RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux lgw01-amd64-022 4.4.0-96-generic #119-Ubuntu SMP Tue Sep 12 14:59:54 UTC 2017 x86_64 Buildd toolchain package versions: launchpad-buildd_152 python-lpbuildd_152 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_1:2.7.4-0ubuntu1.2 dpkg-dev_1.18.4ubuntu1.2 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 20 Sep 09:42:31 ntpdate[1792]: adjust time server 10.211.37.1 offset -0.001848 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=artful --arch=i386 PACKAGEBUILD-13395508 /home/buildd/filecache-default/7fe38ae672de2c40a7e6ba74a0e6690544a5bb48 Creating target for build PACKAGEBUILD-13395508 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=artful --arch=i386 PACKAGEBUILD-13395508 Starting target for build PACKAGEBUILD-13395508 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=artful --arch=i386 PACKAGEBUILD-13395508 'deb http://ftpmaster.internal/ubuntu artful main universe' 'deb http://ftpmaster.internal/ubuntu artful-security main universe' 'deb http://ftpmaster.internal/ubuntu artful-updates main universe' 'deb http://ftpmaster.internal/ubuntu artful-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-13395508 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=artful --arch=i386 PACKAGEBUILD-13395508 Updating target for build PACKAGEBUILD-13395508 Get:1 http://ftpmaster.internal/ubuntu artful InRelease [237 kB] Get:2 http://ftpmaster.internal/ubuntu artful-security InRelease [65.5 kB] Get:3 http://ftpmaster.internal/ubuntu artful-updates InRelease [65.5 kB] Get:4 http://ftpmaster.internal/ubuntu artful-proposed InRelease [235 kB] Get:5 http://ftpmaster.internal/ubuntu artful/main i386 Packages [1098 kB] Get:6 http://ftpmaster.internal/ubuntu artful/main Translation-en [550 kB] Get:7 http://ftpmaster.internal/ubuntu artful/universe i386 Packages [8023 kB] Get:8 http://ftpmaster.internal/ubuntu artful/universe Translation-en [4774 kB] Get:9 http://ftpmaster.internal/ubuntu artful-proposed/main i386 Packages [69.9 kB] Get:10 http://ftpmaster.internal/ubuntu artful-proposed/main Translation-en [27.9 kB] Get:11 http://ftpmaster.internal/ubuntu artful-proposed/universe i386 Packages [72.3 kB] Get:12 http://ftpmaster.internal/ubuntu artful-proposed/universe Translation-en [38.0 kB] Fetched 15.3 MB in 3s (4257 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: g++-6 libperl5.24 libstdc++-6-dev perl-modules-5.24 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: binutils-common binutils-i686-linux-gnu cpp-7 fdisk g++-7 gcc-7 gcc-7-base libasan4 libbinutils libgcc-7-dev libperl5.26 libstdc++-7-dev perl-modules-5.26 The following packages will be upgraded: advancecomp apt apt-transport-https base-files bash binutils bsdutils build-essential ca-certificates cpp cpp-6 debconf debianutils diffutils dmsetup dpkg dpkg-dev e2fslibs e2fsprogs findutils g++ g++-6 gcc gcc-6 gcc-6-base grep init init-system-helpers libapparmor1 libapt-pkg5.0 libasan3 libasn1-8-heimdal libassuan0 libatomic1 libaudit-common libaudit1 libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcc1-0 libcilkrts5 libcomerr2 libcryptsetup4 libcurl3-gnutls libdb5.3 libdevmapper1.02.1 libdpkg-perl libfdisk1 libgcc-6-dev libgcc1 libgcrypt20 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libidn11 libidn2-0 libip4tc0 libitm1 libk5crypto3 libkmod2 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblzma5 libmount1 libmpc3 libmpfr4 libmpx2 libnpth0 libp11-kit0 libpcre3 libpng16-16 libpsl5 libquadmath0 libroken18-heimdal libsasl2-2 libsasl2-modules-db libselinux1 libsemanage-common libsemanage1 libsepol1 libsmartcols1 libsqlite3-0 libss2 libssl1.0.0 libstdc++-6-dev libstdc++6 libsystemd0 libtasn1-6 libubsan0 libudev1 libusb-0.1-4 libuuid1 libwind0-heimdal linux-libc-dev login mount multiarch-support openssl passwd perl perl-base sensible-utils systemd systemd-sysv tar tzdata util-linux xz-utils zlib1g 121 upgraded, 13 newly installed, 0 to remove and 0 not upgraded. Need to get 166 MB of archives. After this operation, 466 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu artful/main i386 debconf all 1.5.63 [136 kB] Get:2 http://ftpmaster.internal/ubuntu artful/main i386 perl-modules-5.26 all 5.26.0-8ubuntu1 [2762 kB] Get:3 http://ftpmaster.internal/ubuntu artful/main i386 libperl5.26 i386 5.26.0-8ubuntu1 [3157 kB] Get:4 http://ftpmaster.internal/ubuntu artful/main i386 perl i386 5.26.0-8ubuntu1 [202 kB] Get:5 http://ftpmaster.internal/ubuntu artful/main i386 perl-base i386 5.26.0-8ubuntu1 [1491 kB] Get:6 http://ftpmaster.internal/ubuntu artful/main i386 libc6-dev i386 2.26-0ubuntu1 [2145 kB] Get:7 http://ftpmaster.internal/ubuntu artful/main i386 libc-dev-bin i386 2.26-0ubuntu1 [67.0 kB] Get:8 http://ftpmaster.internal/ubuntu artful-proposed/main i386 linux-libc-dev i386 4.13.0-11.12 [947 kB] Get:9 http://ftpmaster.internal/ubuntu artful/main i386 libc6 i386 2.26-0ubuntu1 [2547 kB] Get:10 http://ftpmaster.internal/ubuntu artful/main i386 libc-bin i386 2.26-0ubuntu1 [572 kB] Get:11 http://ftpmaster.internal/ubuntu artful/main i386 gcc-7-base i386 7.2.0-5ubuntu1 [18.1 kB] Get:12 http://ftpmaster.internal/ubuntu artful/main i386 libgcc1 i386 1:7.2.0-5ubuntu1 [47.0 kB] Get:13 http://ftpmaster.internal/ubuntu artful/main i386 libdb5.3 i386 5.3.28-13.1 [738 kB] Get:14 http://ftpmaster.internal/ubuntu artful/main i386 zlib1g i386 1:1.2.11.dfsg-0ubuntu2 [58.2 kB] Get:15 http://ftpmaster.internal/ubuntu artful/main i386 init-system-helpers all 1.49ubuntu1 [36.4 kB] Get:16 http://ftpmaster.internal/ubuntu artful/main i386 base-files i386 9.6ubuntu101 [59.1 kB] Get:17 http://ftpmaster.internal/ubuntu artful/main i386 debianutils i386 4.8.2 [86.5 kB] Get:18 http://ftpmaster.internal/ubuntu artful/main i386 bash i386 4.4-5ubuntu1 [622 kB] Get:19 http://ftpmaster.internal/ubuntu artful/main i386 bsdutils i386 1:2.30.1-0ubuntu4 [62.4 kB] Get:20 http://ftpmaster.internal/ubuntu artful/main i386 diffutils i386 1:3.6-1 [175 kB] Get:21 http://ftpmaster.internal/ubuntu artful/main i386 tar i386 1.29b-2 [252 kB] Get:22 http://ftpmaster.internal/ubuntu artful/main i386 dpkg i386 1.18.24ubuntu1 [1164 kB] Get:23 http://ftpmaster.internal/ubuntu artful/main i386 e2fslibs i386 1.43.5-1 [183 kB] Get:24 http://ftpmaster.internal/ubuntu artful/main i386 e2fsprogs i386 1.43.5-1 [533 kB] Get:25 http://ftpmaster.internal/ubuntu artful/main i386 findutils i386 4.6.0+git+20170729-2 [305 kB] Get:26 