ftpmaster.internal/ubuntu disco/main s390x libdpkg-perl all 1.19.2ubuntu2 [227 kB] Get:27 http://ftpmaster.internal/ubuntu disco/main s390x e2fslibs s390x 1.44.5-1 [2704 B] Get:28 http://ftpmaster.internal/ubuntu disco/main s390x libassuan0 s390x 2.5.2-1 [32.1 kB] Get:29 http://ftpmaster.internal/ubuntu disco/main s390x libcomerr2 s390x 1.44.5-1 [2700 B] Get:30 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libstdc++-8-dev s390x 8.2.0-13ubuntu1 [1503 kB] Get:31 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libgcc-8-dev s390x 8.2.0-13ubuntu1 [654 kB] Get:32 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x gcc-8 s390x 8.2.0-13ubuntu1 [6266 kB] Get:33 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x cpp-8 s390x 8.2.0-13ubuntu1 [5504 kB] Get:34 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libgcc1 s390x 1:8.2.0-13ubuntu1 [25.1 kB] Get:35 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x libbinutils s390x 2.31.1-11ubuntu1 [304 kB] Get:36 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x binutils-common s390x 2.31.1-11ubuntu1 [194 kB] Get:37 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x binutils s390x 2.31.1-11ubuntu1 [3328 B] Get:38 http://ppa.launchpad.net/ubuntu-toolchain-r/ppa/ubuntu disco/main s390x binutils-s390x-linux-gnu s390x 2.31.1-11ubuntu1 [1679 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 27.5 MB in 1s (54.7 MB/s) (Reading database ... 12438 files and directories currently installed.) Preparing to unpack .../dpkg_1.19.2ubuntu2_s390x.deb ... Unpacking dpkg (1.19.2ubuntu2) over (1.19.2ubuntu1) ... Setting up dpkg (1.19.2ubuntu2) ... (Reading database ... 12438 files and directories currently installed.) Preparing to unpack .../dash_0.5.10.2-3ubuntu1_s390x.deb ... Unpacking dash (0.5.10.2-3ubuntu1) over (0.5.10.2-2) ... Setting up dash (0.5.10.2-3ubuntu1) ... (Reading database ... 12438 files and directories currently installed.) Preparing to unpack .../archives/grep_3.3-1_s390x.deb ... Unpacking grep (3.3-1) over (3.1-3) ... Setting up grep (3.3-1) ... (Reading database ... 12438 files and directories currently installed.) Preparing to unpack .../archives/sed_4.7-1_s390x.deb ... Unpacking sed (4.7-1) over (4.5-2) ... Setting up sed (4.7-1) ... (Reading database ... 12438 files and directories currently installed.) Preparing to unpack .../init-system-helpers_1.56+nmu1_all.deb ... Unpacking init-system-helpers (1.56+nmu1) over (1.56) ... Setting up init-system-helpers (1.56+nmu1) ... (Reading database ... 12438 files and directories currently installed.) Preparing to unpack .../libext2fs2_1.44.5-1_s390x.deb ... Unpacking libext2fs2:s390x (1.44.5-1) over (1.44.4-2ubuntu1) ... Setting up libext2fs2:s390x (1.44.5-1) ... (Reading database ... 12437 files and directories currently installed.) Preparing to unpack .../0-e2fsprogs_1.44.5-1_s390x.deb ... Unpacking e2fsprogs (1.44.5-1) over (1.44.4-2ubuntu1) ... Preparing to unpack .../1-init_1.56+nmu1_s390x.deb ... Unpacking init (1.56+nmu1) over (1.56) ... Preparing to unpack .../2-libcc1-0_8.2.0-13ubuntu1_s390x.deb ... Unpacking libcc1-0:s390x (8.2.0-13ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../3-libgomp1_8.2.0-13ubuntu1_s390x.deb ... Unpacking libgomp1:s390x (8.2.0-13ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../4-libitm1_8.2.0-13ubuntu1_s390x.deb ... Unpacking libitm1:s390x (8.2.0-13ubuntu1) over (8.2.0-12ubuntu1) ... 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Preparing to unpack .../6-e2fslibs_1.44.5-1_s390x.deb ... Unpacking e2fslibs:s390x (1.44.5-1) over (1.44.4-2ubuntu1) ... Preparing to unpack .../7-libassuan0_2.5.2-1_s390x.deb ... Unpacking libassuan0:s390x (2.5.2-1) over (2.5.1-2) ... Preparing to unpack .../8-libcomerr2_1.44.5-1_s390x.deb ... Unpacking libcomerr2:s390x (1.44.5-1) over (1.44.4-2ubuntu1) ... Setting up cpp-8 (8.2.0-13ubuntu1) ... Setting up libcom-err2:s390x (1.44.5-1) ... Setting up libgomp1:s390x (8.2.0-13ubuntu1) ... Setting up libatomic1:s390x (8.2.0-13ubuntu1) ... Setting up libss2:s390x (1.44.5-1) ... Setting up libcc1-0:s390x (8.2.0-13ubuntu1) ... Setting up e2fslibs:s390x (1.44.5-1) ... Setting up tzdata (2018i-1) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Jan 8 17:31:27 UTC 2019. Universal Time is now: Tue Jan 8 17:31:27 UTC 2019. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up init (1.56+nmu1) ... Setting up libdpkg-perl (1.19.2ubuntu2) ... Setting up e2fsprogs (1.44.5-1) ... Setting up binutils-common:s390x (2.31.1-11ubuntu1) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up libsqlite3-0:s390x (3.26.0-3) ... Setting up libcomerr2:s390x (1.44.5-1) ... Setting up libasan5:s390x (8.2.0-13ubuntu1) ... Setting up libassuan0:s390x (2.5.2-1) ... Setting up libitm1:s390x (8.2.0-13ubuntu1) ... Setting up libubsan1:s390x (8.2.0-13ubuntu1) ... Setting up libbinutils:s390x (2.31.1-11ubuntu1) ... Setting up binutils-s390x-linux-gnu (2.31.1-11ubuntu1) ... Setting up libgcc-8-dev:s390x (8.2.0-13ubuntu1) ... Setting up binutils (2.31.1-11ubuntu1) ... Setting up libstdc++-8-dev:s390x (8.2.0-13ubuntu1) ... Setting up gcc-8 (8.2.0-13ubuntu1) ... Setting up g++-8 (8.2.0-13ubuntu1) ... Setting up dpkg-dev (1.19.2ubuntu2) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-15814010 s390x disco -c chroot:build-PACKAGEBUILD-15814010 --arch=s390x --dist=disco --nolog falcon_1.8.8-1ubuntu1.dsc Initiating build PACKAGEBUILD-15814010 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-141-generic #167-Ubuntu SMP Wed Dec 5 10:32:22 UTC 2018 s390x sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos02-s390x-016.buildd +==============================================================================+ | falcon 1.8.8-1ubuntu1 (s390x) 08 Jan 2019 17:31 | +==============================================================================+ Package: falcon Version: 1.8.8-1ubuntu1 Source Version: 1.8.8-1ubuntu1 Distribution: disco Machine Architecture: s390x Host Architecture: s390x Build Architecture: s390x I: NOTICE: Log filtering will replace 'build/falcon-HG1vBl/falcon-1.8.8' with '<>' I: NOTICE: Log filtering will replace 'build/falcon-HG1vBl' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-15814010/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- falcon_1.8.8-1ubuntu1.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-bVkMtN/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-bVkMtN/apt_archive ./ InRelease Get:2 copy:/<>/resolver-bVkMtN/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-bVkMtN/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-bVkMtN/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-bVkMtN/apt_archive ./ Packages [526 B] Fetched 2859 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 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-bVkMtN/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 ... 12440 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_s390x.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 9), dh-python, rsync, python-all-dev, python-setuptools, python-networkx (>= 1.7), python-nose, python-pytest Filtered Build-Depends: debhelper (>= 9), dh-python, rsync, python-all-dev, python-setuptools, python-networkx (>= 1.7), python-nose, python-pytest dpkg-deb: building package 'sbuild-build-depends-falcon-dummy' in '/<>/resolver-0mbmgn/apt_archive/sbuild-build-depends-falcon-dummy.deb'. Ign:1 copy:/<>/resolver-0mbmgn/apt_archive ./ InRelease Get:2 copy:/<>/resolver-0mbmgn/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-0mbmgn/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-0mbmgn/apt_archive ./ Sources [258 B] Get:5 copy:/<>/resolver-0mbmgn/apt_archive ./ Packages [576 B] Fetched 2953 B in 0s (247 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install falcon 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-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libglib2.0-0 libicu63 libmagic-mgc libmagic1 libmpdec2 libpipeline1 libpopt0 libpython-all-dev libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libtool libxml2 m4 man-db mime-support po-debconf python python-all python-all-dev python-atomicwrites python-attr python-decorator python-dev python-funcsigs python-minimal python-more-itertools python-networkx python-nose python-pkg-resources python-pluggy python-py python-pytest python-setuptools python-six python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal python3 python3-distutils python3-lib2to3 python3-minimal python3.7 python3.7-minimal rsync Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python-doc python-tk python-attr-doc python-funcsigs-doc python-gdal python-matplotlib python-pygraphviz | python-pydot python-scipy python-coverage python-nose-doc subversion python-pytest-xdist python-mock python-setuptools-doc python2-doc python2.7-doc binfmt-support python3-doc python3-tk python3-venv python3.7-venv python3.7-doc openssh-client openssh-server Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libmail-sendmail-perl python-numpy python-yaml The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libglib2.0-0 libicu63 libmagic-mgc libmagic1 libmpdec2 libpipeline1 libpopt0 libpython-all-dev libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libtool libxml2 m4 man-db mime-support po-debconf python python-all python-all-dev python-atomicwrites python-attr python-decorator python-dev python-funcsigs python-minimal python-more-itertools python-networkx python-nose python-pkg-resources python-pluggy python-py python-pytest python-setuptools python-six python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal python3 python3-distutils python3-lib2to3 python3-minimal python3.7 python3.7-minimal rsync sbuild-build-depends-falcon-dummy 0 upgraded, 80 newly installed, 0 to remove and 0 not upgraded. Need to get 59.8 MB of archives. After this operation, 177 MB of additional disk space will be used. Get:1 copy:/<>/resolver-0mbmgn/apt_archive ./ sbuild-build-depends-falcon-dummy 0.invalid.0 [904 B] Get:2 http://ftpmaster.internal/ubuntu disco/main s390x libpython3.7-minimal s390x 3.7.2~rc1-1 [543 kB] Get:3 http://ftpmaster.internal/ubuntu disco/main s390x libexpat1 