https://launchpad.net/ubuntu/+source/fast5/0.6.5-1build2/+build/15604647 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux lgw01-amd64-042 4.4.0-138-generic #164-Ubuntu SMP Tue Oct 2 17:16:02 UTC 2018 x86_64 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_1:2.7.4-0ubuntu1.5 dpkg-dev_1.18.4ubuntu1.5 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 3 Nov 13:10:11 ntpdate[1823]: adjust time server 10.211.37.1 offset 0.070295 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=disco --arch=i386 PACKAGEBUILD-15604647 /home/buildd/filecache-default/727e394105280e93a16c79dcca0079cc298d61c4 Creating target for build PACKAGEBUILD-15604647 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=disco --arch=i386 PACKAGEBUILD-15604647 Starting target for build PACKAGEBUILD-15604647 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=disco --arch=i386 PACKAGEBUILD-15604647 'deb http://ftpmaster.internal/ubuntu disco main universe' 'deb http://ftpmaster.internal/ubuntu disco-security main universe' 'deb http://ftpmaster.internal/ubuntu disco-updates main universe' 'deb http://ftpmaster.internal/ubuntu disco-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-15604647 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=disco --arch=i386 PACKAGEBUILD-15604647 Updating target for build PACKAGEBUILD-15604647 Get:1 http://ftpmaster.internal/ubuntu disco InRelease [243 kB] Get:2 http://ftpmaster.internal/ubuntu disco-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu disco-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed InRelease [93.2 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main i386 Packages [1007 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main Translation-en [513 kB] Get:7 http://ftpmaster.internal/ubuntu disco/universe i386 Packages [8732 kB] Get:8 http://ftpmaster.internal/ubuntu disco/universe Translation-en [5057 kB] Get:9 http://ftpmaster.internal/ubuntu disco-proposed/main i386 Packages [76.9 kB] Get:10 http://ftpmaster.internal/ubuntu disco-proposed/main Translation-en [46.6 kB] Get:11 http://ftpmaster.internal/ubuntu disco-proposed/universe i386 Packages [328 kB] Get:12 http://ftpmaster.internal/ubuntu disco-proposed/universe Translation-en [202 kB] Fetched 16.4 MB in 14s (1182 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libgdbm5 libperl5.26 perl-modules-5.26 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libgdbm6 libperl5.28 perl-modules-5.28 The following packages will be upgraded: base-files binutils binutils-common binutils-i686-linux-gnu cpp cpp-8 dmsetup g++ g++-8 gcc gcc-8 gcc-8-base libapparmor1 libasan5 libatomic1 libaudit-common libaudit1 libbinutils libcap-ng0 libcc1-0 libdevmapper1.02.1 libgcc-8-dev libgcc1 libgdbm-compat4 libgomp1 libitm1 libkmod2 libmpx2 libquadmath0 libseccomp2 libselinux1 libstdc++-8-dev libstdc++6 libubsan1 linux-libc-dev perl perl-base tzdata 38 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 42.1 MB of archives. After this operation, 42.8 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu disco/main i386 base-files i386 10.1ubuntu8 [60.2 kB] Get:2 http://ftpmaster.internal/ubuntu disco-proposed/main i386 perl-modules-5.28 all 5.28.0-3 [2818 kB] Get:3 http://ftpmaster.internal/ubuntu disco-proposed/main i386 libgdbm6 i386 1.18.1-1 [32.1 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed/main i386 libgdbm-compat4 i386 1.18.1-1 [6704 B] Get:5 http://ftpmaster.internal/ubuntu disco-proposed/main i386 libperl5.28 i386 5.28.0-3 [3436 kB] Get:6 http://ftpmaster.internal/ubuntu disco-proposed/main i386 perl i386 5.28.0-3 [204 kB] Get:7 http://ftpmaster.internal/ubuntu disco-proposed/main i386 perl-base i386 5.28.0-3 [1600 kB] Get:8 http://ftpmaster.internal/ubuntu disco/main i386 libquadmath0 i386 8.2.0-9ubuntu1 [208 kB] Get:9 http://ftpmaster.internal/ubuntu disco/main i386 libubsan1 i386 8.2.0-9ubuntu1 [138 kB] Get:10 http://ftpmaster.internal/ubuntu disco/main i386 libitm1 i386 8.2.0-9ubuntu1 [30.8 kB] Get:11 http://ftpmaster.internal/ubuntu disco/main i386 libasan5 i386 8.2.0-9ubuntu1 [375 kB] Get:12 http://ftpmaster.internal/ubuntu disco/main i386 gcc-8-base i386 8.2.0-9ubuntu1 [18.6 kB] Get:13 http://ftpmaster.internal/ubuntu disco/main i386 libstdc++6 i386 8.2.0-9ubuntu1 [430 kB] Get:14 http://ftpmaster.internal/ubuntu disco/main i386 libgomp1 i386 8.2.0-9ubuntu1 [80.7 kB] Get:15 http://ftpmaster.internal/ubuntu disco/main i386 libatomic1 i386 8.2.0-9ubuntu1 [9604 B] Get:16 http://ftpmaster.internal/ubuntu disco/main i386 libmpx2 i386 8.2.0-9ubuntu1 [13.0 kB] Get:17 http://ftpmaster.internal/ubuntu disco/main i386 cpp-8 i386 8.2.0-9ubuntu1 [7537 kB] Get:18 http://ftpmaster.internal/ubuntu disco/main i386 libcc1-0 i386 8.2.0-9ubuntu1 [41.9 kB] Get:19 http://ftpmaster.internal/ubuntu disco/main i386 gcc-8 i386 8.2.0-9ubuntu1 [8330 kB] Get:20 http://ftpmaster.internal/ubuntu disco/main i386 g++-8 i386 8.2.0-9ubuntu1 [8444 kB] Get:21 http://ftpmaster.internal/ubuntu disco/main i386 libstdc++-8-dev i386 8.2.0-9ubuntu1 [1586 kB] Get:22 http://ftpmaster.internal/ubuntu disco/main i386 libgcc-8-dev i386 8.2.0-9ubuntu1 [2299 kB] Get:23 http://ftpmaster.internal/ubuntu disco/main i386 libgcc1 i386 1:8.2.0-9ubuntu1 [48.1 kB] Get:24 http://ftpmaster.internal/ubuntu disco/main i386 libbinutils i386 2.31.1-7ubuntu1 [518 kB] Get:25 http://ftpmaster.internal/ubuntu disco/main i386 binutils-common i386 2.31.1-7ubuntu1 [194 kB] Get:26 http://ftpmaster.internal/ubuntu disco/main i386 binutils i386 2.31.1-7ubuntu1 [3392 B] Get:27 http://ftpmaster.internal/ubuntu disco/main i386 binutils-i686-linux-gnu i386 2.31.1-7ubuntu1 [1985 kB] Get:28 http://ftpmaster.internal/ubuntu disco-proposed/main i386 libaudit-common all 1:2.8.3-1ubuntu3 [4068 B] Get:29 http://ftpmaster.internal/ubuntu disco/main i386 libcap-ng0 i386 0.7.9-1build1 [11.1 kB] Get:30 http://ftpmaster.internal/ubuntu disco-proposed/main i386 libaudit1 i386 1:2.8.3-1ubuntu3 [40.0 kB] Get:31 http://ftpmaster.internal/ubuntu disco-proposed/main i386 libselinux1 i386 2.8-1build2 [73.5 kB] Get:32 http://ftpmaster.internal/ubuntu disco-proposed/main i386 libseccomp2 i386 2.3.3-3ubuntu2 [35.6 kB] Get:33 http://ftpmaster.internal/ubuntu disco-proposed/main i386 libdevmapper1.02.1 i386 2:1.02.145-4.1ubuntu4 [125 kB] Get:34 http://ftpmaster.internal/ubuntu disco-proposed/main i386 dmsetup i386 2:1.02.145-4.1ubuntu4 [70.4 kB] Get:35 http://ftpmaster.internal/ubuntu disco-proposed/main i386 libapparmor1 i386 2.12-4ubuntu10 [31.3 kB] Get:36 http://ftpmaster.internal/ubuntu disco-proposed/main i386 libkmod2 i386 25-1ubuntu1.1 [47.7 kB] Get:37 http://ftpmaster.internal/ubuntu disco/main i386 tzdata all 2018g-1 [188 kB] Get:38 http://ftpmaster.internal/ubuntu disco/main i386 g++ i386 4:8.2.0-2ubuntu2 [1616 B] Get:39 http://ftpmaster.internal/ubuntu disco/main i386 gcc i386 4:8.2.0-2ubuntu2 [5272 B] Get:40 http://ftpmaster.internal/ubuntu disco/main i386 cpp i386 4:8.2.0-2ubuntu2 [27.6 kB] Get:41 http://ftpmaster.internal/ubuntu disco-proposed/main i386 linux-libc-dev i386 4.18.0-11.12 [1040 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 42.1 MB in 10s (4372 kB/s) (Reading database ... 12644 files and directories currently installed.) Preparing to unpack .../base-files_10.1ubuntu8_i386.deb ... Unpacking base-files (10.1ubuntu8) over (10.1ubuntu7) ... Setting up base-files (10.1ubuntu8) ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... (Reading database ... 