http://ftpmaster.internal/ubuntu artful/main i386 grep i386 3.1-2 [163 kB] Get:27 http://ftpmaster.internal/ubuntu artful/main i386 login i386 1:4.2-3.2ubuntu4 [307 kB] Get:28 http://ftpmaster.internal/ubuntu artful/main i386 libuuid1 i386 2.30.1-0ubuntu4 [15.7 kB] Get:29 http://ftpmaster.internal/ubuntu artful/main i386 libblkid1 i386 2.30.1-0ubuntu4 [133 kB] Get:30 http://ftpmaster.internal/ubuntu artful-proposed/main i386 libpcre3 i386 2:8.39-5 [228 kB] Get:31 http://ftpmaster.internal/ubuntu artful/main i386 libselinux1 i386 2.7-1 [73.0 kB] Get:32 http://ftpmaster.internal/ubuntu artful/main i386 libmount1 i386 2.30.1-0ubuntu4 [143 kB] Get:33 http://ftpmaster.internal/ubuntu artful/main i386 libsmartcols1 i386 2.30.1-0ubuntu4 [85.4 kB] Get:34 http://ftpmaster.internal/ubuntu artful/main i386 libfdisk1 i386 2.30.1-0ubuntu4 [173 kB] Get:35 http://ftpmaster.internal/ubuntu artful/main i386 fdisk i386 2.30.1-0ubuntu4 [115 kB] Get:36 http://ftpmaster.internal/ubuntu artful/main i386 util-linux i386 2.30.1-0ubuntu4 [903 kB] Get:37 http://ftpmaster.internal/ubuntu artful/main i386 mount i386 2.30.1-0ubuntu4 [115 kB] Get:38 http://ftpmaster.internal/ubuntu artful/main i386 liblzma5 i386 5.2.2-1.3 [98.5 kB] Get:39 http://ftpmaster.internal/ubuntu artful/main i386 libstdc++6 i386 7.2.0-5ubuntu1 [437 kB] Get:40 http://ftpmaster.internal/ubuntu artful/main i386 libudev1 i386 234-2ubuntu10 [56.2 kB] Get:41 http://ftpmaster.internal/ubuntu artful/main i386 libapt-pkg5.0 i386 1.5~rc4 [851 kB] Get:42 http://ftpmaster.internal/ubuntu artful/main i386 libtasn1-6 i386 4.12-2.1 [38.7 kB] Get:43 http://ftpmaster.internal/ubuntu artful/main i386 libidn11 i386 1.33-2 [46.7 kB] Get:44 http://ftpmaster.internal/ubuntu artful/main i386 libp11-kit0 i386 0.23.7-3 [188 kB] Get:45 http://ftpmaster.internal/ubuntu artful/main i386 libgnutls30 i386 3.5.8-6ubuntu3 [695 kB] Get:46 http://ftpmaster.internal/ubuntu artful/main i386 libk5crypto3 i386 1.15.1-2 [88.3 kB] Get:47 http://ftpmaster.internal/ubuntu artful/main i386 libgssapi-krb5-2 i386 1.15.1-2 [129 kB] Get:48 http://ftpmaster.internal/ubuntu artful/main i386 libkrb5-3 i386 1.15.1-2 [300 kB] Get:49 http://ftpmaster.internal/ubuntu artful/main i386 libkrb5support0 i386 1.15.1-2 [34.0 kB] Get:50 http://ftpmaster.internal/ubuntu artful/main i386 libcomerr2 i386 1.43.5-1 [11.0 kB] Get:51 http://ftpmaster.internal/ubuntu artful/main i386 libidn2-0 i386 2.0.2-5 [93.1 kB] Get:52 http://ftpmaster.internal/ubuntu artful/main i386 libldap-2.4-2 i386 2.4.45+dfsg-1ubuntu1 [167 kB] Get:53 http://ftpmaster.internal/ubuntu artful/main i386 libldap-common all 2.4.45+dfsg-1ubuntu1 [16.6 kB] Get:54 http://ftpmaster.internal/ubuntu artful/main i386 libroken18-heimdal i386 7.4.0.dfsg.1-2 [44.5 kB] Get:55 http://ftpmaster.internal/ubuntu artful/main i386 libasn1-8-heimdal i386 7.4.0.dfsg.1-2 [187 kB] Get:56 http://ftpmaster.internal/ubuntu artful/main i386 libheimbase1-heimdal i386 7.4.0.dfsg.1-2 [32.0 kB] Get:57 http://ftpmaster.internal/ubuntu artful/main i386 libhcrypto4-heimdal i386 7.4.0.dfsg.1-2 [93.3 kB] Get:58 http://ftpmaster.internal/ubuntu artful/main i386 libwind0-heimdal i386 7.4.0.dfsg.1-2 [49.1 kB] Get:59 http://ftpmaster.internal/ubuntu artful/main i386 libhx509-5-heimdal i386 7.4.0.dfsg.1-2 [118 kB] Get:60 http://ftpmaster.internal/ubuntu artful/main i386 libsqlite3-0 i386 3.19.3-3 [525 kB] Get:61 http://ftpmaster.internal/ubuntu artful/main i386 libkrb5-26-heimdal i386 7.4.0.dfsg.1-2 [231 kB] Get:62 http://ftpmaster.internal/ubuntu artful/main i386 libheimntlm0-heimdal i386 7.4.0.dfsg.1-2 [16.6 kB] Get:63 http://ftpmaster.internal/ubuntu artful/main i386 libgssapi3-heimdal i386 7.4.0.dfsg.1-2 [108 kB] Get:64 http://ftpmaster.internal/ubuntu artful/main i386 libsasl2-modules-db i386 2.1.27~101-g0780600+dfsg-3ubuntu1 [15.5 kB] Get:65 http://ftpmaster.internal/ubuntu artful/main i386 libsasl2-2 i386 2.1.27~101-g0780600+dfsg-3ubuntu1 [52.7 kB] Get:66 http://ftpmaster.internal/ubuntu artful/main i386 libpsl5 i386 0.18.0-2 [41.3 kB] Get:67 http://ftpmaster.internal/ubuntu artful/main i386 libcurl3-gnutls i386 7.55.1-1ubuntu1 [214 kB] Get:68 http://ftpmaster.internal/ubuntu artful/main i386 apt-transport-https i386 1.5~rc4 [38.9 kB] Get:69 http://ftpmaster.internal/ubuntu artful/main i386 apt i386 1.5~rc4 [1149 kB] Get:70 http://ftpmaster.internal/ubuntu artful/main i386 libip4tc0 i386 1.6.1-2ubuntu1 [20.5 kB] Get:71 http://ftpmaster.internal/ubuntu artful/main i386 libapparmor1 i386 2.11.0-2ubuntu17 [30.2 kB] Get:72 http://ftpmaster.internal/ubuntu artful/main i386 libaudit-common all 1:2.7.7-1ubuntu2 [3998 B] Get:73 http://ftpmaster.internal/ubuntu artful/main i386 libcap-ng0 i386 0.7.7-3build1 [11.1 kB] Get:74 http://ftpmaster.internal/ubuntu artful/main i386 libaudit1 i386 1:2.7.7-1ubuntu2 [39.3 kB] Get:75 http://ftpmaster.internal/ubuntu artful/main i386 libdevmapper1.02.1 i386 2:1.02.137-2ubuntu3 [145 kB] Get:76 http://ftpmaster.internal/ubuntu artful/main i386 libgpg-error0 i386 1.27-3 [39.4 kB] Get:77 http://ftpmaster.internal/ubuntu artful/main i386 libgcrypt20 i386 1.7.8-2ubuntu1 [375 kB] Get:78 http://ftpmaster.internal/ubuntu artful/main i386 libcryptsetup4 i386 2:1.7.3-4ubuntu1 [85.1 kB] Get:79 http://ftpmaster.internal/ubuntu artful/main i386 libkmod2 i386 24-1ubuntu2 [46.3 kB] Get:80 http://ftpmaster.internal/ubuntu artful/main i386 systemd i386 234-2ubuntu10 [2873 kB] Get:81 http://ftpmaster.internal/ubuntu artful/main i386 libsystemd0 i386 234-2ubuntu10 [228 kB] Get:82 http://ftpmaster.internal/ubuntu artful/main i386 init i386 1.49ubuntu1 [5438 B] Get:83 http://ftpmaster.internal/ubuntu artful/main i386 systemd-sysv i386 234-2ubuntu10 [11.9 kB] Get:84 http://ftpmaster.internal/ubuntu artful/main i386 libsepol1 i386 2.7-1 [274 kB] Get:85 http://ftpmaster.internal/ubuntu artful/main i386 libsemanage-common all 2.7-1 [6848 B] Get:86 http://ftpmaster.internal/ubuntu artful/main i386 libsemanage1 i386 2.7-1 [93.3 kB] Get:87 http://ftpmaster.internal/ubuntu artful/main i386 libss2 i386 1.43.5-1 [11.5 kB] Get:88 http://ftpmaster.internal/ubuntu artful/main i386 passwd i386 1:4.2-3.2ubuntu4 [790 kB] Get:89 http://ftpmaster.internal/ubuntu artful/main i386 sensible-utils all 0.0.10 [14.6 kB] Get:90 http://ftpmaster.internal/ubuntu artful/main i386 dmsetup i386 2:1.02.137-2ubuntu3 [73.2 kB] Get:91 http://ftpmaster.internal/ubuntu artful/main i386 libassuan0 i386 2.4.3-3 [36.7 kB] Get:92 http://ftpmaster.internal/ubuntu