s390x 2.2.6-1 [82.9 kB] Get:4 http://ftpmaster.internal/ubuntu disco/main s390x python3.7-minimal s390x 3.7.2~rc1-1 [1554 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main s390x python3-minimal s390x 3.7.1-1ubuntu1 [23.6 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main s390x mime-support all 3.60ubuntu1 [30.1 kB] Get:7 http://ftpmaster.internal/ubuntu disco/main s390x libmpdec2 s390x 2.4.2-2 [80.6 kB] Get:8 http://ftpmaster.internal/ubuntu disco/main s390x libpython3.7-stdlib s390x 3.7.2~rc1-1 [1687 kB] Get:9 http://ftpmaster.internal/ubuntu disco/main s390x python3.7 s390x 3.7.2~rc1-1 [277 kB] Get:10 http://ftpmaster.internal/ubuntu disco/main s390x libpython3-stdlib s390x 3.7.1-1ubuntu1 [7128 B] Get:11 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2.7.15-3 [1072 B] Get:64 http://ftpmaster.internal/ubuntu disco/main s390x python2.7-dev s390x 2.7.15-5 [280 kB] Get:65 http://ftpmaster.internal/ubuntu disco/main s390x python2-dev s390x 2.7.15-3 [1240 B] Get:66 http://ftpmaster.internal/ubuntu disco/main s390x python-dev s390x 2.7.15-3 [1220 B] Get:67 http://ftpmaster.internal/ubuntu disco/main s390x python-all-dev s390x 2.7.15-3 [1096 B] Get:68 http://ftpmaster.internal/ubuntu disco/universe s390x python-atomicwrites all 1.1.5-2 [6856 B] Get:69 http://ftpmaster.internal/ubuntu disco/main s390x python-attr all 18.2.0-1 [29.6 kB] Get:70 http://ftpmaster.internal/ubuntu disco/main s390x python-decorator all 4.3.0-1.1 [9524 B] Get:71 http://ftpmaster.internal/ubuntu disco/main s390x python-funcsigs all 1.0.2-4 [13.5 kB] Get:72 http://ftpmaster.internal/ubuntu disco/main s390x python-six all 1.11.0-2 [11.3 kB] Get:73 http://ftpmaster.internal/ubuntu disco/universe s390x python-more-itertools all 4.2.0-1 [39.4 kB] Get:74 http://ftpmaster.internal/ubuntu disco/main s390x python-pkg-resources all 40.6.2-1 [129 kB] Get:75 http://ftpmaster.internal/ubuntu disco/universe s390x python-networkx all 2.2-1ubuntu1 [1002 kB] Get:76 http://ftpmaster.internal/ubuntu disco/universe s390x python-nose all 1.3.7-4 [116 kB] Get:77 http://ftpmaster.internal/ubuntu disco/universe s390x python-pluggy all 0.8.0-1 [17.5 kB] Get:78 http://ftpmaster.internal/ubuntu disco/universe s390x python-py all 1.7.0-2 [65.4 kB] Get:79 http://ftpmaster.internal/ubuntu disco/universe s390x python-pytest all 3.6.4-1 [152 kB] Get:80 http://ftpmaster.internal/ubuntu disco/main s390x python-setuptools all 40.6.2-1 [327 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 59.8 MB in 1s (58.9 MB/s) Selecting previously unselected package libpython3.7-minimal:s390x. (Reading database ... 12440 files and directories currently installed.) Preparing to unpack .../libpython3.7-minimal_3.7.2~rc1-1_s390x.deb ... Unpacking libpython3.7-minimal:s390x (3.7.2~rc1-1) ... Selecting previously unselected package libexpat1:s390x. Preparing to unpack .../libexpat1_2.2.6-1_s390x.deb ... Unpacking libexpat1:s390x (2.2.6-1) ... Selecting previously unselected package python3.7-minimal. Preparing to unpack .../python3.7-minimal_3.7.2~rc1-1_s390x.deb ... Unpacking python3.7-minimal (3.7.2~rc1-1) ... Setting up libpython3.7-minimal:s390x (3.7.2~rc1-1) ... Setting up libexpat1:s390x (2.2.6-1) ... Setting up python3.7-minimal (3.7.2~rc1-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 12689 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.7.1-1ubuntu1_s390x.deb ... Unpacking python3-minimal (3.7.1-1ubuntu1) ... Selecting previously unselected package mime-support. 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Setting up libarchive-zip-perl (1.64-1) ... Setting up mime-support (3.60ubuntu1) ... Setting up libicu63:s390x (63.1-5) ... Setting up libsigsegv2:s390x (2.12-2) ... Setting up libelf1:s390x (0.175-1) ... Setting up groff-base (1.22.3-10) ... Setting up libglib2.0-0:s390x (2.58.1-2) ... No schema files found: doing nothing. Setting up gettext-base (0.19.8.1-9) ... Setting up libpipeline1:s390x (1.5.0-2) ... Setting up m4 (1.4.18-2) ... Setting up libbsd0:s390x (0.9.1-1) ... Setting up libxml2:s390x (2.9.4+dfsg1-7ubuntu3) ... Setting up libmagic-mgc (1:5.34-2) ... Setting up libmagic1:s390x (1:5.34-2) ... Setting up rsync (3.1.2-2.2) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of restart. Created symlink /etc/systemd/system/multi-user.target.wants/rsync.service → /lib/systemd/system/rsync.service. Setting up libcroco3:s390x (0.6.12-3) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up dwz (0.12-3) ... Setting up autotools-dev (20180224.1) ... Processing triggers for systemd (239-7ubuntu15) ... Setting up libexpat1-dev:s390x (2.2.6-1) ... 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 libpython2.7-stdlib:s390x (2.7.15-5) ... Setting up autopoint (0.19.8.1-9) ... Setting up libmpdec2:s390x (2.4.2-2) ... Setting up libfile-stripnondeterminism-perl (1.0.0-1) ... Setting up libpython3.7-stdlib:s390x (3.7.2~rc1-1) ... Setting up gettext (0.19.8.1-9) ... Setting up python2.7 (2.7.15-5) ... Setting up python3.7 (3.7.2~rc1-1) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.34-2) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libpython2.7:s390x (2.7.15-5) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.8.5-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up libpython2-stdlib:s390x (2.7.15-3) ... Setting up libpython2.7-dev:s390x (2.7.15-5) ... Setting up python2.7-dev (2.7.15-5) ... Setting up libtool (2.4.6-6) ... Setting up libpython3-stdlib:s390x (3.7.1-1ubuntu1) ... Setting up po-debconf (1.0.21) ... Setting up python3 (3.7.1-1ubuntu1) ... Setting up python2 (2.7.15-3) ... Setting up libpython2-dev:s390x (2.7.15-3) ... Setting up libpython-stdlib:s390x (2.7.15-3) ... Setting up python2-dev (2.7.15-3) ... Setting up python3-lib2to3 (3.7.1-1ubuntu4) ... Setting up python3-distutils (3.7.1-1ubuntu4) ... Setting up python (2.7.15-3) ... Setting up libpython-dev:s390x (2.7.15-3) ... Setting up python-atomicwrites (1.1.5-2) ... Setting up python-attr (18.2.0-1) ... Setting up python-dev (2.7.15-3) ... Setting up python-pluggy (0.8.0-1) ... Setting up libpython-all-dev:s390x (2.7.15-3) ... Setting up python-pkg-resources (40.6.2-1) ... Setting up python-six (1.11.0-2) ... Setting up python-funcsigs (1.0.2-4) ... Setting up python-decorator (4.3.0-1.1) ... Setting up dh-python (3.20180927ubuntu2) ... Setting up python-nose (1.3.7-4) ... Setting up python-all (2.7.15-3) ... Setting up python-setuptools (40.6.2-1) ... Setting up python-networkx (2.2-1ubuntu1) ... Setting up python-py (1.7.0-2) ... Setting up python-more-itertools (4.2.0-1) ... Setting up python-pytest (3.6.4-1) ... Setting up python-all-dev (2.7.15-3) ... Setting up dh-autoreconf (19) ... Setting up debhelper (11.5.3ubuntu1) ... Setting up dh-strip-nondeterminism (1.0.0-1) ... Setting up sbuild-build-depends-falcon-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-141-generic s390x (s390x) Toolchain package versions: binutils_2.31.1-11ubuntu1 dpkg-dev_1.19.2ubuntu2 g++-8_8.2.0-13ubuntu1 gcc-8_8.2.0-13ubuntu1 libc6-dev_2.28-0ubuntu1 libstdc++-8-dev_8.2.0-13ubuntu1 libstdc++6_8.2.0-13ubuntu1 linux-libc-dev_4.18.0-11.12 Package versions: adduser_3.117ubuntu1 advancecomp_2.1-1 apt_1.8.0~alpha2ubuntu1 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1ubuntu8 base-passwd_3.5.45 bash_4.4.18-2ubuntu3 binutils_2.31.1-11ubuntu1 binutils-common_2.31.1-11ubuntu1 binutils-s390x-linux-gnu_2.31.1-11ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.32-0.1ubuntu2 build-essential_12.5ubuntu2 bzip2_1.0.6-9 ca-certificates_20180409 coreutils_8.28-1ubuntu2 cpp_4:8.2.0-2ubuntu2 cpp-8_8.2.0-13ubuntu1 dash_0.5.10.2-3ubuntu1 debconf_1.5.69 debhelper_11.5.3ubuntu1 debianutils_4.8.6 dh-autoreconf_19 dh-python_3.20180927ubuntu2 dh-strip-nondeterminism_1.0.0-1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu4 dpkg_1.19.2ubuntu2 dpkg-dev_1.19.2ubuntu2 dwz_0.12-3 e2fslibs_1.44.5-1 e2fsprogs_1.44.5-1 fakeroot_1.23-1 fdisk_2.32-0.1ubuntu2 file_1:5.34-2 findutils_4.6.0+git+20181018-1 g++_4:8.2.0-2ubuntu2 g++-8_8.2.0-13ubuntu1 gcc_4:8.2.0-2ubuntu2 gcc-8_8.2.0-13ubuntu1 gcc-8-base_8.2.0-13ubuntu1 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gpg_2.2.8-3ubuntu1 gpg-agent_2.2.8-3ubuntu1 gpgconf_2.2.8-3ubuntu1 gpgv_2.2.8-3ubuntu1 grep_3.3-1 groff-base_1.22.3-10 gzip_1.6-5ubuntu2 hostname_3.21 init_1.56+nmu1 init-system-helpers_1.56+nmu1 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libapparmor1_2.12-4ubuntu10 libapt-pkg5.0_1.8.0~alpha2ubuntu1 libarchive-zip-perl_1.64-1 libargon2-1_0~20171227-0.1 libasan5_8.2.0-13ubuntu1 libassuan0_2.5.2-1 libatomic1_8.2.0-13ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.3-1ubuntu3 libaudit1_1:2.8.3-1ubuntu3 libbinutils_2.31.1-11ubuntu1 libblkid1_2.32-0.1ubuntu2 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-9 libc-bin_2.28-0ubuntu1 libc-dev-bin_2.28-0ubuntu1 libc6_2.28-0ubuntu1 libc6-dev_2.28-0ubuntu1 libcap-ng0_0.7.9-1build1 libcap2_1:2.25-1.2 libcc1-0_8.2.0-13ubuntu1 libcom-err2_1.44.5-1 libcomerr2_1.44.5-1 libcroco3_0.6.12-3 libcryptsetup12_2:2.0.4-2ubuntu2 libdb5.3_5.3.28+dfsg1-0.2 libdebconfclient0_0.244ubuntu1 libdevmapper1.02.1_2:1.02.145-4.1ubuntu4 libdpkg-perl_1.19.2ubuntu2 libelf1_0.175-1 libexpat1_2.2.6-1 libexpat1-dev_2.2.6-1 libext2fs2_1.44.5-1 libfakeroot_1.23-1 libfdisk1_2.32-0.1ubuntu2 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.0.0-1 libgcc-8-dev_8.2.0-13ubuntu1 libgcc1_1:8.2.0-13ubuntu1 libgcrypt20_1.8.4-3ubuntu1 libgdbm-compat4_1.18.1-2 libgdbm6_1.18.1-2 libglib2.0-0_2.58.1-2 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.4-2ubuntu2 libgomp1_8.2.0-13ubuntu1 libgpg-error0_1.32-3 libhogweed4_3.4.1~rc1-1 libicu63_63.1-5 libidn11_1.33-2.2ubuntu1 libidn2-0_2.0.5-1 libip4tc0_1.6.1-2ubuntu3 libisl19_0.20-2 libitm1_8.2.0-13ubuntu1 libjson-c3_0.12.1-1.3 libkmod2_25-1ubuntu2 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_1:5.34-2 libmagic1_1:5.34-2 libmount1_2.32-0.1ubuntu2 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.1-2 libncurses6_6.1+20180210-4ubuntu1 libncursesw6_6.1+20180210-4ubuntu1 libnettle6_3.4.1~rc1-1 libnpth0_1.6-1 libp11-kit0_0.23.14-2 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_2:8.39-11 