12644 files and directories currently installed.) Preparing to unpack .../0-perl_5.28.0-3_i386.deb ... Unpacking perl (5.28.0-3) over (5.26.2-7) ... Selecting previously unselected package perl-modules-5.28. Preparing to unpack .../1-perl-modules-5.28_5.28.0-3_all.deb ... Unpacking perl-modules-5.28 (5.28.0-3) ... Selecting previously unselected package libgdbm6:i386. Preparing to unpack .../2-libgdbm6_1.18.1-1_i386.deb ... Unpacking libgdbm6:i386 (1.18.1-1) ... Preparing to unpack .../3-libgdbm-compat4_1.18.1-1_i386.deb ... Unpacking libgdbm-compat4:i386 (1.18.1-1) over (1.14.1-6) ... Selecting previously unselected package libperl5.28:i386. Preparing to unpack .../4-libperl5.28_5.28.0-3_i386.deb ... Unpacking libperl5.28:i386 (5.28.0-3) ... Preparing to unpack .../5-perl-base_5.28.0-3_i386.deb ... Unpacking perl-base (5.28.0-3) over (5.26.2-7) ... Setting up perl-base (5.28.0-3) ... (Reading database ... 14533 files and directories currently installed.) Preparing to unpack .../libquadmath0_8.2.0-9ubuntu1_i386.deb ... Unpacking libquadmath0:i386 (8.2.0-9ubuntu1) over (8.2.0-7ubuntu1) ... Preparing to unpack .../libubsan1_8.2.0-9ubuntu1_i386.deb ... Unpacking libubsan1:i386 (8.2.0-9ubuntu1) over (8.2.0-7ubuntu1) ... Preparing to unpack .../libitm1_8.2.0-9ubuntu1_i386.deb ... Unpacking libitm1:i386 (8.2.0-9ubuntu1) over (8.2.0-7ubuntu1) ... Preparing to unpack .../libasan5_8.2.0-9ubuntu1_i386.deb ... Unpacking libasan5:i386 (8.2.0-9ubuntu1) over (8.2.0-7ubuntu1) ... Preparing to unpack .../gcc-8-base_8.2.0-9ubuntu1_i386.deb ... Unpacking gcc-8-base:i386 (8.2.0-9ubuntu1) over (8.2.0-7ubuntu1) ... Setting up gcc-8-base:i386 (8.2.0-9ubuntu1) ... (Reading database ... 14533 files and directories currently installed.) Preparing to unpack .../libstdc++6_8.2.0-9ubuntu1_i386.deb ... Unpacking libstdc++6:i386 (8.2.0-9ubuntu1) over (8.2.0-7ubuntu1) ... Setting up libstdc++6:i386 (8.2.0-9ubuntu1) ... (Reading database ... 14533 files and directories currently installed.) Preparing to unpack .../0-libgomp1_8.2.0-9ubuntu1_i386.deb ... Unpacking libgomp1:i386 (8.2.0-9ubuntu1) over (8.2.0-7ubuntu1) ... Preparing to unpack .../1-libatomic1_8.2.0-9ubuntu1_i386.deb ... Unpacking libatomic1:i386 (8.2.0-9ubuntu1) over (8.2.0-7ubuntu1) ... Preparing to unpack .../2-libmpx2_8.2.0-9ubuntu1_i386.deb ... Unpacking libmpx2:i386 (8.2.0-9ubuntu1) over (8.2.0-7ubuntu1) ... Preparing to unpack .../3-cpp-8_8.2.0-9ubuntu1_i386.deb ... Unpacking cpp-8 (8.2.0-9ubuntu1) over (8.2.0-7ubuntu1) ... Preparing to unpack .../4-libcc1-0_8.2.0-9ubuntu1_i386.deb ... 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Unpacking linux-libc-dev:i386 (4.18.0-11.12) over (4.18.0-10.11) ... Setting up libquadmath0:i386 (8.2.0-9ubuntu1) ... Setting up cpp-8 (8.2.0-9ubuntu1) ... Setting up libgomp1:i386 (8.2.0-9ubuntu1) ... Setting up libatomic1:i386 (8.2.0-9ubuntu1) ... Setting up cpp (4:8.2.0-2ubuntu2) ... Setting up libcc1-0:i386 (8.2.0-9ubuntu1) ... Setting up tzdata (2018g-1) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Nov 3 13:11:26 UTC 2018. Universal Time is now: Sat Nov 3 13:11:26 UTC 2018. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up linux-libc-dev:i386 (4.18.0-11.12) ... Setting up libdevmapper1.02.1:i386 (2:1.02.145-4.1ubuntu4) ... Setting up libkmod2:i386 (25-1ubuntu1.1) ... Setting up libgdbm6:i386 (1.18.1-1) ... Setting up binutils-common:i386 (2.31.1-7ubuntu1) ... Setting up libmpx2:i386 (8.2.0-9ubuntu1) ... Setting up perl-modules-5.28 (5.28.0-3) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up libapparmor1:i386 (2.12-4ubuntu10) ... Setting up dmsetup (2:1.02.145-4.1ubuntu4) ... Setting up libgdbm-compat4:i386 (1.18.1-1) ... Setting up libasan5:i386 (8.2.0-9ubuntu1) ... Setting up libitm1:i386 (8.2.0-9ubuntu1) ... Setting up libubsan1:i386 (8.2.0-9ubuntu1) ... Setting up libbinutils:i386 (2.31.1-7ubuntu1) ... Setting up libperl5.28:i386 (5.28.0-3) ... Setting up perl (5.28.0-3) ... Setting up binutils-i686-linux-gnu (2.31.1-7ubuntu1) ... Setting up libgcc-8-dev:i386 (8.2.0-9ubuntu1) ... Setting up binutils (2.31.1-7ubuntu1) ... Setting up libstdc++-8-dev:i386 (8.2.0-9ubuntu1) ... Setting up gcc-8 (8.2.0-9ubuntu1) ... Setting up g++-8 (8.2.0-9ubuntu1) ... Setting up gcc (4:8.2.0-2ubuntu2) ... Setting up g++ (4:8.2.0-2ubuntu2) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-15604647 i386 disco-proposed -c chroot:build-PACKAGEBUILD-15604647 --arch=i386 --dist=disco-proposed --nolog fast5_0.6.5-1build2.dsc Initiating build PACKAGEBUILD-15604647 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-138-generic #164-Ubuntu SMP Tue Oct 2 17:16:02 UTC 2018 i686 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lgw01-amd64-042.buildd +==============================================================================+ | fast5 0.6.5-1build2 (i386) 03 Nov 2018 13:11 | +==============================================================================+ Package: fast5 Version: 0.6.5-1build2 Source Version: 0.6.5-1build2 Distribution: disco-proposed Machine Architecture: amd64 Host Architecture: i386 Build Architecture: i386 I: NOTICE: Log filtering will replace 'build/fast5-Zc5bSo/fast5-0.6.5' with '<>' I: NOTICE: Log filtering will replace 'build/fast5-Zc5bSo' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-15604647/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- fast5_0.6.5-1build2.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-zC0C1t/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-zC0C1t/apt_archive ./ InRelease Get:2 copy:/<>/resolver-zC0C1t/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-zC0C1t/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-zC0C1t/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-zC0C1t/apt_archive ./ Packages [528 B] Fetched 2861 B in 0s (84.9 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libgdbm5 libperl5.26 perl-modules-5.26 Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-zC0C1t/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 ... 14533 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_i386.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 11), dh-python, libhdf5-dev, libboost-python-dev, python-all-dev, python-setuptools, python3-all-dev, python3-setuptools, cython, cython3 Filtered Build-Depends: debhelper (>= 11), dh-python, libhdf5-dev, libboost-python-dev, python-all-dev, python-setuptools, python3-all-dev, python3-setuptools, cython, cython3 dpkg-deb: building package 'sbuild-build-depends-fast5-dummy' in '/<>/resolver-jaeLl4/apt_archive/sbuild-build-depends-fast5-dummy.deb'. Ign:1 copy:/<>/resolver-jaeLl4/apt_archive ./ InRelease Get:2 copy:/<>/resolver-jaeLl4/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-jaeLl4/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-jaeLl4/apt_archive ./ Sources [259 B] Get:5 copy:/<>/resolver-jaeLl4/apt_archive ./ Packages [574 B] Fetched 2952 B in 0s (62.3 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install fast5 build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.26 perl-modules-5.26 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cython cython3 debhelper dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libboost-python-dev libboost-python1.67-dev libboost-python1.67.0 libboost1.67-dev libbsd0 libcroco3 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libhdf5-100 libhdf5-cpp-100 libhdf5-dev libicu60 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libmagic-mgc libmagic1 libmpdec2 libpipeline1 libpython-all-dev libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.7 libpython3.7-dev libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libsz2 libtimedate-perl libtool libxml2 m4 man-db mime-support po-debconf python python-all python-all-dev python-dev python-minimal python-pkg-resources