artful/main i386 libnpth0 i386 1.5-2 [7942 B] Get:93 http://ftpmaster.internal/ubuntu artful/main i386 libssl1.0.0 i386 1.0.2g-1ubuntu13 [910 kB] Get:94 http://ftpmaster.internal/ubuntu artful/main i386 multiarch-support i386 2.26-0ubuntu1 [6828 B] Get:95 http://ftpmaster.internal/ubuntu artful/main i386 tzdata all 2017b-2 [203 kB] Get:96 http://ftpmaster.internal/ubuntu artful/main i386 xz-utils i386 5.2.2-1.3 [88.6 kB] Get:97 http://ftpmaster.internal/ubuntu artful/main i386 openssl i386 1.0.2g-1ubuntu13 [506 kB] Get:98 http://ftpmaster.internal/ubuntu artful/main i386 ca-certificates all 20170717 [167 kB] Get:99 http://ftpmaster.internal/ubuntu artful/main i386 libpng16-16 i386 1.6.32-1 [185 kB] Get:100 http://ftpmaster.internal/ubuntu artful/main i386 advancecomp i386 2.0-1 [206 kB] Get:101 http://ftpmaster.internal/ubuntu artful/main i386 binutils i386 2.29-13ubuntu1 [3386 B] Get:102 http://ftpmaster.internal/ubuntu artful/main i386 binutils-common i386 2.29-13ubuntu1 [190 kB] Get:103 http://ftpmaster.internal/ubuntu artful/main i386 libbinutils i386 2.29-13ubuntu1 [550 kB] Get:104 http://ftpmaster.internal/ubuntu artful/main i386 binutils-i686-linux-gnu i386 2.29-13ubuntu1 [1998 kB] Get:105 http://ftpmaster.internal/ubuntu artful/main i386 libmpfr4 i386 3.1.6-1 [194 kB] Get:106 http://ftpmaster.internal/ubuntu artful/main i386 libmpc3 i386 1.0.3-2 [44.5 kB] Get:107 http://ftpmaster.internal/ubuntu artful/main i386 cpp-7 i386 7.2.0-5ubuntu1 [31.8 MB] Get:108 http://ftpmaster.internal/ubuntu artful/main i386 cpp i386 4:7.2.0-1ubuntu1 [27.6 kB] Get:109 http://ftpmaster.internal/ubuntu artful/main i386 libcc1-0 i386 7.2.0-5ubuntu1 [41.4 kB] Get:110 http://ftpmaster.internal/ubuntu artful/main i386 libgomp1 i386 7.2.0-5ubuntu1 [80.3 kB] Get:111 http://ftpmaster.internal/ubuntu artful/main i386 libitm1 i386 7.2.0-5ubuntu1 [30.3 kB] Get:112 http://ftpmaster.internal/ubuntu artful/main i386 libatomic1 i386 7.2.0-5ubuntu1 [9708 B] Get:113 http://ftpmaster.internal/ubuntu artful/main i386 libasan4 i386 7.2.0-5ubuntu1 [357 kB] Get:114 http://ftpmaster.internal/ubuntu artful/main i386 libubsan0 i386 7.2.0-5ubuntu1 [137 kB] Get:115 http://ftpmaster.internal/ubuntu artful/main i386 libcilkrts5 i386 7.2.0-5ubuntu1 [47.4 kB] Get:116 http://ftpmaster.internal/ubuntu artful/main i386 libmpx2 i386 7.2.0-5ubuntu1 [13.0 kB] Get:117 http://ftpmaster.internal/ubuntu artful/main i386 libquadmath0 i386 7.2.0-5ubuntu1 [205 kB] Get:118 http://ftpmaster.internal/ubuntu artful/main i386 libgcc-7-dev i386 7.2.0-5ubuntu1 [2394 kB] Get:119 http://ftpmaster.internal/ubuntu artful/main i386 gcc-7 i386 7.2.0-5ubuntu1 [31.3 MB] Get:120 http://ftpmaster.internal/ubuntu artful/main i386 gcc i386 4:7.2.0-1ubuntu1 [5182 B] Get:121 http://ftpmaster.internal/ubuntu artful/main i386 libstdc++-7-dev i386 7.2.0-5ubuntu1 [1497 kB] Get:122 http://ftpmaster.internal/ubuntu artful/main i386 g++-7 i386 7.2.0-5ubuntu1 [34.1 MB] Get:123 http://ftpmaster.internal/ubuntu artful/main i386 g++ i386 4:7.2.0-1ubuntu1 [1490 B] Get:124 http://ftpmaster.internal/ubuntu artful/main i386 dpkg-dev all 1.18.24ubuntu1 [608 kB] Get:125 http://ftpmaster.internal/ubuntu artful/main i386 libdpkg-perl all 1.18.24ubuntu1 [209 kB] Get:126 http://ftpmaster.internal/ubuntu artful-proposed/main i386 build-essential i386 12.4ubuntu1 [4752 B] Get:127 http://ftpmaster.internal/ubuntu artful/main i386 libasan3 i386 6.4.0-6ubuntu1 [307 kB] Get:128 http://ftpmaster.internal/ubuntu artful/universe i386 g++-6 i386 6.4.0-6ubuntu1 [7646 kB] Get:129 http://ftpmaster.internal/ubuntu artful/main i386 libstdc++-6-dev i386 6.4.0-6ubuntu1 [1475 kB] Get:130 http://ftpmaster.internal/ubuntu artful/main i386 gcc-6 i386 6.4.0-6ubuntu1 [7488 kB] Get:131 http://ftpmaster.internal/ubuntu artful/main i386 libgcc-6-dev i386 6.4.0-6ubuntu1 [2329 kB] Get:132 http://ftpmaster.internal/ubuntu artful/main i386 cpp-6 i386 6.4.0-6ubuntu1 [6814 kB] Get:133 http://ftpmaster.internal/ubuntu artful/main i386 gcc-6-base i386 6.4.0-6ubuntu1 [16.8 kB] Get:134 http://ftpmaster.internal/ubuntu artful/main i386 libusb-0.1-4 i386 2:0.1.12-31 [17.7 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 166 MB in 6s (26.5 MB/s) (Reading database ... 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Setting up util-linux (2.30.1-0ubuntu4) ... update-alternatives: warning: alternative /usr/bin/pg (part of link group pager) doesn't exist; removing from list of alternatives Setting up mount (2.30.1-0ubuntu4) ... Setting up systemd (234-2ubuntu10) ... Installing new version of config file /etc/systemd/resolved.conf ... Created symlink /etc/systemd/system/dbus-org.freedesktop.resolve1.service -> /lib/systemd/system/systemd-resolved.service. Created symlink /etc/systemd/system/multi-user.target.wants/systemd-resolved.service -> /lib/systemd/system/systemd-resolved.service. Created symlink /etc/systemd/system/dbus-org.freedesktop.network1.service -> /lib/systemd/system/systemd-networkd.service. Created symlink /etc/systemd/system/multi-user.target.wants/systemd-networkd.service -> /lib/systemd/system/systemd-networkd.service. Created symlink /etc/systemd/system/sockets.target.wants/systemd-networkd.socket -> /lib/systemd/system/systemd-networkd.socket. Created symlink /etc/systemd/system/network-online.target.wants/systemd-networkd-wait-online.service -> /lib/systemd/system/systemd-networkd-wait-online.service. addgroup: The group `systemd-journal' already exists as a system group. Exiting. Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.hostname1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.locale1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.login1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.network1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.resolve1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.systemd1.conf ... Removing obsolete conffile /etc/dbus-1/system.d/org.freedesktop.timedate1.conf ... (Reading database ... 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Setting up libnpth0:i386 (1.5-2) ... Setting up libgomp1:i386 (7.2.0-5ubuntu1) ... Setting up libatomic1:i386 (7.2.0-5ubuntu1) ... Setting up libcc1-0:i386 (7.2.0-5ubuntu1) ... Setting up libidn2-0:i386 (2.0.2-5) ... Setting up libssl1.0.0:i386 (1.0.2g-1ubuntu13) ... Setting up libasan4:i386 (7.2.0-5ubuntu1) ... Setting up libpng16-16:i386 (1.6.32-1) ... Setting up libldap-common (2.4.45+dfsg-1ubuntu1) ... Setting up libcilkrts5:i386 (7.2.0-5ubuntu1) ... Setting up libpsl5:i386 (0.18.0-2) ... Setting up multiarch-support (2.26-0ubuntu1) ... Setting up tzdata (2017b-2) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Sep 20 09:43:17 UTC 2017. Universal Time is now: Wed Sep 20 09:43:17 UTC 2017. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up systemd-sysv (234-2ubuntu10) ... Setting up libubsan0:i386 (7.2.0-5ubuntu1) ... Setting up gcc-6-base:i386 (6.4.0-6ubuntu1) ... Setting up libsasl2-modules-db:i386 (2.1.27~101-g0780600+dfsg-3ubuntu1) ... Setting up linux-libc-dev:i386 (4.13.0-11.12) ... Setting up advancecomp (2.0-1) ... Setting up libsasl2-2:i386 (2.1.27~101-g0780600+dfsg-3ubuntu1) ... Setting up libroken18-heimdal:i386 (7.4.0.dfsg.1-2) ... Setting up perl-modules-5.26 (5.26.0-8ubuntu1) ... Setting up libkrb5support0:i386 (1.15.1-2) ... Setting up binutils-common:i386 (2.29-13ubuntu1) ... Setting up libmpx2:i386 (7.2.0-5ubuntu1) ... Processing triggers for libc-bin (2.26-0ubuntu1) ... Setting up libperl5.26:i386 (5.26.0-8ubuntu1) ... Setting up xz-utils (5.2.2-1.3) ... Setting up libheimbase1-heimdal:i386 (7.4.0.dfsg.1-2) ... Setting up openssl (1.0.2g-1ubuntu13) ... Setting up libsqlite3-0:i386 (3.19.3-3) ... Setting up libmpfr4:i386 (3.1.6-1) ... Setting up dmsetup (2:1.02.137-2ubuntu3) ... Setting up libmpc3:i386 (1.0.3-2) ... Setting up cpp-6 (6.4.0-6ubuntu1) ... Setting up libc-dev-bin (2.26-0ubuntu1) ... Setting up ca-certificates (20170717) ... Updating certificates in /etc/ssl/certs... 7 added, 32 removed; done. Setting up libc6-dev:i386 (2.26-0ubuntu1) ... Setting up libassuan0:i386 (2.4.3-3) ... Setting up libusb-0.1-4:i386 (2:0.1.12-31) ... Setting up libitm1:i386 (7.2.0-5ubuntu1) ... Setting up libk5crypto3:i386 (1.15.1-2) ... Setting up libasan3:i386 (6.4.0-6ubuntu1) ... Setting up libgcc-6-dev:i386 (6.4.0-6ubuntu1) ... Setting up libstdc++-6-dev:i386 (6.4.0-6ubuntu1) ... Setting up libwind0-heimdal:i386 (7.4.0.dfsg.1-2) ... Setting up libbinutils:i386 (2.29-13ubuntu1) ... Setting up init (1.49ubuntu1) ... Setting up libasn1-8-heimdal:i386 (7.4.0.dfsg.1-2) ... Setting up libhcrypto4-heimdal:i386 (7.4.0.dfsg.1-2) ... Setting up libhx509-5-heimdal:i386 (7.4.0.dfsg.1-2) ... Setting up libgcc-7-dev:i386 (7.2.0-5ubuntu1) ... Setting up cpp-7 (7.2.0-5ubuntu1) ... Setting up libstdc++-7-dev:i386 (7.2.0-5ubuntu1) ... Setting up perl (5.26.0-8ubuntu1) ... update-alternatives: warning: alternative /usr/bin/prename (part of link group rename) doesn't exist; removing from list of alternatives update-alternatives: warning: /etc/alternatives/rename is dangling; it will be updated with best choice Removing obsolete conffile /etc/perl/sitecustomize.pl ... Setting up binutils-i686-linux-gnu (2.29-13ubuntu1) ... Setting up libkrb5-3:i386 (1.15.1-2) ... Setting up binutils (2.29-13ubuntu1) ... Setting up libkrb5-26-heimdal:i386 (7.4.0.dfsg.1-2) ... Setting up libheimntlm0-heimdal:i386 (7.4.0.dfsg.1-2) ... Setting up cpp (4:7.2.0-1ubuntu1) ... Setting up gcc-7 (7.2.0-5ubuntu1) ... Setting up g++-7 (7.2.0-5ubuntu1) ... Setting up libdpkg-perl (1.18.24ubuntu1) ... Setting up gcc (4:7.2.0-1ubuntu1) ... Setting up gcc-6 (6.4.0-6ubuntu1) ... Setting up libgssapi-krb5-2:i386 (1.15.1-2) ... Setting up g++-6 (6.4.0-6ubuntu1) ... Setting up dpkg-dev (1.18.24ubuntu1) ... Setting up g++ (4:7.2.0-1ubuntu1) ... Setting up libgssapi3-heimdal:i386 (7.4.0.dfsg.1-2) ... Setting up build-essential (12.4ubuntu1) ... Setting up libldap-2.4-2:i386 (2.4.45+dfsg-1ubuntu1) ... Setting up libcurl3-gnutls:i386 (7.55.1-1ubuntu1) ... Setting up apt-transport-https (1.5~rc4) ... Processing triggers for libc-bin (2.26-0ubuntu1) ... Processing triggers for ca-certificates (20170717) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-13395508 i386 artful-proposed -c chroot:build-PACKAGEBUILD-13395508 --arch=i386 --dist=artful-proposed --nolog nanopolish_0.8.1-2.dsc Initiating build PACKAGEBUILD-13395508 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-96-generic #119-Ubuntu SMP Tue Sep 12 14:59:54 UTC 2017 i686 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lgw01-amd64-022.buildd +==============================================================================+ | nanopolish 0.8.1-2 (i386) 20 Sep 2017 09:43 | +==============================================================================+ Package: nanopolish Version: 0.8.1-2 Source Version: 0.8.1-2 Distribution: artful-proposed Machine Architecture: amd64 Host Architecture: i386 Build Architecture: i386 I: NOTICE: Log filtering will replace 'build/nanopolish-jftMZQ/nanopolish-0.8.1' with '<>' I: NOTICE: Log filtering will replace 'build/nanopolish-jftMZQ' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-13395508/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- nanopolish_0.8.1-2.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-4GyB9t/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-4GyB9t/apt_archive ./ InRelease Get:2 copy:/<>/resolver-4GyB9t/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-4GyB9t/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-4GyB9t/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-4GyB9t/apt_archive ./ Packages [525 B] Fetched 2858 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: g++-6 libperl5.24 libstdc++-6-dev perl-modules-5.24 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 778 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-4GyB9t/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [778 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 778 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 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Merged Build-Depends: debhelper (>= 10), zlib1g-dev, libfast5-dev (>= 0.6.2-3), libhts-dev, libeigen3-dev Filtered Build-Depends: debhelper (>= 10), zlib1g-dev, libfast5-dev (>= 0.6.2-3), libhts-dev, libeigen3-dev dpkg-deb: building package 'sbuild-build-depends-nanopolish-dummy' in '/<>/resolver-j3UwFH/apt_archive/sbuild-build-depends-nanopolish-dummy.deb'. Ign:1 copy:/<>/resolver-j3UwFH/apt_archive ./ InRelease Get:2 copy:/<>/resolver-j3UwFH/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-j3UwFH/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-j3UwFH/apt_archive ./ Sources [251 B] Get:5 copy:/<>/resolver-j3UwFH/apt_archive ./ Packages [563 B] Fetched 2933 B in 0s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install nanopolish build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: g++-6 libperl5.24 libstdc++-6-dev perl-modules-5.24 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libbsd0 libcroco3 libeigen3-dev libfast5-dev libfile-stripnondeterminism-perl libgfortran4 libglib2.0-0 libhdf5-100 libhdf5-cpp-100 libhdf5-dev libhts-dev libhts2 libicu57 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblzma-dev libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libsz2 libtimedate-perl libtool libxml2 m4 man-db pkg-config po-debconf tabix zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libeigen3-doc libmrpt-dev libhdf5-doc liblzma-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc less www-browser libmail-box-perl Recommended packages: curl | wget | lynx-cur libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev xml-core libmail-sendmail-perl The following packages will be REMOVED: pkg-create-dbgsym* The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libarchive-zip-perl libbsd0 libcroco3 libeigen3-dev libfast5-dev libfile-stripnondeterminism-perl libgfortran4 libglib2.0-0 libhdf5-100 libhdf5-cpp-100 libhdf5-dev libhts-dev libhts2 libicu57 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblzma-dev libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libsz2 libtimedate-perl libtool libxml2 m4 man-db pkg-config po-debconf sbuild-build-depends-nanopolish-dummy tabix zlib1g-dev 0 upgraded, 51 newly installed, 1 to remove and 0 not upgraded. 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http://ftpmaster.internal/ubuntu artful/main i386 dh-autoreconf all 14 [15.5 kB] Get:23 http://ftpmaster.internal/ubuntu artful/main i386 libarchive-zip-perl all 1.59-1 [84.0 kB] Get:24 http://ftpmaster.internal/ubuntu artful/main i386 libfile-stripnondeterminism-perl all 0.038-1 [13.3 kB] Get:25 http://ftpmaster.internal/ubuntu artful/main i386 libtimedate-perl all 2.3000-2 [37.5 kB] Get:26 http://ftpmaster.internal/ubuntu artful/main i386 dh-strip-nondeterminism all 0.038-1 [5026 B] Get:27 http://ftpmaster.internal/ubuntu artful/main i386 libcroco3 i386 0.6.12-1 [87.5 kB] Get:28 http://ftpmaster.internal/ubuntu artful/main i386 gettext i386 0.19.8.1-4ubuntu1 [1097 kB] Get:29 http://ftpmaster.internal/ubuntu artful/main i386 intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:30 http://ftpmaster.internal/ubuntu artful/main i386 po-debconf all 1.0.20 [232 kB] Get:31 http://ftpmaster.internal/ubuntu artful/main i386 debhelper all 10.7.2ubuntu2 [877 kB] Get:32 http://ftpmaster.internal/ubuntu artful/universe i386 hdf5-helpers i386 1.10.0-patch1+docs-4 [12.3 kB] Get:33 http://ftpmaster.internal/ubuntu artful/universe i386 libaec0 i386 0.3.2-2 [20.5 kB] Get:34 http://ftpmaster.internal/ubuntu artful/main i386 libgfortran4 i386 7.2.0-5ubuntu1 [469 kB] Get:35 http://ftpmaster.internal/ubuntu artful/universe i386 libsz2 i386 0.3.2-2 [5218 B] Get:36 http://ftpmaster.internal/ubuntu artful/universe i386 libhdf5-100 i386 1.10.0-patch1+docs-4 [1263 kB] Get:37 http://ftpmaster.internal/ubuntu artful/main i386 zlib1g-dev i386 1:1.2.11.dfsg-0ubuntu2 [178 kB] Get:38 http://ftpmaster.internal/ubuntu artful-proposed/main i386 libjpeg-turbo8-dev i386 1.5.2-0ubuntu3 [267 kB] Get:39 http://ftpmaster.internal/ubuntu artful/main i386 libjpeg8 i386 8c-2ubuntu8 [2188 B] Get:40 http://ftpmaster.internal/ubuntu artful/main i386 libjpeg8-dev i386 8c-2ubuntu8 [1546 B] Get:41 http://ftpmaster.internal/ubuntu artful/main i386 libjpeg-dev i386 8c-2ubuntu8 [1544 B] Get:42 http://ftpmaster.internal/ubuntu artful/universe i386 libaec-dev i386 0.3.2-2 [19.1 kB] Get:43 http://ftpmaster.internal/ubuntu artful/universe i386 libhdf5-cpp-100 i386 1.10.0-patch1+docs-4 [111 kB] Get:44 http://ftpmaster.internal/ubuntu artful/universe i386 libhdf5-dev i386 1.10.0-patch1+docs-4 [2644 kB] Get:45 http://ftpmaster.internal/ubuntu artful-proposed/universe i386 libfast5-dev all 0.6.2-6 [43.0 kB] Get:46 http://ftpmaster.internal/ubuntu artful/universe i386 libhts2 i386 1.5-1 [304 kB] Get:47 http://ftpmaster.internal/ubuntu artful/main i386 liblzma-dev i386 5.2.2-1.3 [154 kB] Get:48 http://ftpmaster.internal/ubuntu artful/universe i386 tabix i386 1.5-1 [335 kB] Get:49 http://ftpmaster.internal/ubuntu artful/universe i386 libhts-dev i386 1.5-1 [411 kB] Get:50 http://ftpmaster.internal/ubuntu artful/main i386 pkg-config i386 0.29.1-0ubuntu2 [45.8 kB] Get:51 http://ftpmaster.internal/ubuntu artful/universe i386 libeigen3-dev all 3.3.4-3 [811 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 23.8 MB in 0s (29.5 MB/s) (Reading database ... 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Selecting previously unselected package gettext-base. Preparing to unpack .../09-gettext-base_0.19.8.1-4ubuntu1_i386.deb ... Unpacking gettext-base (0.19.8.1-4ubuntu1) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../10-libglib2.0-0_2.54.0-1ubuntu1_i386.deb ... Unpacking libglib2.0-0:i386 (2.54.0-1ubuntu1) ... Selecting previously unselected package libicu57:i386. Preparing to unpack .../11-libicu57_57.1-6_i386.deb ... Unpacking libicu57:i386 (57.1-6) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../12-libxml2_2.9.4+dfsg1-3.1_i386.deb ... Unpacking libxml2:i386 (2.9.4+dfsg1-3.1) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../13-libsigsegv2_2.11-1_i386.deb ... Unpacking libsigsegv2:i386 (2.11-1) ... Selecting previously unselected package m4. Preparing to unpack .../14-m4_1.4.18-1_i386.deb ... Unpacking m4 (1.4.18-1) ... Selecting previously unselected package autoconf. 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Preparing to unpack .../27-intltool-debian_0.35.0+20060710.4_all.deb ... Unpacking intltool-debian (0.35.0+20060710.4) ... Selecting previously unselected package po-debconf. Preparing to unpack .../28-po-debconf_1.0.20_all.deb ... Unpacking po-debconf (1.0.20) ... Selecting previously unselected package debhelper. Preparing to unpack .../29-debhelper_10.7.2ubuntu2_all.deb ... Unpacking debhelper (10.7.2ubuntu2) ... Selecting previously unselected package hdf5-helpers. Preparing to unpack .../30-hdf5-helpers_1.10.0-patch1+docs-4_i386.deb ... Unpacking hdf5-helpers (1.10.0-patch1+docs-4) ... Selecting previously unselected package libaec0:i386. Preparing to unpack .../31-libaec0_0.3.2-2_i386.deb ... Unpacking libaec0:i386 (0.3.2-2) ... Selecting previously unselected package libgfortran4:i386. Preparing to unpack .../32-libgfortran4_7.2.0-5ubuntu1_i386.deb ... Unpacking libgfortran4:i386 (7.2.0-5ubuntu1) ... Selecting previously unselected package libsz2:i386. 