libperl5.28_5.28.1-3 libpipeline1_1.5.0-2 libpng16-16_1.6.34-2 libpopt0_1.16-11 libprocps7_2:3.3.15-2ubuntu1 libpython-all-dev_2.7.15-3 libpython-dev_2.7.15-3 libpython-stdlib_2.7.15-3 libpython2-dev_2.7.15-3 libpython2-stdlib_2.7.15-3 libpython2.7_2.7.15-5 libpython2.7-dev_2.7.15-5 libpython2.7-minimal_2.7.15-5 libpython2.7-stdlib_2.7.15-5 libpython3-stdlib_3.7.1-1ubuntu1 libpython3.7-minimal_3.7.2~rc1-1 libpython3.7-stdlib_3.7.2~rc1-1 libreadline7_7.0-5 libseccomp2_2.3.3-3ubuntu2 libselinux1_2.8-1build2 libsemanage-common_2.8-2 libsemanage1_2.8-2 libsepol1_2.8-1 libsigsegv2_2.12-2 libslang2_2.3.2-1ubuntu1 libsmartcols1_2.32-0.1ubuntu2 libsqlite3-0_3.26.0-3 libss2_1.44.5-1 libssl1.1_1.1.1a-1ubuntu2 libstdc++-8-dev_8.2.0-13ubuntu1 libstdc++6_8.2.0-13ubuntu1 libsystemd0_239-7ubuntu15 libtasn1-6_4.13-3 libtinfo6_6.1+20180210-4ubuntu1 libtool_2.4.6-6 libubsan1_8.2.0-13ubuntu1 libudev1_239-7ubuntu15 libunistring2_0.9.10-1ubuntu1 libusb-0.1-4_2:0.1.12-32 libustr-1.0-1_1.0.4-6 libuuid1_2.32-0.1ubuntu2 libxml2_2.9.4+dfsg1-7ubuntu3 libzstd1_1.3.8+dfsg-3 linux-libc-dev_4.18.0-11.12 lockfile-progs_0.1.18 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-2 make_4.2.1-1.2 man-db_2.8.5-1 mawk_1.3.3-17ubuntu3 mime-support_3.60ubuntu1 mount_2.32-0.1ubuntu2 multiarch-support_2.28-0ubuntu1 ncurses-base_6.1+20180210-4ubuntu1 ncurses-bin_6.1+20180210-4ubuntu1 openssl_1.1.1a-1ubuntu2 optipng_0.7.6-1.1 passwd_1:4.5-1ubuntu1 patch_2.7.6-3 perl_5.28.1-3 perl-base_5.28.1-3 perl-modules-5.28_5.28.1-3 pinentry-curses_1.1.0-1build2 pkgbinarymangler_143 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 procps_2:3.3.15-2ubuntu1 python_2.7.15-3 python-all_2.7.15-3 python-all-dev_2.7.15-3 python-atomicwrites_1.1.5-2 python-attr_18.2.0-1 python-decorator_4.3.0-1.1 python-dev_2.7.15-3 python-funcsigs_1.0.2-4 python-minimal_2.7.15-3 python-more-itertools_4.2.0-1 python-networkx_2.2-1ubuntu1 python-nose_1.3.7-4 python-pkg-resources_40.6.2-1 python-pluggy_0.8.0-1 python-py_1.7.0-2 python-pytest_3.6.4-1 python-setuptools_40.6.2-1 python-six_1.11.0-2 python2_2.7.15-3 python2-dev_2.7.15-3 python2-minimal_2.7.15-3 python2.7_2.7.15-5 python2.7-dev_2.7.15-5 python2.7-minimal_2.7.15-5 python3_3.7.1-1ubuntu1 python3-distutils_3.7.1-1ubuntu4 python3-lib2to3_3.7.1-1ubuntu4 python3-minimal_3.7.1-1ubuntu1 python3.7_3.7.2~rc1-1 python3.7-minimal_3.7.2~rc1-1 readline-common_7.0-5 rsync_3.1.2-2.2 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-falcon-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 systemd_239-7ubuntu15 systemd-sysv_239-7ubuntu15 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu2 tar_1.30+dfsg-3 tzdata_2018i-1 ubuntu-keyring_2018.09.18.1 util-linux_2.32-0.1ubuntu2 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sat Dec 16 18:55:23 2017 UTC gpgv: using RSA key AFCFEC8E669CE1C2 gpgv: issuer "ginggs@ubuntu.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./falcon_1.8.8-1ubuntu1.dsc dpkg-source: info: extracting falcon in falcon-1.8.8 dpkg-source: info: unpacking falcon_1.8.8.orig.tar.xz dpkg-source: info: unpacking falcon_1.8.8-1ubuntu1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying build-system.patch dpkg-source: info: applying versioned-deps.patch Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=noautodbgsym 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-15814010 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15814010 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15814010 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package falcon dpkg-buildpackage: info: source version 1.8.8-1ubuntu1 dpkg-buildpackage: info: source distribution bionic dpkg-source --before-build . dpkg-buildpackage: info: host architecture s390x fakeroot debian/rules clean dh clean --with python2 debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' dh_auto_clean rm -f -r /<>/inst make[1]: Leaving directory '/<>' dh_clean debian/rules build-arch dh build-arch --with python2 dh_update_autotools_config -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/<>' mkdir -p \ /<>/inst/bin \ /<>/inst/include \ /<>/inst/lib \ /<>/inst/pylib /usr/bin/make all make[2]: Entering directory '/<>' /usr/bin/make -C ./FALCON-make/ all make[3]: Entering directory '/<>/FALCON-make' /usr/bin/make show make[4]: Entering directory '/<>/FALCON-make' mkdir -p /<>/inst/bin which python /usr/bin/python echo "PYTHONUSERBASE=" PYTHONUSERBASE= python -c 'import site; print site.USER_BASE' /sbuild-nonexistent/.local echo "FALCON_PIP_EDIT=--edit" FALCON_PIP_EDIT=--edit echo "FALCON_PIP_USER=" FALCON_PIP_USER= make[4]: Leaving directory '/<>/FALCON-make' /usr/bin/make install make[4]: Entering directory '/<>/FALCON-make' /usr/bin/make -C /<>/DAZZ_DB all make[5]: Entering directory '/<>/DAZZ_DB' gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -c -o DB.o DB.c gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -c -o QV.o QV.c ar -rcv libdazzdb.a DB.o QV.o a - DB.o a - QV.o gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro fasta2DB.c libdazzdb.a -lm -o fasta2DB gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro DB2fasta.c libdazzdb.a -lm -o DB2fasta gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro DBsplit.c libdazzdb.a -lm -o DBsplit gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro DBdust.c libdazzdb.a -lm -o DBdust gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro Catrack.c libdazzdb.a -lm -o Catrack gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro DBshow.c libdazzdb.a -lm -o DBshow gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro DBstats.c libdazzdb.a -lm -o DBstats gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro DBrm.c libdazzdb.a -lm -o DBrm gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro simulator.c libdazzdb.a -lm -o simulator gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro fasta2DAM.c libdazzdb.a -lm -o fasta2DAM gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro DAM2fasta.c libdazzdb.a -lm -o DAM2fasta gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro DBdump.c libdazzdb.a -lm -o DBdump gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -MMD -MP -Wl,-Bsymbolic-functions -Wl,-z,relro rangen.c libdazzdb.a -lm -o rangen make[5]: Leaving directory '/<>/DAZZ_DB' PREFIX=/<>/inst /usr/bin/make -C /<>/DAZZ_DB install make[5]: Entering directory '/<>/DAZZ_DB' rsync -av fasta2DB DB2fasta DBsplit DBdust Catrack DBshow DBstats DBrm simulator fasta2DAM DAM2fasta DBdump rangen /<>/inst/bin sending incremental file list Catrack DAM2fasta DB2fasta DBdump DBdust DBrm DBshow DBsplit DBstats fasta2DAM fasta2DB rangen simulator sent 3,695,543 bytes received 263 bytes 7,391,612.00 bytes/sec total size is 3,693,856 speedup is 1.00 rsync -av libdazzdb.* /<>/inst/lib sending incremental file list libdazzdb.a sent 430,145 bytes received 35 bytes 860,360.00 bytes/sec total size is 429,932 speedup is 1.00 rsync -av /<>/DAZZ_DB/DB.h /<>/DAZZ_DB/QV.h /<>/inst/include sending incremental file list DB.h QV.h sent 25,538 bytes received 54 bytes 51,184.00 bytes/sec total size is 25,385 speedup is 0.99 make[5]: Leaving directory '/<>/DAZZ_DB' /usr/bin/make -C /<>/DALIGNER all make[5]: Entering directory '/<>/DALIGNER' gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o filter.o filter.c gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o align.o align.c gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o daligner.o daligner.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB daligner.o filter.o align.o -ldazzdb -lm -lpthread -o daligner gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o HPC.daligner.o HPC.daligner.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB HPC.daligner.o align.o -ldazzdb -lm -lpthread -o HPC.daligner gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o LAsort.o LAsort.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB LAsort.o align.o -ldazzdb -lm -lpthread -o LAsort gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o LAmerge.o LAmerge.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB LAmerge.o align.o -ldazzdb -lm -lpthread -o LAmerge gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o LAsplit.o LAsplit.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB LAsplit.o align.o -ldazzdb -lm -lpthread -o LAsplit gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o LAcat.o LAcat.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB LAcat.o align.o -ldazzdb -lm -lpthread -o LAcat gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o LAshow.o LAshow.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB LAshow.o align.o -ldazzdb -lm -lpthread -o LAshow gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o LAdump.o LAdump.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB LAdump.o align.o -ldazzdb -lm -lpthread -o LAdump gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o LAcheck.o LAcheck.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB LAcheck.o align.o -ldazzdb -lm -lpthread -o LAcheck gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o LAindex.o LAindex.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB LAindex.o align.o -ldazzdb -lm -lpthread -o LAindex gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o filter_p.o filter_p.c gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o daligner_p.o daligner_p.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB daligner_p.o filter_p.o align.o -ldazzdb -lm -lpthread -o daligner_p gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o DBX.o DBX.c gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o LA4Falcon.o LA4Falcon.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB LA4Falcon.o DBX.o align.o -ldazzdb -lm -lpthread -o LA4Falcon gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o LA4Ice.o LA4Ice.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB LA4Ice.o align.o -ldazzdb -lm -lpthread -o LA4Ice gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -Wall -Wextra -fno-strict-aliasing -Wno-unused-result -Wdate-time -D_FORTIFY_SOURCE=2 -I/<>/DALIGNER/../DAZZ_DB -I/include -c -o DB2Falcon.o DB2Falcon.