python-setuptools python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal python3 python3-all python3-all-dev python3-dev python3-distutils python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3.7 python3.7-dev python3.7-minimal zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation cython-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libboost1.67-doc gccxml libboost-atomic1.67-dev libboost-chrono1.67-dev libboost-container1.67-dev libboost-context1.67-dev libboost-coroutine1.67-dev libboost-date-time1.67-dev libboost-exception1.67-dev libboost-fiber1.67-dev libboost-filesystem1.67-dev libboost-graph1.67-dev libboost-graph-parallel1.67-dev libboost-iostreams1.67-dev libboost-locale1.67-dev libboost-log1.67-dev libboost-math1.67-dev libboost-mpi1.67-dev libboost-mpi-python1.67-dev libboost-numpy1.67-dev libboost-program-options1.67-dev libboost-random1.67-dev libboost-regex1.67-dev libboost-serialization1.67-dev libboost-signals1.67-dev libboost-stacktrace1.67-dev libboost-system1.67-dev libboost-test1.67-dev libboost-thread1.67-dev libboost-timer1.67-dev libboost-type-erasure1.67-dev libboost-wave1.67-dev libboost1.67-tools-dev libmpfrc++-dev libntl-dev libhdf5-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python-doc python-tk python-setuptools-doc python2-doc python2.7-doc binfmt-support python3-doc python3-tk python3-venv python3.7-venv python3.7-doc Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cython cython3 debhelper dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libboost-python-dev libboost-python1.67-dev libboost-python1.67.0 libboost1.67-dev libbsd0 libcroco3 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libhdf5-100 libhdf5-cpp-100 libhdf5-dev libicu60 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libmagic-mgc libmagic1 libmpdec2 libpipeline1 libpython-all-dev libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.7 libpython3.7-dev libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libsz2 libtimedate-perl libtool libxml2 m4 man-db mime-support po-debconf python python-all python-all-dev python-dev python-minimal python-pkg-resources python-setuptools python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal python3 python3-all python3-all-dev python3-dev python3-distutils python3-lib2to3 python3-minimal python3-pkg-resources python3-setuptools python3.7 python3.7-dev python3.7-minimal sbuild-build-depends-fast5-dummy zlib1g-dev 0 upgraded, 98 newly installed, 0 to remove and 0 not upgraded. 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Not building database; man-db/auto-update is not 'true'. Setting up libpython2-stdlib:i386 (2.7.15-3) ... Setting up libpython2.7-dev:i386 (2.7.15-4ubuntu4) ... Setting up python2.7-dev (2.7.15-4ubuntu4) ... Setting up libpython3-dev:i386 (3.7.1-1ubuntu1) ... Setting up libtool (2.4.6-4) ... Setting up libpython3-stdlib:i386 (3.7.1-1ubuntu1) ... Setting up libhdf5-cpp-100:i386 (1.10.0-patch1+docs-4build2) ... Setting up po-debconf (1.0.20) ... Setting up python3 (3.7.1-1ubuntu1) ... Setting up libhdf5-dev (1.10.0-patch1+docs-4build2) ... update-alternatives: using /usr/lib/i386-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/i386-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up python3-pkg-resources (40.2.0-1) ... Setting up python3.7-dev (3.7.1-1) ... Setting up python2 (2.7.15-3) ... Setting up libpython2-dev:i386 (2.7.15-3) ... Setting up libpython-stdlib:i386 (2.7.15-3) ... Setting up libpython3-all-dev:i386 (3.7.1-1ubuntu1) ... Setting up python2-dev (2.7.15-3) ... Setting up cython3 (0.28.4-1) ... Setting up python3-lib2to3 (3.7.1-1) ... Setting up python3-distutils (3.7.1-1) ... Setting up python (2.7.15-3) ... Setting up libpython-dev:i386 (2.7.15-3) ... Setting up python-dev (2.7.15-3) ... Setting up libpython-all-dev:i386 (2.7.15-3) ... Setting up python-pkg-resources (40.2.0-1) ... Setting up cython (0.28.4-1) ... Setting up python3-setuptools (40.2.0-1) ... Setting up dh-python (3.20180927ubuntu1) ... Setting up python-all (2.7.15-3) ... Setting up python-setuptools (40.2.0-1) ... Setting up python3-dev (3.7.1-1ubuntu1) ... Setting up python-all-dev (2.7.15-3) ... Setting up python3-all (3.7.1-1ubuntu1) ... Setting up libboost-python1.67-dev (1.67.0-8) ... Setting up python3-all-dev (3.7.1-1ubuntu1) ... Setting up libboost-python-dev (1.67.0.0ubuntu1) ... Setting up dh-autoreconf (19) ... Setting up debhelper (11.3.2ubuntu1) ... Setting up sbuild-build-depends-fast5-dummy (0.invalid.0) ... Setting up dh-strip-nondeterminism (0.042-1) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-138-generic amd64 (i686) Toolchain package versions: binutils_2.31.1-7ubuntu1 dpkg-dev_1.19.0.5ubuntu5 g++-8_8.2.0-9ubuntu1 gcc-8_8.2.0-9ubuntu1 libc6-dev_2.28-0ubuntu1 libstdc++-8-dev_8.2.0-9ubuntu1 libstdc++6_8.2.0-9ubuntu1 linux-libc-dev_4.18.0-11.12 Package versions: adduser_3.117ubuntu1 advancecomp_2.1-1 apt_1.7.0 autoconf_2.69-11 automake_1:1.16.1-3 autopoint_0.19.8.1-8 autotools-dev_20180224.1 base-files_10.1ubuntu8 base-passwd_3.5.45 bash_4.4.18-2ubuntu3 binutils_2.31.1-7ubuntu1 binutils-common_2.31.1-7ubuntu1 binutils-i686-linux-gnu_2.31.1-7ubuntu1 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_8.2.0-9ubuntu1 cython_0.28.4-1 cython3_0.28.4-1 dash_0.5.8-2.10 debconf_1.5.69 debhelper_11.3.2ubuntu1 debianutils_4.8.6 dh-autoreconf_19 dh-python_3.20180927ubuntu1 dh-strip-nondeterminism_0.042-1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu4 dpkg_1.19.0.5ubuntu5 dpkg-dev_1.19.0.5ubuntu5 dwz_0.12-2 e2fslibs_1.44.4-2 e2fsprogs_1.44.4-2 fakeroot_1.22-2ubuntu1 fdisk_2.32-0.1ubuntu2 file_1:5.34-2 findutils_4.6.0+git+20180808-2 g++_4:8.2.0-2ubuntu2 g++-8_8.2.0-9ubuntu1 gcc_4:8.2.0-2ubuntu2 gcc-8_8.2.0-9ubuntu1 gcc-8-base_8.2.0-9ubuntu1 gettext_0.19.8.1-8 gettext-base_0.19.8.1-8 gpg_2.2.8-3ubuntu1 gpg-agent_2.2.8-3ubuntu1 gpgconf_2.2.8-3ubuntu1 gpgv_2.2.8-3ubuntu1 grep_3.1-2ubuntu1 groff-base_1.22.3-10 gzip_1.6-5ubuntu2 hdf5-helpers_1.10.0-patch1+docs-4build2 hostname_3.20 init_1.54 init-system-helpers_1.54 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libaec-dev_1.0.2-1 libaec0_1.0.2-1 libapparmor1_2.12-4ubuntu10 libapt-pkg5.0_1.7.0 libarchive-zip-perl_1.63-1 libargon2-1_0~20171227-0.1 libasan5_8.2.0-9ubuntu1 libassuan0_2.5.1-2 libatomic1_8.2.0-9ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.3-1ubuntu3 libaudit1_1:2.8.3-1ubuntu3 libbinutils_2.31.1-7ubuntu1 libblkid1_2.32-0.1ubuntu2 libboost-python-dev_1.67.0.0ubuntu1 libboost-python1.67-dev_1.67.0-8 libboost-python1.67.0_1.67.0-8 libboost1.67-dev_1.67.0-8 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_8.2.0-9ubuntu1 libcom-err2_1.44.4-2 libcomerr2_1.44.4-2 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.4-2ubuntu2 libdb5.3_5.3.28+dfsg1-0.1 libdebconfclient0_0.244ubuntu1 libdevmapper1.02.1_2:1.02.145-4.1ubuntu4 libdpkg-perl_1.19.0.5ubuntu5 libelf1_0.170-0.5.0ubuntu1 libexpat1_2.2.6-1 libexpat1-dev_2.2.6-1 libext2fs2_1.44.4-2 libfakeroot_1.22-2ubuntu1 libfdisk1_2.32-0.1ubuntu2 libffi6_3.2.1-8 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libmpx2_8.2.0-9ubuntu1 libncurses6_6.1+20180210-4ubuntu1 libncursesw6_6.1+20180210-4ubuntu1 libnettle6_3.4-1 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 libperl5.26_5.26.2-7 libperl5.28_5.28.0-3 libpipeline1_1.5.0-1 libpng16-16_1.6.34-2 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_2.7.15-4ubuntu4 libpython2.7-dev_2.7.15-4ubuntu4 libpython2.7-minimal_2.7.15-4ubuntu4 libpython2.7-stdlib_2.7.15-4ubuntu4 libpython3-all-dev_3.7.1-1ubuntu1 libpython3-dev_3.7.1-1ubuntu1 libpython3-stdlib_3.7.1-1ubuntu1 