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Setting up libaec0:i386 (0.3.2-2) ... Setting up libarchive-zip-perl (1.59-1) ... Setting up libgfortran4:i386 (7.2.0-5ubuntu1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libsigsegv2:i386 (2.11-1) ... Setting up groff-base (1.22.3-9) ... Setting up libglib2.0-0:i386 (2.54.0-1ubuntu1) ... No schema files found: doing nothing. Setting up gettext-base (0.19.8.1-4ubuntu1) ... Setting up libjpeg-turbo8:i386 (1.5.2-0ubuntu3) ... Setting up libpipeline1:i386 (1.4.2-1) ... Setting up m4 (1.4.18-1) ... Setting up libicu57:i386 (57.1-6) ... Setting up libbsd0:i386 (0.8.6-1) ... Setting up libxml2:i386 (2.9.4+dfsg1-3.1) ... Setting up libmagic-mgc (1:5.32-1) ... Setting up libmagic1:i386 (1:5.32-1) ... Setting up libcroco3:i386 (0.6.12-1) ... Setting up pkg-config (0.29.1-0ubuntu2) ... Setting up libjpeg-turbo8-dev:i386 (1.5.2-0ubuntu3) ... Processing triggers for libc-bin (2.26-0ubuntu1) ... Setting up autotools-dev (20161112.1) ... Setting up tabix (1.5-1) ... Setting up liblzma-dev:i386 (5.2.2-1.3) ... Setting up bsdmainutils (9.0.12+nmu1ubuntu1) ... 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 hdf5-helpers (1.10.0-patch1+docs-4) ... Setting up libhts2:i386 (1.5-1) ... Setting up autopoint (0.19.8.1-4ubuntu1) ... Setting up libsz2:i386 (0.3.2-2) ... Setting up zlib1g-dev:i386 (1:1.2.11.dfsg-0ubuntu2) ... Setting up libfile-stripnondeterminism-perl (0.038-1) ... Setting up libjpeg8:i386 (8c-2ubuntu8) ... Setting up libhdf5-100:i386 (1.10.0-patch1+docs-4) ... Setting up gettext (0.19.8.1-4ubuntu1) ... Setting up libhts-dev:i386 (1.5-1) ... Setting up libeigen3-dev (3.3.4-3) ... Setting up libaec-dev:i386 (0.3.2-2) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.32-1) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libjpeg8-dev:i386 (8c-2ubuntu8) ... Setting up libjpeg-dev:i386 (8c-2ubuntu8) ... Setting up automake (1:1.15-6ubuntu1) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.7.6.1-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libtool (2.4.6-2) ... Setting up libhdf5-cpp-100:i386 (1.10.0-patch1+docs-4) ... Setting up po-debconf (1.0.20) ... Setting up libhdf5-dev (1.10.0-patch1+docs-4) ... 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 libfast5-dev (0.6.2-6) ... Setting up dh-autoreconf (14) ... Setting up dh-strip-nondeterminism (0.038-1) ... Setting up debhelper (10.7.2ubuntu2) ... Setting up sbuild-build-depends-nanopolish-dummy (0.invalid.0) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 18247 files and directories currently installed.) Purging configuration files for pkg-create-dbgsym (0.73) ... Processing triggers for libc-bin (2.26-0ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-96-generic amd64 (i686) Toolchain package versions: binutils_2.29-13ubuntu1 dpkg-dev_1.18.24ubuntu1 g++-6_6.4.0-6ubuntu1 g++-7_7.2.0-5ubuntu1 gcc-6_6.4.0-6ubuntu1 gcc-7_7.2.0-5ubuntu1 libc6-dev_2.26-0ubuntu1 libstdc++-6-dev_6.4.0-6ubuntu1 libstdc++-7-dev_7.2.0-5ubuntu1 libstdc++6_7.2.0-5ubuntu1 linux-libc-dev_4.13.0-11.12 Package versions: adduser_3.113+nmu3ubuntu5 advancecomp_2.0-1 apt_1.5~rc4 apt-transport-https_1.5~rc4 autoconf_2.69-11 automake_1:1.15-6ubuntu1 autopoint_0.19.8.1-4ubuntu1 autotools-dev_20161112.1 base-files_9.6ubuntu101 base-passwd_3.5.43 bash_4.4-5ubuntu1 binutils_2.29-13ubuntu1 binutils-common_2.29-13ubuntu1 binutils-i686-linux-gnu_2.29-13ubuntu1 bsdmainutils_9.0.12+nmu1ubuntu1 bsdutils_1:2.30.1-0ubuntu4 build-essential_12.4ubuntu1 bzip2_1.0.6-8.1 ca-certificates_20170717 coreutils_8.26-3ubuntu3 cpp_4:7.2.0-1ubuntu1 cpp-6_6.4.0-6ubuntu1 cpp-7_7.2.0-5ubuntu1 dash_0.5.8-2.3ubuntu1 debconf_1.5.63 debhelper_10.7.2ubuntu2 debianutils_4.8.2 dh-autoreconf_14 dh-strip-nondeterminism_0.038-1 diffutils_1:3.6-1 dmsetup_2:1.02.137-2ubuntu3 dpkg_1.18.24ubuntu1 dpkg-dev_1.18.24ubuntu1 e2fslibs_1.43.5-1 e2fsprogs_1.43.5-1 fakeroot_1.21-1ubuntu2 fdisk_2.30.1-0ubuntu4 file_1:5.32-1 findutils_4.6.0+git+20170729-2 g++_4:7.2.0-1ubuntu1 g++-6_6.4.0-6ubuntu1 g++-7_7.2.0-5ubuntu1 gcc_4:7.2.0-1ubuntu1 gcc-6_6.4.0-6ubuntu1 gcc-6-base_6.4.0-6ubuntu1 gcc-7_7.2.0-5ubuntu1 gcc-7-base_7.2.0-5ubuntu1 gettext_0.19.8.1-4ubuntu1 gettext-base_0.19.8.1-4ubuntu1 gnupg_2.1.15-1ubuntu7 gnupg-agent_2.1.15-1ubuntu7 gpgv_2.1.15-1ubuntu7 grep_3.1-2 groff-base_1.22.3-9 gzip_1.6-5ubuntu1 hdf5-helpers_1.10.0-patch1+docs-4 hostname_3.18 init_1.49ubuntu1 init-system-helpers_1.49ubuntu1 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libaec-dev_0.3.2-2 libaec0_0.3.2-2 libapparmor1_2.11.0-2ubuntu17 libapt-pkg5.0_1.5~rc4 libarchive-zip-perl_1.59-1 libasan3_6.4.0-6ubuntu1 libasan4_7.2.0-5ubuntu1 libasn1-8-heimdal_7.4.0.dfsg.1-2 libassuan0_2.4.3-3 libatomic1_7.2.0-5ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.7.7-1ubuntu2 libaudit1_1:2.7.7-1ubuntu2 libbinutils_2.29-13ubuntu1 libblkid1_2.30.1-0ubuntu4 libbsd0_0.8.6-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.26-0ubuntu1 libc-dev-bin_2.26-0ubuntu1 libc6_2.26-0ubuntu1 libc6-dev_2.26-0ubuntu1 libcap-ng0_0.7.7-3build1 libcap2_1:2.25-1 libcc1-0_7.2.0-5ubuntu1 libcilkrts5_7.2.0-5ubuntu1 libcomerr2_1.43.5-1 libcroco3_0.6.12-1 libcryptsetup4_2:1.7.3-4ubuntu1 libcurl3-gnutls_7.55.1-1ubuntu1 libdb5.3_5.3.28-13.1 libdebconfclient0_0.213ubuntu1 libdevmapper1.02.1_2:1.02.137-2ubuntu3 libdpkg-perl_1.18.24ubuntu1 libeigen3-dev_3.3.4-3 libfakeroot_1.21-1ubuntu2 libfast5-dev_0.6.2-6 libfdisk1_2.30.1-0ubuntu4 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.038-1 libgcc-6-dev_6.4.0-6ubuntu1 libgcc-7-dev_7.2.0-5ubuntu1 libgcc1_1:7.2.0-5ubuntu1 libgcrypt20_1.7.8-2ubuntu1 libgdbm3_1.8.3-14 libgfortran4_7.2.0-5ubuntu1 libglib2.0-0_2.54.0-1ubuntu1 libgmp10_2:6.1.2+dfsg-1 libgnutls30_3.5.8-6ubuntu3 libgomp1_7.2.0-5ubuntu1 libgpg-error0_1.27-3 libgssapi-krb5-2_1.15.1-2 libgssapi3-heimdal_7.4.0.dfsg.1-2 libhcrypto4-heimdal_7.4.0.dfsg.1-2 libhdf5-100_1.10.0-patch1+docs-4 libhdf5-cpp-100_1.10.0-patch1+docs-4 libhdf5-dev_1.10.0-patch1+docs-4 libheimbase1-heimdal_7.4.0.dfsg.1-2 libheimntlm0-heimdal_7.4.0.dfsg.1-2 libhogweed4_3.3-1 libhts-dev_1.5-1 libhts2_1.5-1 libhx509-5-heimdal_7.4.0.dfsg.1-2 libicu57_57.1-6 libidn11_1.33-2 libidn2-0_2.0.2-5 libip4tc0_1.6.1-2ubuntu1 libisl15_0.18-1 libitm1_7.2.0-5ubuntu1 libjpeg-dev_8c-2ubuntu8 libjpeg-turbo8_1.5.2-0ubuntu3 libjpeg-turbo8-dev_1.5.2-0ubuntu3 libjpeg8_8c-2ubuntu8 libjpeg8-dev_8c-2ubuntu8 libk5crypto3_1.15.1-2 