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -L/<>/DALIGNER/../DAZZ_DB DB2Falcon.o align.o -ldazzdb -lm -lpthread -o DB2Falcon rm daligner_p.o LAshow.o LAcat.o LA4Falcon.o LAdump.o LAsplit.o LAmerge.o LAcheck.o daligner.o HPC.daligner.o LAindex.o DB2Falcon.o LA4Ice.o LAsort.o make[5]: Leaving directory '/<>/DALIGNER' PREFIX=/<>/inst /usr/bin/make -C /<>/DALIGNER install make[5]: Entering directory '/<>/DALIGNER' rsync -av daligner HPC.daligner LAsort LAmerge LAsplit LAcat LAshow LAdump LAcheck LAindex daligner_p LA4Falcon LA4Ice DB2Falcon /<>/inst/bin sending incremental file list DB2Falcon HPC.daligner LA4Falcon LA4Ice LAcat LAcheck LAdump LAindex LAmerge LAshow LAsort LAsplit daligner daligner_p sent 11,526,852 bytes received 282 bytes 23,054,268.00 bytes/sec total size is 11,523,192 speedup is 1.00 make[5]: Leaving directory '/<>/DALIGNER' /usr/bin/make -C /<>/DAMASKER all make[5]: Entering directory '/<>/DAMASKER' gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o tandem.o tandem.c gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o align.o align.c gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o DB.o DB.c gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o QV.o QV.c gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o datander.o datander.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro datander.o tandem.o align.o DB.o QV.o -lm -lpthread -o datander gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o TANmask.o TANmask.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro TANmask.o align.o DB.o QV.o -lm -lpthread -o TANmask gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o REPmask.o REPmask.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro REPmask.o align.o DB.o QV.o -lm -lpthread -o REPmask gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o HPC.TANmask.o HPC.TANmask.c HPC.TANmask.c: In function ‘main’: HPC.TANmask.c:296:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for (k = i; k < j; k++) ^~~ HPC.TANmask.c:308:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ if (DON) ^~ HPC.TANmask.c:433:9: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for (k = 0; k < NTHREADS; k++) ^~~ HPC.TANmask.c:438:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ fprintf(out,"\n"); ^~~~~~~ gcc -Wl,-Bsymbolic-functions -Wl,-z,relro HPC.TANmask.o align.o DB.o QV.o -lm -lpthread -o HPC.TANmask gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o HPC.REPmask.o HPC.REPmask.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro HPC.REPmask.o align.o DB.o QV.o -lm -lpthread -o HPC.REPmask rm TANmask.o datander.o HPC.REPmask.o HPC.TANmask.o REPmask.o make[5]: Leaving directory '/<>/DAMASKER' PREFIX=/<>/inst /usr/bin/make -C /<>/DAMASKER install make[5]: Entering directory '/<>/DAMASKER' rsync -av datander TANmask REPmask HPC.TANmask HPC.REPmask /<>/inst/bin sending incremental file list HPC.REPmask HPC.TANmask REPmask TANmask datander sent 752,961 bytes received 111 bytes 1,506,144.00 bytes/sec total size is 752,440 speedup is 1.00 make[5]: Leaving directory '/<>/DAMASKER' /usr/bin/make -C /<>/DEXTRACTOR all make[5]: Entering directory '/<>/DEXTRACTOR' gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o dexta.o dexta.c gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o DB.o DB.c gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o QV.o QV.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro dexta.o DB.o QV.o -lm -lpthread -o dexta gcc -O3 -Wall -Wextra -Wno-unused-result -fno-strict-aliasing -Wdate-time -D_FORTIFY_SOURCE=2 -c -o undexta.o undexta.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro undexta.o DB.o QV.o -lm -lpthread -o undexta make[5]: Leaving directory '/<>/DEXTRACTOR' PREFIX=/<>/inst /usr/bin/make -C /<>/DEXTRACTOR install make[5]: Entering directory '/<>/DEXTRACTOR' rsync -av dexta undexta /<>/inst/bin sending incremental file list dexta undexta sent 140,132 bytes received 54 bytes 280,372.00 bytes/sec total size is 139,936 speedup is 1.00 make[5]: Leaving directory '/<>/DEXTRACTOR' cd /<>/pypeFLOW; python setup.py install --install-lib=/<>/inst/pylib --install-scripts=/<>/inst/bin running install running bdist_egg running egg_info creating pypeflow.egg-info writing requirements to pypeflow.egg-info/requires.txt writing pypeflow.egg-info/PKG-INFO writing top-level names to pypeflow.egg-info/top_level.txt writing dependency_links to pypeflow.egg-info/dependency_links.txt writing entry points to pypeflow.egg-info/entry_points.txt writing manifest file 'pypeflow.egg-info/SOURCES.txt' reading manifest file 'pypeflow.egg-info/SOURCES.txt' writing manifest file 'pypeflow.egg-info/SOURCES.txt' installing library code to build/bdist.linux-s390x/egg running install_lib running build_py creating build creating build/lib.linux-s390x-2.7 creating build/lib.linux-s390x-2.7/pypeflow copying ./pypeflow/simple_pwatcher_bridge.py -> build/lib.linux-s390x-2.7/pypeflow copying ./pypeflow/util.py -> build/lib.linux-s390x-2.7/pypeflow copying ./pypeflow/do_support.py -> build/lib.linux-s390x-2.7/pypeflow copying ./pypeflow/pwatcher_workflow.py -> build/lib.linux-s390x-2.7/pypeflow copying ./pypeflow/do_task.py -> build/lib.linux-s390x-2.7/pypeflow copying ./pypeflow/__init__.py -> build/lib.linux-s390x-2.7/pypeflow creating build/lib.linux-s390x-2.7/pwatcher copying ./pwatcher/network_based.py -> build/lib.linux-s390x-2.7/pwatcher copying ./pwatcher/fs_based.py -> build/lib.linux-s390x-2.7/pwatcher copying ./pwatcher/__init__.py -> build/lib.linux-s390x-2.7/pwatcher copying ./pwatcher/blocking.py -> build/lib.linux-s390x-2.7/pwatcher creating build/lib.linux-s390x-2.7/pwatcher/mains copying ./pwatcher/mains/network_heartbeat.py -> build/lib.linux-s390x-2.7/pwatcher/mains copying ./pwatcher/mains/pwatcher.py -> build/lib.linux-s390x-2.7/pwatcher/mains copying ./pwatcher/mains/pypeflow_example.py -> build/lib.linux-s390x-2.7/pwatcher/mains copying ./pwatcher/mains/__init__.py -> build/lib.linux-s390x-2.7/pwatcher/mains copying ./pwatcher/mains/fs_heartbeat.py -> build/lib.linux-s390x-2.7/pwatcher/mains copying ./pwatcher/mains/query_server.py -> build/lib.linux-s390x-2.7/pwatcher/mains copying ./pwatcher/mains/job_start.sh -> build/lib.linux-s390x-2.7/pwatcher/mains creating build/bdist.linux-s390x creating build/bdist.linux-s390x/egg creating build/bdist.linux-s390x/egg/pypeflow copying build/lib.linux-s390x-2.7/pypeflow/simple_pwatcher_bridge.py -> build/bdist.linux-s390x/egg/pypeflow copying build/lib.linux-s390x-2.7/pypeflow/util.py -> build/bdist.linux-s390x/egg/pypeflow copying build/lib.linux-s390x-2.7/pypeflow/do_support.py -> build/bdist.linux-s390x/egg/pypeflow copying build/lib.linux-s390x-2.7/pypeflow/pwatcher_workflow.py -> build/bdist.linux-s390x/egg/pypeflow copying build/lib.linux-s390x-2.7/pypeflow/do_task.py -> build/bdist.linux-s390x/egg/pypeflow copying build/lib.linux-s390x-2.7/pypeflow/__init__.py -> build/bdist.linux-s390x/egg/pypeflow creating build/bdist.linux-s390x/egg/pwatcher copying build/lib.linux-s390x-2.7/pwatcher/network_based.py -> build/bdist.linux-s390x/egg/pwatcher creating build/bdist.linux-s390x/egg/pwatcher/mains copying build/lib.linux-s390x-2.7/pwatcher/mains/network_heartbeat.py -> build/bdist.linux-s390x/egg/pwatcher/mains copying build/lib.linux-s390x-2.7/pwatcher/mains/job_start.sh -> build/bdist.linux-s390x/egg/pwatcher/mains copying build/lib.linux-s390x-2.7/pwatcher/mains/pwatcher.py -> build/bdist.linux-s390x/egg/pwatcher/mains copying build/lib.linux-s390x-2.7/pwatcher/mains/pypeflow_example.py -> build/bdist.linux-s390x/egg/pwatcher/mains copying build/lib.linux-s390x-2.7/pwatcher/mains/__init__.py -> build/bdist.linux-s390x/egg/pwatcher/mains copying build/lib.linux-s390x-2.7/pwatcher/mains/fs_heartbeat.py -> build/bdist.linux-s390x/egg/pwatcher/mains copying build/lib.linux-s390x-2.7/pwatcher/mains/query_server.py -> build/bdist.linux-s390x/egg/pwatcher/mains copying build/lib.linux-s390x-2.7/pwatcher/fs_based.py -> build/bdist.linux-s390x/egg/pwatcher copying build/lib.linux-s390x-2.7/pwatcher/__init__.py -> build/bdist.linux-s390x/egg/pwatcher copying build/lib.linux-s390x-2.7/pwatcher/blocking.py -> build/bdist.linux-s390x/egg/pwatcher byte-compiling build/bdist.linux-s390x/egg/pypeflow/simple_pwatcher_bridge.py to simple_pwatcher_bridge.pyc byte-compiling build/bdist.linux-s390x/egg/pypeflow/util.py to util.pyc byte-compiling build/bdist.linux-s390x/egg/pypeflow/do_support.py to do_support.pyc byte-compiling build/bdist.linux-s390x/egg/pypeflow/pwatcher_workflow.py to pwatcher_workflow.pyc byte-compiling build/bdist.linux-s390x/egg/pypeflow/do_task.py to do_task.pyc byte-compiling build/bdist.linux-s390x/egg/pypeflow/__init__.py to __init__.pyc byte-compiling build/bdist.linux-s390x/egg/pwatcher/network_based.py to network_based.pyc byte-compiling build/bdist.linux-s390x/egg/pwatcher/mains/network_heartbeat.py to network_heartbeat.pyc byte-compiling build/bdist.linux-s390x/egg/pwatcher/mains/pwatcher.py to pwatcher.pyc byte-compiling build/bdist.linux-s390x/egg/pwatcher/mains/pypeflow_example.py to pypeflow_example.pyc byte-compiling build/bdist.linux-s390x/egg/pwatcher/mains/__init__.py to __init__.pyc byte-compiling build/bdist.linux-s390x/egg/pwatcher/mains/fs_heartbeat.py to fs_heartbeat.pyc byte-compiling build/bdist.linux-s390x/egg/pwatcher/mains/query_server.py to query_server.pyc byte-compiling build/bdist.linux-s390x/egg/pwatcher/fs_based.py to fs_based.pyc byte-compiling build/bdist.linux-s390x/egg/pwatcher/__init__.py to __init__.pyc byte-compiling build/bdist.linux-s390x/egg/pwatcher/blocking.py to blocking.pyc creating build/bdist.linux-s390x/egg/EGG-INFO copying pypeflow.egg-info/PKG-INFO -> build/bdist.linux-s390x/egg/EGG-INFO copying pypeflow.egg-info/SOURCES.txt -> build/bdist.linux-s390x/egg/EGG-INFO copying pypeflow.egg-info/dependency_links.txt -> build/bdist.linux-s390x/egg/EGG-INFO copying pypeflow.egg-info/entry_points.txt -> build/bdist.linux-s390x/egg/EGG-INFO copying pypeflow.egg-info/not-zip-safe -> build/bdist.linux-s390x/egg/EGG-INFO copying pypeflow.egg-info/requires.txt -> build/bdist.linux-s390x/egg/EGG-INFO copying pypeflow.egg-info/top_level.txt -> build/bdist.linux-s390x/egg/EGG-INFO creating dist creating 'dist/pypeflow-1.0.0-py2.7.egg' and adding 'build/bdist.linux-s390x/egg' to it removing 'build/bdist.linux-s390x/egg' (and everything under it) Creating /<>/inst/pylib/site.py Processing pypeflow-1.0.0-py2.7.egg creating /<>/inst/pylib/pypeflow-1.0.0-py2.7.egg Extracting pypeflow-1.0.0-py2.7.egg to /<>/inst/pylib Adding pypeflow 1.0.0 to easy-install.pth file Installing pwatcher-pypeflow-example script to /<>/inst/bin Installing heartbeat-wrapper script to /<>/inst/bin Installing pwatcher-main script to /<>/inst/bin Installed /<>/inst/pylib/pypeflow-1.0.0-py2.7.egg Processing dependencies for pypeflow==1.0.0 Searching for networkx==2.2 Best match: networkx 2.2 Adding networkx 2.2 to easy-install.pth file Using /usr/lib/python2.7/dist-packages Finished processing dependencies for pypeflow==1.0.0 cd /<>/FALCON; python setup.py install --install-lib=/<>/inst/pylib --install-scripts=/<>/inst/bin /bin/sh: 1: git: not found running install running bdist_egg running egg_info creating falcon_kit.egg-info writing requirements to falcon_kit.egg-info/requires.txt writing falcon_kit.egg-info/PKG-INFO writing top-level names to falcon_kit.egg-info/top_level.txt writing dependency_links to falcon_kit.egg-info/dependency_links.txt writing entry points to falcon_kit.egg-info/entry_points.txt writing manifest file 'falcon_kit.egg-info/SOURCES.txt' reading manifest file 'falcon_kit.