libpython3.7_3.7.1-1 libpython3.7-dev_3.7.1-1 libpython3.7-minimal_3.7.1-1 libpython3.7-stdlib_3.7.1-1 libquadmath0_8.2.0-9ubuntu1 libreadline7_7.0-5 libseccomp2_2.3.3-3ubuntu2 libselinux1_2.8-1build2 libsemanage-common_2.8-1build1 libsemanage1_2.8-1build1 libsepol1_2.8-1 libsigsegv2_2.12-2 libslang2_2.3.2-1ubuntu1 libsmartcols1_2.32-0.1ubuntu2 libsqlite3-0_3.24.0-1 libss2_1.44.4-2 libssl1.1_1.1.1-1ubuntu2 libstdc++-8-dev_8.2.0-9ubuntu1 libstdc++6_8.2.0-9ubuntu1 libsystemd0_239-7ubuntu10 libsz2_1.0.2-1 libtasn1-6_4.13-3 libtimedate-perl_2.3000-2 libtinfo6_6.1+20180210-4ubuntu1 libtool_2.4.6-4 libubsan1_8.2.0-9ubuntu1 libudev1_239-7ubuntu10 libunistring2_0.9.10-1ubuntu1 libusb-0.1-4_2:0.1.12-32 libuuid1_2.32-0.1ubuntu2 libxml2_2.9.4+dfsg1-7ubuntu2 libzstd1_1.3.5+dfsg-1ubuntu1 linux-libc-dev_4.18.0-11.12 lockfile-progs_0.1.17build1 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-1ubuntu1 make_4.2.1-1.2 man-db_2.8.4-2 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_1.1.1-1ubuntu2 optipng_0.7.6-1.1 passwd_1:4.5-1ubuntu1 patch_2.7.6-3 perl_5.28.0-3 perl-base_5.28.0-3 perl-modules-5.26_5.26.2-7 perl-modules-5.28_5.28.0-3 pinentry-curses_1.1.0-1build2 pkgbinarymangler_143 po-debconf_1.0.20 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-dev_2.7.15-3 python-minimal_2.7.15-3 python-pkg-resources_40.2.0-1 python-setuptools_40.2.0-1 python2_2.7.15-3 python2-dev_2.7.15-3 python2-minimal_2.7.15-3 python2.7_2.7.15-4ubuntu4 python2.7-dev_2.7.15-4ubuntu4 python2.7-minimal_2.7.15-4ubuntu4 python3_3.7.1-1ubuntu1 python3-all_3.7.1-1ubuntu1 python3-all-dev_3.7.1-1ubuntu1 python3-dev_3.7.1-1ubuntu1 python3-distutils_3.7.1-1 python3-lib2to3_3.7.1-1 python3-minimal_3.7.1-1ubuntu1 python3-pkg-resources_40.2.0-1 python3-setuptools_40.2.0-1 python3.7_3.7.1-1 python3.7-dev_3.7.1-1 python3.7-minimal_3.7.1-1 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-fast5-dummy_0.invalid.0 sed_4.5-1 sensible-utils_0.0.12 systemd_239-7ubuntu10 systemd-sysv_239-7ubuntu10 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu2 tar_1.30+dfsg-2 tzdata_2018g-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 zlib1g-dev_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Sat Nov 3 12:20:53 2018 UTC gpgv: using RSA key D56571B88A8BBAF140BF63D6BD7EAA60778FA6F5 gpgv: issuer "doko@ubuntu.com" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./fast5_0.6.5-1build2.dsc dpkg-source: info: extracting fast5 in fast5-0.6.5 dpkg-source: info: unpacking fast5_0.6.5.orig.tar.gz dpkg-source: info: unpacking fast5_0.6.5-1build2.debian.tar.xz dpkg-source: info: applying rpath.patch Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-15604647 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15604647 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15604647 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package fast5 dpkg-buildpackage: info: source version 0.6.5-1build2 dpkg-buildpackage: info: source distribution disco dpkg-source --before-build fast5-0.6.5 dpkg-buildpackage: info: host architecture i386 dpkg-source: info: using options from fast5-0.6.5/debian/source/options: --extend-diff-ignore=^[^/]+\.egg-info/|python/fast5/fast5.cpp fakeroot debian/rules clean dh clean --with python2,python3 --buildsystem=pybuild \ --sourcedirectory=python debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' cd src && /usr/bin/make clean make[2]: Entering directory '/<>/src' rm -rf f5ls f5ls-full hdf5-mod f5-mod f5dump f5pack make[2]: Leaving directory '/<>/src' dh_auto_clean I: pybuild base:217: python2.7 setup.py clean Compiling fast5/fast5.pyx because it changed. [1/1] Cythonizing fast5/fast5.pyx running clean removing '/<>/.pybuild/cpython2_2.7_fast5/build' (and everything under it) 'build/bdist.linux-i386' does not exist -- can't clean it 'build/scripts-2.7' does not exist -- can't clean it I: pybuild base:217: python3.7 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.7_fast5/build' (and everything under it) 'build/bdist.linux-i386' does not exist -- can't clean it 'build/scripts-3.7' does not exist -- can't clean it rm -rf python/fast5/fast5.cpp make[1]: Leaving directory '/<>' dh_clean -O--buildsystem=pybuild -O--sourcedirectory=python debian/rules build-arch dh build-arch --with python2,python3 --buildsystem=pybuild \ --sourcedirectory=python dh_update_autotools_config -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_autoreconf -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_auto_configure -a -O--buildsystem=pybuild -O--sourcedirectory=python I: pybuild base:217: python2.7 setup.py config Compiling fast5/fast5.pyx because it changed. [1/1] Cythonizing fast5/fast5.pyx running config I: pybuild base:217: python3.7 setup.py config running config dh_auto_build -a -O--buildsystem=pybuild -O--sourcedirectory=python I: pybuild base:217: /usr/bin/python setup.py build running build running build_ext building 'fast5' extension creating build creating build/temp.linux-i386-2.7 creating build/temp.linux-i386-2.7/fast5 i686-linux-gnu-gcc -pthread -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../include -I../src -I/usr/include/python2.7 -c fast5/fast5.cpp -o build/temp.linux-i386-2.7/fast5/fast5.o -std=c++11 -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++ fast5/fast5.cpp:1609:114: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_6Logger_1set_levels_from_options = {"set_levels_from_options", (PyCFunction)__pyx_pw_5fast5_6Logger_1set_levels_from_options, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:2769:93: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_4File_15is_valid_file = {"is_valid_file", (PyCFunction)__pyx_pw_5fast5_4File_15is_valid_file, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:9957:102: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_1__pyx_unpickle_Logger = {"__pyx_unpickle_Logger", (PyCFunction)__pyx_pw_5fast5_1__pyx_unpickle_Logger, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11560:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"set_levels_from_options", (PyCFunction)__pyx_pw_5fast5_6Logger_1set_levels_from_options, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11653:25: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"open", (PyCFunction)__pyx_pw_5fast5_4File_9open, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11654:27: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"create", (PyCFunction)__pyx_pw_5fast5_4File_11create, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11656:34: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"is_valid_file", (PyCFunction)__pyx_pw_5fast5_4File_15is_valid_file, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11665:37: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_raw_samples", (PyCFunction)__pyx_pw_5fast5_4File_33have_raw_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11668:43: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_samples_params", (PyCFunction)__pyx_pw_5fast5_4File_39get_raw_samples_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11669:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_int_samples", (PyCFunction)__pyx_pw_5fast5_4File_41get_raw_int_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11670:36: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_samples", (PyCFunction)__pyx_pw_5fast5_4File_43get_raw_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11672:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_group", (PyCFunction)__pyx_pw_5fast5_4File_47have_eventdetection_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11673:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_params", (PyCFunction)__pyx_pw_5fast5_4File_49get_eventdetection_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11674:54: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_read_name_list", (PyCFunction)__pyx_pw_5fast5_4File_51get_eventdetection_read_name_list, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11675:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events", (PyCFunction)__pyx_pw_5fast5_4File_53have_eventdetection_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11676:54: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events_unpack", (PyCFunction)__pyx_pw_5fast5_4File_55have_eventdetection_events_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11677:52: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events_pack", (PyCFunction)__pyx_pw_5fast5_4File_57have_eventdetection_events_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11678:53: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_events_params", (PyCFunction)__pyx_pw_5fast5_4File_59get_eventdetection_events_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11679:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_events", (PyCFunction)__pyx_pw_5fast5_4File_61get_eventdetection_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11682:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_group", (PyCFunction)__pyx_pw_5fast5_4File_67have_basecall_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11683:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_strand_group", (PyCFunction)__pyx_pw_5fast5_4File_69have_basecall_strand_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11691:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq", (PyCFunction)__pyx_pw_5fast5_4File_85have_basecall_fastq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11692:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq_unpack", (PyCFunction)__pyx_pw_5fast5_4File_87have_basecall_fastq_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11693:45: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq_pack", (PyCFunction)__pyx_pw_5fast5_4File_89have_basecall_fastq_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11694:39: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_fastq", (PyCFunction)__pyx_pw_5fast5_4File_91get_basecall_fastq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11695:38: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_seq", (PyCFunction)__pyx_pw_5fast5_4File_93have_basecall_seq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11696:37: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_seq", (PyCFunction)__pyx_pw_5fast5_4File_95get_basecall_seq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11697:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_model", (PyCFunction)__pyx_pw_5fast5_4File_97have_basecall_model, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11698:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model_file", (PyCFunction)__pyx_pw_5fast5_4File_99get_basecall_model_file, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11699:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model_params", (PyCFunction)__pyx_pw_5fast5_4File_101get_basecall_model_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11700:39: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model", (PyCFunction)__pyx_pw_5fast5_4File_103get_basecall_model, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11701:41: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events", (PyCFunction)__pyx_pw_5fast5_4File_105have_basecall_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11702:48: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events_unpack", (PyCFunction)__pyx_pw_5fast5_4File_107have_basecall_events_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11703:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events_pack", (PyCFunction)__pyx_pw_5fast5_4File_109have_basecall_events_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11704:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_events_params", (PyCFunction)__pyx_pw_5fast5_4File_111get_basecall_events_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11705:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_events", (PyCFunction)__pyx_pw_5fast5_4File_113get_basecall_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11706:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_alignment", (PyCFunction)__pyx_pw_5fast5_4File_115have_basecall_alignment, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11709:43: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_alignment", (PyCFunction)__pyx_pw_5fast5_4File_121get_basecall_alignment, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11803:24: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"run", (PyCFunction)__pyx_pw_5fast5_11File_Packer_11run, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ i686-linux-gnu-g++ -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-GfxnPT/python2.7-2.7.15=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i386-2.7/fast5/fast5.o -L/usr/lib/i386-linux-gnu/hdf5/serial -lhdf5 -o /<>/.pybuild/cpython2_2.7_fast5/build/fast5.so running build_scripts creating build/scripts-2.7 copying and adjusting bin/f5ls -> build/scripts-2.7 copying and adjusting bin/f5pack -> build/scripts-2.7 changing mode of build/scripts-2.7/f5ls from 664 to 775 changing mode of build/scripts-2.7/f5pack from 664 to 775 I: pybuild base:217: /usr/bin/python3 setup.py build running build running build_ext building 'fast5' extension creating build/temp.linux-i386-3.7 creating build/temp.linux-i386-3.7/fast5 i686-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I../include -I../src -I/usr/include/python3.7m -c fast5/fast5.cpp -o build/temp.linux-i386-3.7/fast5/fast5.o -std=c++11 -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial fast5/fast5.cpp:1609:114: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_6Logger_1set_levels_from_options = {"set_levels_from_options", (PyCFunction)__pyx_pw_5fast5_6Logger_1set_levels_from_options, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:2769:93: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_4File_15is_valid_file = {"is_valid_file", (PyCFunction)__pyx_pw_5fast5_4File_15is_valid_file, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:9957:102: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] static PyMethodDef __pyx_mdef_5fast5_1__pyx_unpickle_Logger = {"__pyx_unpickle_Logger", (PyCFunction)__pyx_pw_5fast5_1__pyx_unpickle_Logger, METH_VARARGS|METH_KEYWORDS, 