libkeyutils1_1.5.9-9ubuntu1 libkmod2_24-1ubuntu2 libkrb5-26-heimdal_7.4.0.dfsg.1-2 libkrb5-3_1.15.1-2 libkrb5support0_1.15.1-2 libksba8_1.3.5-2 libldap-2.4-2_2.4.45+dfsg-1ubuntu1 libldap-common_2.4.45+dfsg-1ubuntu1 liblockfile-bin_1.14-1 liblockfile1_1.14-1 liblz4-1_0.0~r131-2ubuntu2 liblzma-dev_5.2.2-1.3 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.32-1 libmagic1_1:5.32-1 libmount1_2.30.1-0ubuntu4 libmpc3_1.0.3-2 libmpfr4_3.1.6-1 libmpx2_7.2.0-5ubuntu1 libncurses5_6.0+20160625-1ubuntu1 libncursesw5_6.0+20160625-1ubuntu1 libnettle6_3.3-1 libnpth0_1.5-2 libp11-kit0_0.23.7-3 libpam-modules_1.1.8-3.2ubuntu3 libpam-modules-bin_1.1.8-3.2ubuntu3 libpam-runtime_1.1.8-3.2ubuntu3 libpam0g_1.1.8-3.2ubuntu3 libpcre3_2:8.39-5 libperl5.24_5.24.1-2ubuntu1 libperl5.26_5.26.0-8ubuntu1 libpipeline1_1.4.2-1 libpng16-16_1.6.32-1 libprocps6_2:3.3.12-1ubuntu2 libpsl5_0.18.0-2 libquadmath0_7.2.0-5ubuntu1 libreadline7_7.0-0ubuntu2 libroken18-heimdal_7.4.0.dfsg.1-2 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.27~101-g0780600+dfsg-3ubuntu1 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3ubuntu1 libseccomp2_2.3.1-2.1ubuntu1 libselinux1_2.7-1 libsemanage-common_2.7-1 libsemanage1_2.7-1 libsepol1_2.7-1 libsigsegv2_2.11-1 libslang2_2.3.1-5ubuntu1 libsmartcols1_2.30.1-0ubuntu4 libsqlite3-0_3.19.3-3 libss2_1.43.5-1 libssl1.0.0_1.0.2g-1ubuntu13 libstdc++-6-dev_6.4.0-6ubuntu1 libstdc++-7-dev_7.2.0-5ubuntu1 libstdc++6_7.2.0-5ubuntu1 libsystemd0_234-2ubuntu10 libsz2_0.3.2-2 libtasn1-6_4.12-2.1 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160625-1ubuntu1 libtool_2.4.6-2 libubsan0_7.2.0-5ubuntu1 libudev1_234-2ubuntu10 libunistring0_0.9.3-5.2ubuntu1 libusb-0.1-4_2:0.1.12-31 libustr-1.0-1_1.0.4-6 libuuid1_2.30.1-0ubuntu4 libwind0-heimdal_7.4.0.dfsg.1-2 libxml2_2.9.4+dfsg1-3.1 linux-libc-dev_4.13.0-11.12 lockfile-progs_0.1.17build1 login_1:4.2-3.2ubuntu4 lsb-base_9.20160110ubuntu5 m4_1.4.18-1 make_4.1-9.1 man-db_2.7.6.1-2 mawk_1.3.3-17ubuntu2 mount_2.30.1-0ubuntu4 multiarch-support_2.26-0ubuntu1 ncurses-base_6.0+20160625-1ubuntu1 ncurses-bin_6.0+20160625-1ubuntu1 openssl_1.0.2g-1ubuntu13 optipng_0.7.6-1build1 passwd_1:4.2-3.2ubuntu4 patch_2.7.5-1build1 perl_5.26.0-8ubuntu1 perl-base_5.26.0-8ubuntu1 perl-modules-5.24_5.24.1-2ubuntu1 perl-modules-5.26_5.26.0-8ubuntu1 pinentry-curses_1.0.0-2 pkg-config_0.29.1-0ubuntu2 pkgbinarymangler_131 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 procps_2:3.3.12-1ubuntu2 readline-common_7.0-0ubuntu2 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-nanopolish-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.10 systemd_234-2ubuntu10 systemd-sysv_234-2ubuntu10 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.8git1 tabix_1.5-1 tar_1.29b-2 tzdata_2017b-2 ubuntu-keyring_2016.10.27 util-linux_2.30.1-0ubuntu4 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 Tue Sep 19 13:41:36 2017 UTC gpgv: using RSA key gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./nanopolish_0.8.1-2.dsc dpkg-source: info: extracting nanopolish in nanopolish-0.8.1 dpkg-source: info: unpacking nanopolish_0.8.1.orig.tar.gz dpkg-source: info: unpacking nanopolish_0.8.1-2.debian.tar.xz dpkg-source: info: applying adjust-include-path.patch dpkg-source: info: applying compiler-flags.patch dpkg-source: info: applying external-libs.patch dpkg-source: info: applying add-shebang-to-script.patch dpkg-source: info: applying reproducible.patch dpkg-source: info: applying dontinstalleigen.patch dpkg-source: info: applying write_return_values_ignored.patch dpkg-source: info: applying gcc7.patch dpkg-source: info: applying fprintf_sizet.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-13395508 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-13395508 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-13395508 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package nanopolish dpkg-buildpackage: info: source version 0.8.1-2 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build nanopolish-0.8.1 dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' sed -i~ 's/^.depend: .*/.depend:/' Makefile touch .depend /usr/bin/make clean make[2]: Entering directory '/<>' rm -f nanopolish nanopolish_test src/alignment/nanopolish_alignment_db.o src/alignment/nanopolish_anchor.o src/alignment/nanopolish_eventalign.o src/common/fs_support.o src/common/logsum.o src/common/nanopolish_alphabet.o src/common/nanopolish_bam_processor.o src/common/nanopolish_bam_utils.o src/common/nanopolish_common.o src/common/nanopolish_iupac.o src/common/nanopolish_klcs.o src/common/nanopolish_model_names.o src/common/nanopolish_variant.o src/hmm/nanopolish_duration_model.o src/hmm/nanopolish_pore_model_set.o src/hmm/nanopolish_profile_hmm.o src/hmm/nanopolish_profile_hmm_r7.o src/hmm/nanopolish_profile_hmm_r9.o src/hmm/nanopolish_transition_parameters.o src/nanopolish_call_methylation.o src/nanopolish_call_variants.o src/nanopolish_extract.o src/nanopolish_getmodel.o src/nanopolish_haplotype.o src/nanopolish_index.o src/nanopolish_methyltrain.o src/nanopolish_phase_reads.o src/nanopolish_poremodel.o src/nanopolish_raw_loader.o src/nanopolish_read_db.o src/nanopolish_scorereads.o src/nanopolish_squiggle_read.o src/nanopolish_train_poremodel_from_basecalls.o src/nanopolish_variant_db.o src/training_core.o src/thirdparty/scrappie/event_detection.o src/thirdparty/scrappie/scrappie_common.o src/thirdparty/scrappie/util.o src/thirdparty/stdaln.o src/main/nanopolish.o src/test/nanopolish_test.o make[2]: Leaving directory '/<>' rm -f .depend mv Makefile~ Makefile make[1]: Leaving directory '/<>' dh_autoreconf_clean dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a dh_auto_build -a make -j4 make[1]: Entering directory '/<>' Makefile:110: .depend: No such file or directory rm -f ./.depend g++ -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -MM src/alignment/nanopolish_alignment_db.cpp src/alignment/nanopolish_anchor.cpp src/alignment/nanopolish_eventalign.cpp src/common/fs_support.cpp src/common/logsum.cpp src/common/nanopolish_alphabet.cpp src/common/nanopolish_bam_processor.cpp src/common/nanopolish_bam_utils.cpp src/common/nanopolish_common.cpp src/common/nanopolish_iupac.cpp src/common/nanopolish_klcs.cpp src/common/nanopolish_model_names.cpp src/common/nanopolish_variant.cpp src/hmm/nanopolish_duration_model.cpp src/hmm/nanopolish_pore_model_set.cpp src/hmm/nanopolish_profile_hmm.cpp src/hmm/nanopolish_profile_hmm_r7.cpp src/hmm/nanopolish_profile_hmm_r9.cpp src/hmm/nanopolish_transition_parameters.cpp src/nanopolish_call_methylation.cpp src/nanopolish_call_variants.cpp src/nanopolish_extract.cpp src/nanopolish_getmodel.cpp src/nanopolish_haplotype.cpp src/nanopolish_index.cpp src/nanopolish_methyltrain.cpp src/nanopolish_phase_reads.cpp src/nanopolish_poremodel.cpp src/nanopolish_raw_loader.cpp src/nanopolish_read_db.cpp src/nanopolish_scorereads.cpp src/nanopolish_squiggle_read.cpp src/nanopolish_train_poremodel_from_basecalls.cpp src/nanopolish_variant_db.cpp src/training_core.cpp src/thirdparty/scrappie/event_detection.c src/thirdparty/scrappie/scrappie_common.c src/thirdparty/scrappie/util.c src/thirdparty/stdaln.c > ./.depend; g++ -o src/main/nanopolish.