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'falcon_kit.egg-info/SOURCES.txt' installing library code to build/bdist.linux-s390x/egg running install_lib running build_py creating build creating build/lib.linux-s390x-2.7 creating build/lib.linux-s390x-2.7/falcon_kit copying falcon_kit/bash.py -> build/lib.linux-s390x-2.7/falcon_kit copying falcon_kit/falcon_kit.py -> build/lib.linux-s390x-2.7/falcon_kit copying falcon_kit/FastaReader.py -> build/lib.linux-s390x-2.7/falcon_kit copying falcon_kit/pype_tasks.py -> build/lib.linux-s390x-2.7/falcon_kit copying falcon_kit/multiproc.py -> build/lib.linux-s390x-2.7/falcon_kit copying falcon_kit/fc_asm_graph.py -> build/lib.linux-s390x-2.7/falcon_kit copying falcon_kit/run_support.py -> build/lib.linux-s390x-2.7/falcon_kit copying falcon_kit/functional.py -> build/lib.linux-s390x-2.7/falcon_kit copying falcon_kit/stats_preassembly.py -> build/lib.linux-s390x-2.7/falcon_kit copying falcon_kit/__init__.py -> build/lib.linux-s390x-2.7/falcon_kit creating build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/ovlp_filter.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/consensus.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/ovlp_stats.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/actg_coordinate.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/contig_annotate.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/ctg_link_analysis.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/fasta2fasta.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/calc_cutoff.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/pr_ctg_track.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/graph_to_utgs.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/get_read_ctg_map.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/rr_ctg_track.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/graph_to_contig.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/report_pre_assembly.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/tasks.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/ovlp_to_graph.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/__init__.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/LAmerge.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/run1.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/fetch_reads.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/dedup_a_tigs.py -> build/lib.linux-s390x-2.7/falcon_kit/mains copying falcon_kit/mains/LAsort.py -> build/lib.linux-s390x-2.7/falcon_kit/mains creating build/lib.linux-s390x-2.7/falcon_kit/util copying falcon_kit/util/system.py -> build/lib.linux-s390x-2.7/falcon_kit/util copying falcon_kit/util/io.py -> build/lib.linux-s390x-2.7/falcon_kit/util copying falcon_kit/util/__init__.py -> build/lib.linux-s390x-2.7/falcon_kit/util running build_ext building 'ext_falcon' extension creating build/temp.linux-s390x-2.7 creating build/temp.linux-s390x-2.7/src creating build/temp.linux-s390x-2.7/src/c gcc -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -c src/c/ext_falcon.c -o build/temp.linux-s390x-2.7/src/c/ext_falcon.o -fPIC -O3 -fno-omit-frame-pointer gcc -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -c src/c/DW_banded.c -o build/temp.linux-s390x-2.7/src/c/DW_banded.o -fPIC -O3 -fno-omit-frame-pointer gcc -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -c src/c/kmer_lookup.c -o build/temp.linux-s390x-2.7/src/c/kmer_lookup.o -fPIC -O3 -fno-omit-frame-pointer gcc -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -c src/c/falcon.c -o build/temp.linux-s390x-2.7/src/c/falcon.o -fPIC -O3 -fno-omit-frame-pointer s390x-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -Wdate-time -D_FORTIFY_SOURCE=2 -g -fdebug-prefix-map=/build/python2.7-RkiuPD/python2.7-2.7.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z,relro -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-s390x-2.7/src/c/ext_falcon.o build/temp.linux-s390x-2.7/src/c/DW_banded.o build/temp.linux-s390x-2.7/src/c/kmer_lookup.o build/temp.linux-s390x-2.7/src/c/falcon.o -o build/lib.linux-s390x-2.7/ext_falcon.so creating build/bdist.linux-s390x creating build/bdist.linux-s390x/egg creating build/bdist.linux-s390x/egg/falcon_kit copying build/lib.linux-s390x-2.7/falcon_kit/bash.py -> build/bdist.linux-s390x/egg/falcon_kit copying build/lib.linux-s390x-2.7/falcon_kit/falcon_kit.py -> build/bdist.linux-s390x/egg/falcon_kit copying build/lib.linux-s390x-2.7/falcon_kit/FastaReader.py -> build/bdist.linux-s390x/egg/falcon_kit copying build/lib.linux-s390x-2.7/falcon_kit/pype_tasks.py -> build/bdist.linux-s390x/egg/falcon_kit creating build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/ovlp_filter.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/consensus.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/ovlp_stats.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/actg_coordinate.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/contig_annotate.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/ctg_link_analysis.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/fasta2fasta.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/calc_cutoff.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/pr_ctg_track.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/graph_to_utgs.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/get_read_ctg_map.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/rr_ctg_track.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/graph_to_contig.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/report_pre_assembly.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/tasks.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/ovlp_to_graph.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/__init__.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/LAmerge.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/run1.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/fetch_reads.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/dedup_a_tigs.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/mains/LAsort.py -> build/bdist.linux-s390x/egg/falcon_kit/mains copying build/lib.linux-s390x-2.7/falcon_kit/multiproc.py -> build/bdist.linux-s390x/egg/falcon_kit copying build/lib.linux-s390x-2.7/falcon_kit/fc_asm_graph.py -> build/bdist.linux-s390x/egg/falcon_kit copying build/lib.linux-s390x-2.7/falcon_kit/run_support.py -> build/bdist.linux-s390x/egg/falcon_kit copying build/lib.linux-s390x-2.7/falcon_kit/functional.py -> build/bdist.linux-s390x/egg/falcon_kit copying build/lib.linux-s390x-2.7/falcon_kit/stats_preassembly.py -> build/bdist.linux-s390x/egg/falcon_kit copying build/lib.linux-s390x-2.7/falcon_kit/__init__.py -> build/bdist.linux-s390x/egg/falcon_kit creating build/bdist.linux-s390x/egg/falcon_kit/util copying build/lib.linux-s390x-2.7/falcon_kit/util/system.py -> build/bdist.linux-s390x/egg/falcon_kit/util copying build/lib.linux-s390x-2.7/falcon_kit/util/io.py -> build/bdist.linux-s390x/egg/falcon_kit/util copying build/lib.linux-s390x-2.7/falcon_kit/util/__init__.py -> build/bdist.linux-s390x/egg/falcon_kit/util copying build/lib.linux-s390x-2.7/ext_falcon.so -> build/bdist.linux-s390x/egg byte-compiling build/bdist.linux-s390x/egg/falcon_kit/bash.py to bash.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/falcon_kit.py to falcon_kit.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/FastaReader.py to FastaReader.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/pype_tasks.py to pype_tasks.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/ovlp_filter.py to ovlp_filter.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/consensus.py to consensus.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/ovlp_stats.py to ovlp_stats.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/actg_coordinate.py to actg_coordinate.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/contig_annotate.py to contig_annotate.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/ctg_link_analysis.py to ctg_link_analysis.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/fasta2fasta.py to fasta2fasta.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/calc_cutoff.py to calc_cutoff.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/pr_ctg_track.py to pr_ctg_track.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/graph_to_utgs.py to graph_to_utgs.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/get_read_ctg_map.py to get_read_ctg_map.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/rr_ctg_track.py to rr_ctg_track.