0}; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11560:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"set_levels_from_options", (PyCFunction)__pyx_pw_5fast5_6Logger_1set_levels_from_options, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11653:25: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"open", (PyCFunction)__pyx_pw_5fast5_4File_9open, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11654:27: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"create", (PyCFunction)__pyx_pw_5fast5_4File_11create, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11656:34: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"is_valid_file", (PyCFunction)__pyx_pw_5fast5_4File_15is_valid_file, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11665:37: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_raw_samples", (PyCFunction)__pyx_pw_5fast5_4File_33have_raw_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11668:43: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_samples_params", (PyCFunction)__pyx_pw_5fast5_4File_39get_raw_samples_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11669:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_int_samples", (PyCFunction)__pyx_pw_5fast5_4File_41get_raw_int_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11670:36: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_raw_samples", (PyCFunction)__pyx_pw_5fast5_4File_43get_raw_samples, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11672:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_group", (PyCFunction)__pyx_pw_5fast5_4File_47have_eventdetection_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11673:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_params", (PyCFunction)__pyx_pw_5fast5_4File_49get_eventdetection_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11674:54: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_read_name_list", (PyCFunction)__pyx_pw_5fast5_4File_51get_eventdetection_read_name_list, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11675:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events", (PyCFunction)__pyx_pw_5fast5_4File_53have_eventdetection_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11676:54: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events_unpack", (PyCFunction)__pyx_pw_5fast5_4File_55have_eventdetection_events_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11677:52: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_eventdetection_events_pack", (PyCFunction)__pyx_pw_5fast5_4File_57have_eventdetection_events_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11678:53: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_events_params", (PyCFunction)__pyx_pw_5fast5_4File_59get_eventdetection_events_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11679:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_eventdetection_events", (PyCFunction)__pyx_pw_5fast5_4File_61get_eventdetection_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11682:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_group", (PyCFunction)__pyx_pw_5fast5_4File_67have_basecall_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11683:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_strand_group", (PyCFunction)__pyx_pw_5fast5_4File_69have_basecall_strand_group, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11691:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq", (PyCFunction)__pyx_pw_5fast5_4File_85have_basecall_fastq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11692:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq_unpack", (PyCFunction)__pyx_pw_5fast5_4File_87have_basecall_fastq_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11693:45: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_fastq_pack", (PyCFunction)__pyx_pw_5fast5_4File_89have_basecall_fastq_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11694:39: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_fastq", (PyCFunction)__pyx_pw_5fast5_4File_91get_basecall_fastq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11695:38: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_seq", (PyCFunction)__pyx_pw_5fast5_4File_93have_basecall_seq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11696:37: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_seq", (PyCFunction)__pyx_pw_5fast5_4File_95get_basecall_seq, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11697:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_model", (PyCFunction)__pyx_pw_5fast5_4File_97have_basecall_model, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11698:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model_file", (PyCFunction)__pyx_pw_5fast5_4File_99get_basecall_model_file, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11699:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model_params", (PyCFunction)__pyx_pw_5fast5_4File_101get_basecall_model_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11700:39: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_model", (PyCFunction)__pyx_pw_5fast5_4File_103get_basecall_model, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11701:41: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events", (PyCFunction)__pyx_pw_5fast5_4File_105have_basecall_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11702:48: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events_unpack", (PyCFunction)__pyx_pw_5fast5_4File_107have_basecall_events_unpack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11703:46: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_events_pack", (PyCFunction)__pyx_pw_5fast5_4File_109have_basecall_events_pack, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11704:47: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_events_params", (PyCFunction)__pyx_pw_5fast5_4File_111get_basecall_events_params, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11705:40: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_events", (PyCFunction)__pyx_pw_5fast5_4File_113get_basecall_events, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11706:44: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"have_basecall_alignment", (PyCFunction)__pyx_pw_5fast5_4File_115have_basecall_alignment, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11709:43: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"get_basecall_alignment", (PyCFunction)__pyx_pw_5fast5_4File_121get_basecall_alignment, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp:11803:24: warning: cast between incompatible function types from ‘PyObject* (*)(PyObject*, PyObject*, PyObject*)’ {aka ‘_object* (*)(_object*, _object*, _object*)’} to ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} [-Wcast-function-type] {"run", (PyCFunction)__pyx_pw_5fast5_11File_Packer_11run, METH_VARARGS|METH_KEYWORDS, 0}, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fast5/fast5.cpp: In function ‘PyObject* __Pyx_PyCFunction_FastCall(PyObject*, PyObject**, Py_ssize_t)’: fast5/fast5.cpp:13068:54: warning: cast between incompatible function types from ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} to ‘_PyCFunctionFastWithKeywords’ {aka ‘_object* (*)(_object*, _object* const*, int, _object*)’} [-Wcast-function-type] return (*((__Pyx_PyCFunctionFastWithKeywords)meth)) (self, args, nargs, NULL); ^~~~ fast5/fast5.cpp:13070:42: warning: cast between incompatible function types from ‘PyCFunction’ {aka ‘_object* (*)(_object*, _object*)’} to ‘_PyCFunctionFast’ {aka ‘_object* (*)(_object*, _object* const*, int)’} [-Wcast-function-type] return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs); ^~~~ i686-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-i386-3.7/fast5/fast5.o -L/usr/lib/i386-linux-gnu/hdf5/serial -lhdf5 -o /<>/.pybuild/cpython3_3.7_fast5/build/fast5.cpython-37m-i386-linux-gnu.so running build_scripts creating build/scripts-3.7 copying and adjusting bin/f5ls -> build/scripts-3.7 copying and adjusting bin/f5pack -> build/scripts-3.7 changing mode of build/scripts-3.7/f5ls from 664 to 775 changing mode of build/scripts-3.7/f5pack from 664 to 775 debian/rules override_dh_auto_test make[1]: Entering directory '/<>' cd src && /usr/bin/make make[2]: Entering directory '/<>/src' g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<>/src/../include -o f5ls f5ls.cpp -L/usr/lib/i386-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/i386-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<>/src/../include -o f5ls-full f5ls-full.cpp -L/usr/lib/i386-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/i386-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<>/src/../include -o hdf5-mod hdf5-mod.cpp -L/usr/lib/i386-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/i386-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl g++ -std=c++11 -O0 -g3 -ggdb -fno-eliminate-unused-debug-types -Wall -Wextra -Wpedantic -isystem /usr/include/hdf5/serial -I /<>/src/../include -o f5-mod f5-mod.cpp -L/usr/lib/i386-linux-gnu/hdf5/serial -Wl,--rpath=/usr/lib/i386-linux-gnu/hdf5/serial -lhdf5 -lpthread -lz -ldl make[2]: Leaving directory '/<>/src' make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch --with python2,python3 --buildsystem=pybuild \ --sourcedirectory=python dh_testroot -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_prep -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_auto_install -a -O--buildsystem=pybuild -O--sourcedirectory=python I: pybuild base:217: /usr/bin/python setup.py install --root /<>/debian/python-fast5 running install running build running build_ext running build_scripts running install_lib creating /<>/debian/python-fast5/usr creating /<>/debian/python-fast5/usr/lib creating /<>/debian/python-fast5/usr/lib/python2.7 creating /<>/debian/python-fast5/usr/lib/python2.7/dist-packages copying /<>/.pybuild/cpython2_2.7_fast5/build/fast5.so -> /<>/debian/python-fast5/usr/lib/python2.7/dist-packages running install_egg_info running egg_info creating fast5.egg-info writing fast5.egg-info/PKG-INFO writing top-level names to fast5.egg-info/top_level.txt writing dependency_links to fast5.egg-info/dependency_links.txt writing manifest file 'fast5.egg-info/SOURCES.txt' reading manifest file 'fast5.egg-info/SOURCES.txt' writing manifest file 'fast5.egg-info/SOURCES.txt' Copying fast5.egg-info to /<>/debian/python-fast5/usr/lib/python2.7/dist-packages/fast5-0.6.2.egg-info Skipping SOURCES.txt running install_scripts creating /<>/debian/python-fast5/usr/bin copying build/scripts-2.7/f5ls -> /<>/debian/python-fast5/usr/bin copying build/scripts-2.7/f5pack -> /<>/debian/python-fast5/usr/bin changing mode of /<>/debian/python-fast5/usr/bin/f5ls to 775 changing mode of /<>/debian/python-fast5/usr/bin/f5pack to 775 I: pybuild base:217: /usr/bin/python3 setup.py install --root /<>/debian/python3-fast5 running install running build running build_ext running build_scripts running install_lib creating /<>/debian/python3-fast5/usr creating /<>/debian/python3-fast5/usr/lib creating /<>/debian/python3-fast5/usr/lib/python3.7 creating /<>/debian/python3-fast5/usr/lib/python3.7/dist-packages copying /<>/.pybuild/cpython3_3.7_fast5/build/fast5.cpython-37m-i386-linux-gnu.so -> /<>/debian/python3-fast5/usr/lib/python3.7/dist-packages running install_egg_info running egg_info writing fast5.egg-info/PKG-INFO writing dependency_links to fast5.egg-info/dependency_links.txt writing top-level names to fast5.egg-info/top_level.txt reading manifest file 'fast5.egg-info/SOURCES.txt' writing manifest file 'fast5.egg-info/SOURCES.txt' Copying fast5.egg-info to /<>/debian/python3-fast5/usr/lib/python3.7/dist-packages/fast5-0.6.2.egg-info Skipping SOURCES.txt running install_scripts creating /<>/debian/python3-fast5/usr/bin copying build/scripts-3.7/f5ls -> /<>/debian/python3-fast5/usr/bin copying build/scripts-3.7/f5pack -> /<>/debian/python3-fast5/usr/bin changing mode of /<>/debian/python3-fast5/usr/bin/f5ls to 775 changing mode of /<>/debian/python3-fast5/usr/bin/f5pack to 775 debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install mkdir -p debian/fast5/usr/bin/ mv debian/python3-fast5/usr/bin/* debian/fast5/usr/bin/ rm -rf debian/python-fast5/usr/bin/ debian/python3-fast5/usr/bin/ make[1]: Leaving directory '/<>' dh_installdocs -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_installchangelogs -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_installexamples -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_python2 -a -O--buildsystem=pybuild -O--sourcedirectory=python I: dh_python2 fs:329: renaming fast5.so to fast5.i386-linux-gnu.so dh_python3 -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_perl -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_link -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_strip_nondeterminism -a -O--buildsystem=pybuild -O--sourcedirectory=python debian/rules override_dh_compress make[1]: Entering directory '/<>' cd src && /usr/bin/make clean make[2]: Entering directory '/<>/src' rm -rf f5ls f5ls-full hdf5-mod f5-mod f5dump f5pack make[2]: Leaving directory '/<>/src' dh_compress -X .cpp -X .hpp make[1]: Leaving directory '/<>' dh_fixperms -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_missing -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_strip -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_makeshlibs -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_shlibdeps -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_installdeb -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_gencontrol -a -O--buildsystem=pybuild -O--sourcedirectory=python dpkg-gencontrol: warning: package python-fast5: unused substitution variable ${python:Provides} dpkg-gencontrol: warning: package python-fast5: unused substitution variable ${python:Versions} dpkg-gencontrol: warning: package python3-fast5: unused substitution variable ${python3:Provides} dpkg-gencontrol: warning: package python3-fast5: unused substitution variable ${python3:Versions} dpkg-gencontrol: warning: package python-fast5: unused substitution variable ${python:Provides} dpkg-gencontrol: warning: package python-fast5: unused substitution variable ${python:Versions} dpkg-gencontrol: warning: package python3-fast5: unused substitution variable ${python3:Provides} dpkg-gencontrol: warning: package python3-fast5: unused substitution variable ${python3:Versions} dh_md5sums -a -O--buildsystem=pybuild -O--sourcedirectory=python dh_builddeb -a -O--buildsystem=pybuild -O--sourcedirectory=python INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 pkgstriptranslations: processing python-fast5 (in debian/python-fast5); do_strip: , oemstrip: pkgstriptranslations: processing python3-fast5 (in debian/python3-fast5); do_strip: , oemstrip: pkgstriptranslations: processing python3-fast5-dbgsym (in debian/.debhelper/python3-fast5/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing python-fast5-dbgsym (in debian/.debhelper/python-fast5/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/python3-fast5/DEBIAN/control, package python3-fast5, directory debian/python3-fast5 INFO: pkgstripfiles: waiting for lock (python3-fast5) ... pkgstripfiles: processing control file: debian/.debhelper/python-fast5/dbgsym-root/DEBIAN/control, package python-fast5-dbgsym, directory debian/.debhelper/python-fast5/dbgsym-root dpkg-deb: building package 'python-fast5-dbgsym' in 'debian/.debhelper/scratch-space/build-python-fast5/python-fast5-dbgsym_0.6.5-1build2_i386.deb'. INFO: pkgstripfiles: waiting for lock (python3-fast5) ... Renaming python-fast5-dbgsym_0.6.5-1build2_i386.deb to python-fast5-dbgsym_0.6.5-1build2_i386.ddeb INFO: pkgstripfiles: waiting for lock (python3-fast5) ... INFO: pkgstripfiles: waiting for lock (python3-fast5) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " INFO: pkgstripfiles: waiting for lock (python3-fast5) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/python-fast5/DEBIAN/control, package python-fast5, directory debian/python-fast5 pkgstripfiles: Truncating usr/share/doc/python-fast5/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package python-fast5 ... pkgstripfiles: No PNG files. INFO: pkgstripfiles: waiting for lock (python3-fast5) ... pkgstripfiles: processing control file: debian/.debhelper/python3-fast5/dbgsym-root/DEBIAN/control, package python3-fast5-dbgsym, directory debian/.debhelper/python3-fast5/dbgsym-root dpkg-deb: building package 'python-fast5' in '../python-fast5_0.6.5-1build2_i386.deb'. dpkg-deb: building package 'python3-fast5-dbgsym' in 'debian/.debhelper/scratch-space/build-python3-fast5/python3-fast5-dbgsym_0.6.5-1build2_i386.deb'. pkgstripfiles: Truncating usr/share/doc/python3-fast5/changelog.Debian.gz to topmost ten records pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-fast5 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-fast5' in '../python3-fast5_0.6.5-1build2_i386.deb'. Renaming python3-fast5-dbgsym_0.6.5-1build2_i386.deb to python3-fast5-dbgsym_0.6.5-1build2_i386.