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/graph_to_contig.py to graph_to_contig.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/report_pre_assembly.py to report_pre_assembly.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/tasks.py to tasks.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/ovlp_to_graph.py to ovlp_to_graph.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/__init__.py to __init__.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/LAmerge.py to LAmerge.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/run1.py to run1.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/fetch_reads.py to fetch_reads.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/dedup_a_tigs.py to dedup_a_tigs.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/mains/LAsort.py to LAsort.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/multiproc.py to multiproc.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/fc_asm_graph.py to fc_asm_graph.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/run_support.py to run_support.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/functional.py to functional.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/stats_preassembly.py to stats_preassembly.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/__init__.py to __init__.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/util/system.py to system.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/util/io.py to io.pyc byte-compiling build/bdist.linux-s390x/egg/falcon_kit/util/__init__.py to __init__.pyc creating stub loader for ext_falcon.so byte-compiling build/bdist.linux-s390x/egg/ext_falcon.py to ext_falcon.pyc creating build/bdist.linux-s390x/egg/EGG-INFO installing scripts to build/bdist.linux-s390x/egg/EGG-INFO/scripts running install_scripts running build_scripts creating build/scripts-2.7 copying src/py_scripts/fc_consensus.py -> build/scripts-2.7 copying src/py_scripts/fc_actg_coordinate.py -> build/scripts-2.7 copying src/py_scripts/fc_dedup_a_tigs.py -> build/scripts-2.7 copying src/py_scripts/fc_ctg_link_analysis.py -> build/scripts-2.7 copying src/py_scripts/fc_ovlp_to_graph.py -> build/scripts-2.7 copying src/py_scripts/fc_contig_annotate.py -> build/scripts-2.7 copying src/py_scripts/fc_ovlp_stats.py -> build/scripts-2.7 copying src/py_scripts/fc_run.py -> build/scripts-2.7 copying src/py_scripts/fc_graph_to_utgs.py -> build/scripts-2.7 copying src/py_scripts/fc_graph_to_contig.py -> build/scripts-2.7 copying src/py_scripts/fc_ovlp_filter.py -> build/scripts-2.7 changing mode of build/scripts-2.7/fc_consensus.py from 644 to 755 changing mode of build/scripts-2.7/fc_actg_coordinate.py from 644 to 755 changing mode of build/scripts-2.7/fc_dedup_a_tigs.py from 644 to 755 changing mode of build/scripts-2.7/fc_ctg_link_analysis.py from 644 to 755 changing mode of build/scripts-2.7/fc_ovlp_to_graph.py from 644 to 755 changing mode of build/scripts-2.7/fc_contig_annotate.py from 644 to 755 changing mode of build/scripts-2.7/fc_ovlp_stats.py from 644 to 755 changing mode of build/scripts-2.7/fc_run.py from 644 to 755 changing mode of build/scripts-2.7/fc_graph_to_utgs.py from 644 to 755 changing mode of build/scripts-2.7/fc_graph_to_contig.py from 644 to 755 changing mode of build/scripts-2.7/fc_ovlp_filter.py from 644 to 755 creating build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_consensus.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_actg_coordinate.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_dedup_a_tigs.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_ctg_link_analysis.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_ovlp_to_graph.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_contig_annotate.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_ovlp_stats.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_run.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_graph_to_utgs.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_graph_to_contig.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts copying build/scripts-2.7/fc_ovlp_filter.py -> build/bdist.linux-s390x/egg/EGG-INFO/scripts changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_consensus.py to 755 changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_actg_coordinate.py to 755 changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_dedup_a_tigs.py to 755 changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_ctg_link_analysis.py to 755 changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_ovlp_to_graph.py to 755 changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_contig_annotate.py to 755 changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_ovlp_stats.py to 755 changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_run.py to 755 changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_graph_to_utgs.py to 755 changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_graph_to_contig.py to 755 changing mode of build/bdist.linux-s390x/egg/EGG-INFO/scripts/fc_ovlp_filter.py to 755 copying falcon_kit.egg-info/PKG-INFO -> build/bdist.linux-s390x/egg/EGG-INFO copying falcon_kit.egg-info/SOURCES.txt -> build/bdist.linux-s390x/egg/EGG-INFO copying falcon_kit.egg-info/dependency_links.txt -> build/bdist.linux-s390x/egg/EGG-INFO copying falcon_kit.egg-info/entry_points.txt -> build/bdist.linux-s390x/egg/EGG-INFO copying falcon_kit.egg-info/not-zip-safe -> build/bdist.linux-s390x/egg/EGG-INFO copying falcon_kit.egg-info/requires.txt -> build/bdist.linux-s390x/egg/EGG-INFO copying falcon_kit.egg-info/top_level.txt -> build/bdist.linux-s390x/egg/EGG-INFO writing build/bdist.linux-s390x/egg/EGG-INFO/native_libs.txt creating dist creating 'dist/falcon_kit-0.7-py2.7-linux-s390x.egg' and adding 'build/bdist.linux-s390x/egg' to it removing 'build/bdist.linux-s390x/egg' (and everything under it) Processing falcon_kit-0.7-py2.7-linux-s390x.egg creating /<>/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg Extracting falcon_kit-0.7-py2.7-linux-s390x.egg to /<>/inst/pylib Adding falcon-kit 0.7 to easy-install.pth file Installing fc_consensus.py script to /<>/inst/bin Installing fc_actg_coordinate.py script to /<>/inst/bin Installing fc_dedup_a_tigs.py script to /<>/inst/bin Installing fc_ctg_link_analysis.py script to /<>/inst/bin Installing fc_ovlp_to_graph.py script to /<>/inst/bin Installing fc_contig_annotate.py script to /<>/inst/bin Installing fc_ovlp_stats.py script to /<>/inst/bin Installing fc_run.py script to /<>/inst/bin Installing fc_graph_to_utgs.py script to /<>/inst/bin Installing fc_graph_to_contig.py script to /<>/inst/bin Installing fc_ovlp_filter.py script to /<>/inst/bin Installing fc_fetch_reads script to /<>/inst/bin Installing fc_pr_ctg_track script to /<>/inst/bin Installing fc_actg_coordinate script to /<>/inst/bin Installing fc_fasta2fasta script to /<>/inst/bin Installing fc_ctg_link_analysis script to /<>/inst/bin Installing fc_ovlp_to_graph script to /<>/inst/bin Installing fc_ovlp_filter script to /<>/inst/bin Installing fc_get_read_ctg_map script to /<>/inst/bin Installing fc_run script to /<>/inst/bin Installing fc_contig_annotate script to /<>/inst/bin Installing fc_graph_to_utgs script to /<>/inst/bin Installing fc_run1 script to /<>/inst/bin Installing fc_ovlp_stats script to /<>/inst/bin Installing fc_consensus script to /<>/inst/bin Installing fc_rr_ctg_track script to /<>/inst/bin Installing fc_calc_cutoff script to /<>/inst/bin Installing falcon-task script to /<>/inst/bin Installing fc_graph_to_contig script to /<>/inst/bin Installing fc_dedup_a_tigs script to /<>/inst/bin Installed /<>/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg Processing dependencies for falcon-kit==0.7 Searching for networkx==2.2 Best match: networkx 2.2 Adding networkx 2.2 to easy-install.pth file Using /usr/lib/python2.7/dist-packages Finished processing dependencies for falcon-kit==0.7 make[4]: Leaving directory '/<>/FALCON-make' /usr/bin/make check make[4]: Entering directory '/<>/FALCON-make' python -c 'import pypeflow.simple_pwatcher_bridge; print pypeflow.simple_pwatcher_bridge' >/inst/pylib/pypeflow-1.0.0-py2.7.egg/pypeflow/simple_pwatcher_bridge.pyc'> python -c 'import falcon_kit; print falcon_kit.falcon' >/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg/ext_falcon.so', handle 13158e110 at 3ff978ea438> make[4]: Leaving directory '/<>/FALCON-make' make[3]: Leaving directory '/<>/FALCON-make' make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' debian/rules override_dh_auto_test make[1]: Entering directory '/<>' /usr/bin/make -C FALCON test make[2]: Entering directory '/<>/FALCON' python -c 'import falcon_kit; print falcon_kit.falcon' >/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg/ext_falcon.so', handle 149cb47a0 at 3ffa76e94e0> #pip install --user pytest py.test -v -s --junit-xml=test.basic.xml test/ ============================= test session starts ============================== platform linux2 -- Python 2.7.15+, pytest-3.6.4, py-1.7.0, pluggy-0.8.0 -- /usr/bin/python2 cachedir: .pytest_cache rootdir: /<>/FALCON, inifile: collecting ... collected 39 items test/test_calc_cutoff.py::test_help usage: py.test [-h] [--coverage COVERAGE] genome_size capture Given the result of 'DBstats -u -b1' on stdin, print the lowest read-length required for sufficient coverage of the genome (i.e. 'length_cutoff'). positional arguments: genome_size Estimated number of bases in genome. (haploid?) capture File with captured output of DBstats. (Otherwise, stdin.) optional arguments: -h, --help show this help message and exit --coverage COVERAGE Desired coverage ratio (i.e. over-sampling) (default: 20) This is useful when length_cutoff is not provided but the genome-size can be estimated. The purpose is to *reduce* the amount of data seen by DALIGNER, since otherwise it will miss many alignments when it encounters resource limits. Note: If PBFALCON_ERRFILE is defined (and its directory is writable), we will write errors there in addition to stderr. PASSED test/test_calc_cutoff.py::test_calc_cutoff PASSED test/test_calc_cutoff.py::test_calc_cutoff_err PASSED test/test_calc_cutoff.py::test_calc_cutoff_errfile PASSED test/test_consensus.py::test_help usage: py.test [-h] [--n_core N_CORE] [--min_cov MIN_COV] [--min_cov_aln MIN_COV_ALN] [--max_cov_aln MAX_COV_ALN] [--min_len_aln MIN_LEN_ALN] [--min_n_read MIN_N_READ] [--max_n_read MAX_N_READ] [--trim] [--output_full] [--output_multi] [--min_idt MIN_IDT] [--edge_tolerance EDGE_TOLERANCE] [--trim_size TRIM_SIZE] a simple multi-processor consensus sequence generator optional arguments: -h, --help show this help message and exit --n_core N_CORE number of processes used for generating consensus; 0 for main process only (default: 24) --min_cov MIN_COV minimum coverage to break the consensus (default: 6) --min_cov_aln MIN_COV_ALN minimum coverage of alignment data; a seed read with less than MIN_COV_ALN average depth of coverage will be completely ignored (default: 10) --max_cov_aln MAX_COV_ALN maximum coverage of alignment data; a seed read with more than MAX_COV_ALN average depth of coverage of the longest alignments will be capped, excess shorter alignments will be ignored (default: 0) --min_len_aln MIN_LEN_ALN minimum length of a sequence in an alignment to be used in consensus; any shorter sequence will be completely ignored (default: 0) --min_n_read MIN_N_READ 1 + minimum number of reads used in generating the consensus; a seed read with fewer alignments will be completely ignored (default: 10) --max_n_read MAX_N_READ 1 + maximum number of reads used in generating the consensus (default: 500) --trim trim the input sequence with k-mer spare dynamic programming to find the mapped range (default: False) --output_full output uncorrected regions too (default: False) --output_multi output multi correct regions (default: False) --min_idt MIN_IDT minimum identity of the alignments used for correction (default: 0.7) --edge_tolerance EDGE_TOLERANCE for trimming, the there is unaligned edge leng > edge_tolerance, ignore the read (default: 1000) --trim_size TRIM_SIZE the size for triming both ends from initial sparse aligned region (default: 50) PASSED test/test_functional.py::test_get_daligner_job_descriptions PASSED test/test_functional.py::test_get_daligner_job_descriptions_with_bad_arg PASSED test/test_functional.py::test_get_daligner_job_descriptions_small PASSED test/test_functional.py::test_get_daligner_job_descriptions_se161 PASSED test/test_functional.py::test_get_mjob_data PASSED test/test_functional.py::test_skip_LAcheck PASSED test/test_functional.py::test_first_block_las PASSED test/test_functional.py::test_xform_script_for_preads PASSED test/test_functional.py::test_calc_cutoff_from_reverse_sorted_readlength_counts::[0] PASSED test/test_functional.py::test_calc_cutoff_from_reverse_sorted_readlength_counts::[1] PASSED test/test_functional.py::test_calc_cutoff_from_reverse_sorted_readlength_counts::[2] PASSED test/test_functional.py::test_calc_cutoff_from_reverse_sorted_readlength_counts::[3] PASSED test/test_functional.py::test_calc_cutoff_from_reverse_sorted_readlength_counts::[4] PASSED test/test_functional.py::test_calc_cutoff_from_reverse_sorted_readlength_counts::[5] PASSED test/test_functional.py::test_get_reverse_sorted_readlength_counts_from_DBstats PASSED test/test_functional.py::test_num2int PASSED test/test_functional.py::test_calc_cutoff PASSED test/test_functional.py::test_calc_cutoff_bad_coverage PASSED test/test_functional.py::test_parsed_readlengths_from_dbdump_output PASSED test/test_functional.py::test_mapped_readlengths_from_dbdump_output PASSED test/test_functional.py::test_average_difference PASSED test/test_functional.py::test_calc_metric_truncation PASSED test/test_functional.py::test_calc_metric_fragmentation PASSED test/test_functional.py::test_args_from_line PASSED test/test_ovlp_filter.py::test_help usage: py.test [-h] [--n_core N_CORE] [--fofn FOFN] [--db DB_FN] [--max_diff MAX_DIFF] [--max_cov MAX_COV] [--min_cov MIN_COV] [--min_len MIN_LEN] [--bestn BESTN] [--stream] [--debug] [--silent] a simple multi-processes LAS ovelap data filter optional arguments: -h, --help show this help message and exit --n_core N_CORE number of processes used for generating consensus; 0 for main process only (default: 4) --fofn FOFN file contains the path of all LAS file to be processed in parallel (default: None) --db DB_FN read db file path (default: None) --max_diff MAX_DIFF max difference of 5' and 3' coverage (default: None) --max_cov MAX_COV max coverage of 5' or 3' coverage (default: None) --min_cov MIN_COV min coverage of 5' or 3' coverage (default: None) --min_len MIN_LEN min length of the reads (default: 2500) --bestn BESTN output at least best n overlaps on 5' or 3' ends if possible (default: 10) --stream stream from LA4Falcon, instead of slurping all at once; can save memory for large data (default: False) --debug, -g single-threaded, plus other aids to debugging (default: False) --silent suppress cmd reporting on stderr (default: False) PASSED test/test_ovlp_filter.py::test_several PASSED test/test_ovlp_filter.py::test_one_not_ignored PASSED test/test_ovlp_filter.py::test_one_line_ignored PASSED test/test_ovlp_filter.py::test_empty PASSED test/test_ovlp_stats.py::test_help usage: py.test [-h] [--n_core N_CORE] --fofn FOFN [--min_len MIN_LEN] [--stream] [--debug] [--silent] a simple multi-processes LAS ovelap data filter optional arguments: -h, --help show this help message and exit --n_core N_CORE number of processes used for generating consensus; 0 for main process only (default: 4) --fofn FOFN file contains the path of all LAS file to be processed in parallel (default: None) --min_len MIN_LEN min length of the reads (default: 2500) --stream stream from LA4Falcon, instead of slurping all at once; can save memory for large data (default: False) --debug, -g single-threaded, plus other aids to debugging (default: False) --silent suppress cmd reporting on stderr (default: False) PASSED test/test_ovlp_stats.py::test PASSED test/test_ovlp_to_graph.py::test_help usage: py.test [-h] [--min_len MIN_LEN] [--min_idt MIN_IDT] [--lfc] [--disable_chimer_bridge_removal] overlap_file a example string graph assembler that is desinged for handling diploid genomes positional arguments: overlap_file a file that contains the overlap information. optional arguments: -h, --help show this help message and exit --min_len MIN_LEN minimum length of the reads to be considered for assembling (default: 4000) --min_idt MIN_IDT minimum alignment identity of the reads to be considered for assembling (default: 96) --lfc use local flow constraint method rather than best overlap method to resolve knots in string graph (default: False) --disable_chimer_bridge_removal disable chimer induced bridge removal (default: False) PASSED test/test_stats_preassembly.py::test_stats_from_sorted_readlengths PASSED test/test_stats_preassembly.py::test_stats_dict PASSED - generated xml file: /<>/FALCON/test.basic.xml -- =============================== warnings summary =============================== test/test_functional.py::test_calc_cutoff_from_reverse_sorted_readlength_counts yield tests are deprecated, and scheduled to be removed in pytest 4.0 -- Docs: http://doc.pytest.org/en/latest/warnings.html ==================== 39 passed, 1 warnings in 0.21 seconds ===================== py.test -v -s --junit-xml=test.doctest.xml --doctest-modules falcon_kit/functional.py ============================= test session starts ============================== platform linux2 -- Python 2.7.15+, pytest-3.6.4, py-1.7.0, pluggy-0.8.0 -- /usr/bin/python2 cachedir: .pytest_cache rootdir: /<>/FALCON, inifile: collecting ... collected 5 items falcon_kit/functional.py::falcon_kit.functional.choose_cat_fasta PASSED falcon_kit/functional.py::falcon_kit.functional.first_block_las PASSED falcon_kit/functional.py::falcon_kit.functional.num2int PASSED falcon_kit/functional.py::falcon_kit.functional.parse_2columns_of_ints PASSED falcon_kit/functional.py::falcon_kit.functional.weighted_average PASSED generated xml file: /<>/FALCON/test.doctest.xml - =========================== 5 passed in 0.02 seconds =========================== cp -f test.basic.xml nose.basic.xml cp -f test.doctest.xml nose.doctest.xml make[2]: Leaving directory '/<>/FALCON' PATH=/<>/inst/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games /usr/bin/make test make[2]: Entering directory '/<>' /usr/bin/make -C ./FALCON-make/ test make[3]: Entering directory '/<>/FALCON-make' /usr/bin/make -C /<>/FALCON-examples test make[4]: Entering directory '/<>/FALCON-examples' /usr/bin/make run-synth0 make[5]: Entering directory '/<>/FALCON-examples' cd run/synth0; rm -rf 0-rawreads/ 1-preads_ovl/ 2-asm-falcon/; ls -l; fc_run.py fc_run.cfg logging.ini total 40 -rwxr-xr-x 1 buildd buildd 1067 Dec 16 2017 check.py drwxr-xr-x 3 buildd buildd 4096 Dec 16 2017 data -rw-r--r-- 1 buildd buildd 1611 Dec 16 2017 fc_preads.cfg -rw-r--r-- 1 buildd buildd 1631 Dec 16 2017 fc_run.cfg -rw-r--r-- 1 buildd buildd 28 Dec 16 2017 input.fofn -rw-r--r-- 1 buildd buildd 461 Dec 16 2017 logging.ini -rw-r--r-- 1 buildd buildd 770 Dec 16 2017 logging.json -rw-r--r-- 1 buildd buildd 1026 Dec 16 2017 logging.many.ini -rw-r--r-- 1 buildd buildd 332 Dec 16 2017 makefile -rw-r--r-- 1 buildd buildd 56 Dec 16 2017 preads.fofn [4369]$('lfs setstripe -c 12 /<>/FALCON-examples/run/synth0') sh: 1: lfs: not found [4369]WARNING: Call 'lfs setstripe -c 12 /<>/FALCON-examples/run/synth0' returned 32512. 2019-01-08 17:32:06,753[INFO] Setup logging from file "logging.ini". 