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../fast5_0.6.5-1build2_i386.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build fast5-0.6.5 dpkg-source: info: using options from fast5-0.6.5/debian/source/options: --extend-diff-ignore=^[^/]+\.egg-info/|python/fast5/fast5.cpp dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20181103-1317 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ fast5_0.6.5-1build2_i386.changes: --------------------------------- Format: 1.8 Date: Sat, 03 Nov 2018 12:06:58 +0000 Source: fast5 Binary: fast5 libfast5-dev python-fast5 python3-fast5 Architecture: i386 Version: 0.6.5-1build2 Distribution: disco-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Matthias Klose Description: fast5 - utilities for manipulating Oxford Nanopore Fast5 files libfast5-dev - library for reading Oxford Nanopore Fast5 files -- headers python-fast5 - library for reading Oxford Nanopore Fast5 files -- Python 2 python3-fast5 - library for reading Oxford Nanopore Fast5 files -- Python 3 Changes: fast5 (0.6.5-1build2) disco; urgency=medium . * No-change rebuild to build without python3.6 support. Checksums-Sha1: 164f9306b434a18b0bcf365f9b0c987fd9cd77ae 7788 fast5_0.6.5-1build2_i386.buildinfo e1a4a6e13c9bb60f0b436e42dd896aa38161064e 2492004 python-fast5-dbgsym_0.6.5-1build2_i386.ddeb d941c55fa5bc1f34129765bcc667f4cf31752383 230412 python-fast5_0.6.5-1build2_i386.deb be4084c2186421efbd2fa12be255b36e9c7dc6c4 2527104 python3-fast5-dbgsym_0.6.5-1build2_i386.ddeb 2295c4356f3627e5312e39c952de674b76e5e8ab 230052 python3-fast5_0.6.5-1build2_i386.deb Checksums-Sha256: ea3f31f3160b7217303df4cf0eb32561b3b7b280f9479e109c0e4878738412d7 7788 fast5_0.6.5-1build2_i386.buildinfo 88f84ab8e5305cef3237f8db6fbc2af7c50e4221cdb41a20c41b45e269c6f18a 2492004 python-fast5-dbgsym_0.6.5-1build2_i386.ddeb 560e2e85aac0db9fab11f501f21108ff169c35323f0fb29a764415092204b7b9 230412 python-fast5_0.6.5-1build2_i386.deb be321b27b3500f2ecb576cae3cc21c32fd91002351ab44a117f3331693cd5546 2527104 python3-fast5-dbgsym_0.6.5-1build2_i386.ddeb 782cb0f4c40497b1f5d2df3a00ab7701d86b276ad233e6ebb09f3eb3bd67f8c8 230052 python3-fast5_0.6.5-1build2_i386.deb Files: c469d103fed25994c6b42f6722651529 7788 science optional fast5_0.6.5-1build2_i386.buildinfo 062e7710ce063c00cd4313be5d2793a2 2492004 debug optional python-fast5-dbgsym_0.6.5-1build2_i386.ddeb ea07ed98783819c197f8d9d2aa20f98f 230412 python optional python-fast5_0.6.5-1build2_i386.deb cebbc707dd81a2979faa07705b2df634 2527104 debug optional python3-fast5-dbgsym_0.6.5-1build2_i386.ddeb 18f326a4e5656cf3a99a9b83c592c3d5 230052 python optional python3-fast5_0.6.5-1build2_i386.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ python-fast5_0.6.5-1build2_i386.deb ----------------------------------- new debian package, version 2.0. size 230412 bytes: control archive=932 bytes. 709 bytes, 16 lines control 547 bytes, 6 lines md5sums Package: python-fast5 Source: fast5 Version: 0.6.5-1build2 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 767 Depends: libc6 (>= 2.4), libgcc1 (>= 1:3.0), libhdf5-100, libstdc++6 (>= 5.2), python (<< 2.8), python (>= 2.7~), python:any (<< 2.8), python:any (>= 2.7~) Section: python Priority: optional Homepage: https://github.com/mateidavid/fast5 Description: library for reading Oxford Nanopore Fast5 files -- Python 2 A lightweight C++11 library to read raw signal data from Oxford Nanopore's FAST5 files. . This package provides the Python 2 library drwxr-xr-x root/root 0 2018-11-03 12:06 ./ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/lib/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/lib/python2.7/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/lib/python2.7/dist-packages/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/lib/python2.7/dist-packages/fast5-0.6.2.egg-info/ -rw-r--r-- root/root 278 2018-11-03 12:06 ./usr/lib/python2.7/dist-packages/fast5-0.6.2.egg-info/PKG-INFO -rw-r--r-- root/root 1 2018-11-03 12:06 ./usr/lib/python2.7/dist-packages/fast5-0.6.2.egg-info/dependency_links.txt -rw-r--r-- root/root 6 2018-11-03 12:06 ./usr/lib/python2.7/dist-packages/fast5-0.6.2.egg-info/top_level.txt -rw-r--r-- root/root 767956 2018-11-03 12:06 ./usr/lib/python2.7/dist-packages/fast5.i386-linux-gnu.so drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/share/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/share/doc/python-fast5/ -rw-r--r-- root/root 885 2018-11-03 12:06 ./usr/share/doc/python-fast5/changelog.Debian.gz -rw-r--r-- root/root 1441 2017-11-10 20:49 ./usr/share/doc/python-fast5/copyright python3-fast5_0.6.5-1build2_i386.deb ------------------------------------ new debian package, version 2.0. size 230052 bytes: control archive=928 bytes. 669 bytes, 16 lines control 553 bytes, 6 lines md5sums Package: python3-fast5 Source: fast5 Version: 0.6.5-1build2 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 772 Depends: libc6 (>= 2.4), libgcc1 (>= 1:3.0), libhdf5-100, libstdc++6 (>= 5.2), python3 (<< 3.8), python3 (>= 3.7~) Section: python Priority: optional Homepage: https://github.com/mateidavid/fast5 Description: library for reading Oxford Nanopore Fast5 files -- Python 3 A lightweight C++11 library to read raw signal data from Oxford Nanopore's FAST5 files. . This package provides the Python 3 library drwxr-xr-x root/root 0 2018-11-03 12:06 ./ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/lib/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/lib/python3/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/ -rw-r--r-- root/root 278 2018-11-03 12:06 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/PKG-INFO -rw-r--r-- root/root 1 2018-11-03 12:06 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/dependency_links.txt -rw-r--r-- root/root 6 2018-11-03 12:06 ./usr/lib/python3/dist-packages/fast5-0.6.2.egg-info/top_level.txt -rw-r--r-- root/root 772116 2018-11-03 12:06 ./usr/lib/python3/dist-packages/fast5.cpython-37m-i386-linux-gnu.so drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/share/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-11-03 12:06 ./usr/share/doc/python3-fast5/ -rw-r--r-- root/root 886 2018-11-03 12:06 ./usr/share/doc/python3-fast5/changelog.Debian.gz -rw-r--r-- root/root 1441 2017-11-10 20:49 ./usr/share/doc/python3-fast5/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: i386 Build-Space: 61944 Build-Time: 243 Distribution: disco-proposed Host Architecture: i386 Install-Time: 128 Job: fast5_0.6.5-1build2.dsc Machine Architecture: amd64 Package: fast5 Package-Time: 373 Source-Version: 0.6.5-1build2 Space: 61944 Status: successful Version: 0.6.5-1build2 -------------------------------------------------------------------------------- Finished at 20181103-1317 Build needed 00:06:13, 61944k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=disco --arch=i386 PACKAGEBUILD-15604647 Scanning for processes to kill in build PACKAGEBUILD-15604647