2019-01-08 17:32:06,753[INFO] fc_run started with configuration fc_run.cfg /<>/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg/falcon_kit/run_support.py:172: UserWarning: Deprecated setting in config: 'pa_concurrent_jobs' -- Prefer da_concurrent_jobs and la_concurrent_jobs separately warnings.warn("Deprecated setting in config: 'pa_concurrent_jobs' -- Prefer da_concurrent_jobs and la_concurrent_jobs separately") /<>/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg/falcon_kit/run_support.py:176: UserWarning: Deprecated setting in config: 'ovlp_concurrent_jobs' -- Prefer pda_concurrent_jobs and pla_concurrent_jobs separately warnings.warn("Deprecated setting in config: 'ovlp_concurrent_jobs' -- Prefer pda_concurrent_jobs and pla_concurrent_jobs separately") 2019-01-08 17:32:06,754[INFO] No target specified, assuming "assembly" as target /<>/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg/falcon_kit/run_support.py:376: UserWarning: Unexpected keys in input config: set(['pa_concurrent_jobs', 'ovlp_concurrent_jobs']) warnings.warn("Unexpected keys in input config: %s" %repr(unused)) 2019-01-08 17:32:06,755[WARNING] In simple_pwatcher_bridge, pwatcher_impl=>/inst/pylib/pypeflow-1.0.0-py2.7.egg/pwatcher/blocking.pyc'> 2019-01-08 17:32:06,755[INFO] In simple_pwatcher_bridge, pwatcher_impl=>/inst/pylib/pypeflow-1.0.0-py2.7.egg/pwatcher/blocking.pyc'> 2019-01-08 17:32:06,755[INFO] job_type='string', job_queue='bash -C ${CMD}', sge_option='-pe smp 8 -q bash -C ${CMD}', use_tmpdir=False, squash=True 2019-01-08 17:32:06,756[INFO] Num unsatisfied: 1, graph: 1 2019-01-08 17:32:06,756[INFO] About to submit: Node(0-rawreads/raw-fofn-abs) 2019-01-08 17:32:06,757[INFO] !chmod +x /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs/run-P8b4477d41db4fc.bash 2019-01-08 17:32:06,763[INFO] Popen: 'bash -C /<>/inst/pylib/pypeflow-1.0.0-py2.7.egg/pwatcher/mains/job_start.sh' 2019-01-08 17:32:06,765[INFO] sleep 0.1s executable=${PYPEFLOW_JOB_START_SCRIPT} + executable=/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs/run-P8b4477d41db4fc.bash timeout=${PYPEFLOW_JOB_START_TIMEOUT:-60} # wait 60s by default + timeout=60 # Wait up to timeout seconds for the executable to become "executable", # then exec. #timeleft = int(timeout) while [[ ! -x "${executable}" ]]; do if [[ "${timeout}" == "0" ]]; then echo "timed out waiting for (${executable})" exit 77 fi echo "not executable: '${executable}', waiting ${timeout}s" sleep 1 timeout=$((timeout-1)) done + [[ ! -x /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs/run-P8b4477d41db4fc.bash ]] bash ${executable} + bash /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs/run-P8b4477d41db4fc.bash + '[' '!' -d /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs ']' + cd /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs + eval '/bin/bash run.sh' ++ /bin/bash run.sh cd /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs + cd /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs bash task.sh + bash task.sh bos02-s390x-016 APT_CONFIG=/var/lib/sbuild/apt.conf CC=gcc CFLAGS=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2 CXX=g++ CXXFLAGS=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security DEB_BUILD_ARCH=s390x DEB_BUILD_ARCH_ABI=base DEB_BUILD_ARCH_BITS=64 DEB_BUILD_ARCH_CPU=s390x DEB_BUILD_ARCH_ENDIAN=big DEB_BUILD_ARCH_LIBC=gnu DEB_BUILD_ARCH_OS=linux DEB_BUILD_GNU_CPU=s390x DEB_BUILD_GNU_SYSTEM=linux-gnu DEB_BUILD_GNU_TYPE=s390x-linux-gnu DEB_BUILD_MULTIARCH=s390x-linux-gnu DEB_BUILD_OPTIONS=noautodbgsym parallel=4 DEB_HOST_ARCH=s390x DEB_HOST_ARCH_ABI=base DEB_HOST_ARCH_BITS=64 DEB_HOST_ARCH_CPU=s390x DEB_HOST_ARCH_ENDIAN=big DEB_HOST_ARCH_LIBC=gnu DEB_HOST_ARCH_OS=linux DEB_HOST_GNU_CPU=s390x DEB_HOST_GNU_SYSTEM=linux-gnu DEB_HOST_GNU_TYPE=s390x-linux-gnu DEB_HOST_MULTIARCH=s390x-linux-gnu DEB_RULES_REQUIRES_ROOT=binary-targets DEB_TARGET_ARCH=s390x DEB_TARGET_ARCH_ABI=base DEB_TARGET_ARCH_BITS=64 DEB_TARGET_ARCH_CPU=s390x DEB_TARGET_ARCH_ENDIAN=big DEB_TARGET_ARCH_LIBC=gnu DEB_TARGET_ARCH_OS=linux DEB_TARGET_GNU_CPU=s390x DEB_TARGET_GNU_SYSTEM=linux-gnu DEB_TARGET_GNU_TYPE=s390x-linux-gnu DEB_TARGET_MULTIARCH=s390x-linux-gnu DH_INTERNAL_BUILDFLAGS=1 DH_INTERNAL_OPTIONS=-a DH_INTERNAL_OVERRIDE=dh_auto_test FALCON_INSTALL_RULE=install FALCON_PREFIX=/<>/inst FALCON_WORKSPACE=/<> FCFLAGS=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong FFLAGS=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong GCJFLAGS=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LDFLAGS=-Wl,-Bsymbolic-functions -Wl,-z,relro LOGNAME=buildd MAKEFLAGS=w MAKELEVEL=6 MFLAGS=-w OBJCFLAGS=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security OBJCXXFLAGS=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security OLDPWD=/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs PATH=/<>/inst/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PERL_USE_UNSAFE_INC=1 PWD=/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs PYPEFLOW_JOB_START_SCRIPT=/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs/run-P8b4477d41db4fc.bash PYPEFLOW_JOB_START_TIMEOUT=60 PYTHONPATH=/<>/inst/pylib:/<>/inst/pylib: SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-15814010 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15814010 SCHROOT_COMMAND=dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15814010 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh SHLVL=4 SOURCE_DATE_EPOCH=1513450337 TERM=unknown USER=buildd V=1 _=/usr/bin/env /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs 2019-01-08 17:32:06,805 - root - DEBUG - Running "/<>/inst/pylib/pypeflow-1.0.0-py2.7.egg/pypeflow/do_task.py /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs/task.json" 2019-01-08 17:32:06,806 - root - DEBUG - Checking existence of '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs/task.json' with timeout=60 2019-01-08 17:32:06,806 - root - DEBUG - Loading JSON from '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs/task.json' 2019-01-08 17:32:06,806 - root - DEBUG - {u'inputs': {u'i_fofn': u'/<>/FALCON-examples/run/synth0/input.fofn'}, u'outputs': {u'o_fofn': u'input.fofn'}, u'parameters': {}, u'python_function': u'falcon_kit.pype_tasks.task_make_fofn_abs_raw'} 2019-01-08 17:32:06,806 - root - DEBUG - CD: '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs' <- '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs' 2019-01-08 17:32:06,806 - root - DEBUG - Checking existence of u'/<>/FALCON-examples/run/synth0/input.fofn' with timeout=60 2019-01-08 17:32:06,816 - root - DEBUG - CD: '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs' <- '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs' 2019-01-08 17:32:06,816 - falcon_kit.run_support - DEBUG - CD: u'/<>/FALCON-examples/run/synth0' <- '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs' 2019-01-08 17:32:06,816 - falcon_kit.run_support - DEBUG - CD: u'/<>/FALCON-examples/run/synth0' -> '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs' 2019-01-08 17:32:06,817 - pypeflow.do_support - INFO - !/bin/bash -vex noop.sh echo NOOP raw + echo NOOP raw NOOP raw 2019-01-08 17:32:06,818 - root - DEBUG - CD: '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs' -> '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs' 2019-01-08 17:32:06,818 - root - DEBUG - Checking existence of u'input.fofn' with timeout=60 2019-01-08 17:32:06,818 - root - DEBUG - CD: '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs' -> '/<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs' real 0m0.051s user 0m0.036s sys 0m0.014s touch /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs/run.sh.done + touch /<>/FALCON-examples/run/synth0/0-rawreads/raw-fofn-abs/run.sh.done + finish + echo 'finish code: 0' finish code: 0 2019-01-08 17:32:06,865[INFO] recently_satisfied: set([Node(0-rawreads/raw-fofn-abs)]) 2019-01-08 17:32:06,865[INFO] Num satisfied in this iteration: 1 2019-01-08 17:32:06,865[ERROR] Noop. We cannot kill blocked threads. Hopefully, everything will die on SIGTERM. Traceback (most recent call last): File "/<>/inst/bin/fc_run.py", line 4, in __import__('pkg_resources').run_script('falcon-kit==0.7', 'fc_run.py') File "/usr/lib/python2.7/dist-packages/pkg_resources/__init__.py", line 664, in run_script self.require(requires)[0].run_script(script_name, ns) File "/usr/lib/python2.7/dist-packages/pkg_resources/__init__.py", line 1444, in run_script exec(code, namespace, namespace) File "/<>/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg/EGG-INFO/scripts/fc_run.py", line 5, in main(sys.argv) File "/<>/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg/falcon_kit/mains/run1.py", line 466, in main main1(argv[0], args.config, args.logger) File "/<>/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg/falcon_kit/mains/run1.py", line 137, in main1 input_fofn_plf=input_fofn_plf, File "/<>/inst/pylib/falcon_kit-0.7-py2.7-linux-s390x.egg/falcon_kit/mains/run1.py", line 173, in run wf.refreshTargets([fofn_abs_task]) File "/<>/inst/pylib/pypeflow-1.0.0-py2.7.egg/pypeflow/simple_pwatcher_bridge.py", line 226, in refreshTargets self._refreshTargets(updateFreq, exitOnFailure) File "/<>/inst/pylib/pypeflow-1.0.0-py2.7.egg/pypeflow/simple_pwatcher_bridge.py", line 284, in _refreshTargets ready.update(find_next_ready_and_remove(unsatg, node)) File "/<>/inst/pylib/pypeflow-1.0.0-py2.7.egg/pypeflow/simple_pwatcher_bridge.py", line 177, in find_next_ready_and_remove for n in g.successors_iter(node): AttributeError: 'DiGraph' object has no attribute 'successors_iter' make[5]: *** [makefile:4: run-synth0] Error 1 make[5]: Leaving directory '/<>/FALCON-examples' make[4]: *** [makefile:21: full-test] Error 2 make[4]: Leaving directory '/<>/FALCON-examples' make[3]: *** [makefile:67: test] Error 2 make[3]: Leaving directory '/<>/FALCON-make' make[2]: *** [makefile:22: test] Error 2 make[2]: Leaving directory '/<>' make[1]: *** [debian/rules:32: integration-tests] Error 2 make[1]: Leaving directory '/<>' make: *** [debian/rules:14: build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 20190108-1732 Finished -------- E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: s390x Build-Space: 45184 Build-Time: 22 Distribution: disco Fail-Stage: build Host Architecture: s390x Install-Time: 16 Job: falcon_1.8.8-1ubuntu1.dsc Machine Architecture: s390x Package: falcon Package-Time: 39 Source-Version: 1.8.8-1ubuntu1 Space: 45184 Status: attempted Version: 1.8.8-1ubuntu1 -------------------------------------------------------------------------------- Finished at 20190108-1732 Build needed 00:00:39, 45184k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=disco --arch=s390x PACKAGEBUILD-15814010 Scanning for processes to kill in build PACKAGEBUILD-15814010