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/main/nanopolish.cpp g++ -o src/alignment/nanopolish_alignment_db.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/alignment/nanopolish_alignment_db.cpp g++ -o src/alignment/nanopolish_anchor.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/alignment/nanopolish_anchor.cpp g++ -o src/alignment/nanopolish_eventalign.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/alignment/nanopolish_eventalign.cpp g++ -o src/common/fs_support.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/common/fs_support.cpp g++ -o src/common/logsum.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/common/logsum.cpp g++ -o src/common/nanopolish_alphabet.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/common/nanopolish_alphabet.cpp g++ -o src/common/nanopolish_bam_processor.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/common/nanopolish_bam_processor.cpp g++ -o src/common/nanopolish_bam_utils.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/common/nanopolish_bam_utils.cpp g++ -o src/common/nanopolish_common.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/common/nanopolish_common.cpp g++ -o src/common/nanopolish_iupac.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/common/nanopolish_iupac.cpp g++ -o src/common/nanopolish_klcs.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/common/nanopolish_klcs.cpp g++ -o src/common/nanopolish_model_names.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/common/nanopolish_model_names.cpp g++ -o src/common/nanopolish_variant.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/common/nanopolish_variant.cpp g++ -o src/hmm/nanopolish_duration_model.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/hmm/nanopolish_duration_model.cpp g++ -o src/hmm/nanopolish_pore_model_set.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/hmm/nanopolish_pore_model_set.cpp src/common/nanopolish_variant.cpp: In function ‘void score_variant_group(VariantGroup&, Haplotype, const std::vector&, int, int, bool, uint32_t)’: src/common/nanopolish_variant.cpp:178:184: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 3 has type ‘size_t {aka unsigned int}’ [-Wformat=] fprintf(stderr, "Number of variants in span (%lu) would exceed max-haplotypes. Variants may be missed. Consider running with a higher value of max-haplotypes!\n", num_variants); ^ g++ -o src/hmm/nanopolish_profile_hmm.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/hmm/nanopolish_profile_hmm.cpp g++ -o src/hmm/nanopolish_profile_hmm_r7.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/hmm/nanopolish_profile_hmm_r7.cpp g++ -o src/hmm/nanopolish_profile_hmm_r9.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/hmm/nanopolish_profile_hmm_r9.cpp g++ -o src/hmm/nanopolish_transition_parameters.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/hmm/nanopolish_transition_parameters.cpp g++ -o src/nanopolish_call_methylation.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_call_methylation.cpp g++ -o src/nanopolish_call_variants.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_call_variants.cpp g++ -o src/nanopolish_extract.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_extract.cpp src/nanopolish_call_variants.cpp: In function ‘Haplotype fix_homopolymers(const Haplotype&, const AlignmentDB&)’: src/nanopolish_call_variants.cpp:628:211: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t {aka unsigned int}’ [-Wformat=] fprintf(stderr, "SUM_VAR\t%zu\t%zu\t%d\t%d\t%lu\t%.5lf\t%.2lf\n", ref_hp_start, hp_length, var_sequence_length, call_window, variant_offset_end - variant_offset_start, sum_duration, log_gamma); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ^ g++ -o src/nanopolish_getmodel.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_getmodel.cpp g++ -o src/nanopolish_haplotype.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_haplotype.cpp src/nanopolish_haplotype.cpp: In member function ‘void Haplotype::print_debug_info() const’: src/nanopolish_haplotype.cpp:172:101: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘size_t {aka unsigned int}’ [-Wformat=] fprintf(stderr, "[haplotype-debug] ctg: %s, position: %lu\n", m_ref_name.c_str(), m_ref_position); ~~~~~~~~~~~~~~^ g++ -o src/nanopolish_index.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_index.cpp g++ -o src/nanopolish_methyltrain.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_methyltrain.cpp g++ -o src/nanopolish_phase_reads.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_phase_reads.cpp g++ -o src/nanopolish_poremodel.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_poremodel.cpp g++ -o src/nanopolish_raw_loader.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_raw_loader.cpp src/nanopolish_phase_reads.cpp: In function ‘int phase_reads_main(int, char**)’: src/nanopolish_phase_reads.cpp:378:18: warning: ignoring return value of ‘int sam_hdr_write(samFile*, const bam_hdr_t*)’, declared with attribute warn_unused_result [-Wunused-result] sam_hdr_write(sam_out, processor.get_bam_header()); ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o src/nanopolish_read_db.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_read_db.cpp src/nanopolish_read_db.cpp: In member function ‘void ReadDB::import_reads(const string&, const string&)’: src/nanopolish_read_db.cpp:146:19: warning: ignoring return value of ‘ssize_t bgzf_write(BGZF*, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] bgzf_write(bgzf_write_fp, out_record.c_str(), out_record.length()); ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -o src/nanopolish_scorereads.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_scorereads.cpp g++ -o src/nanopolish_squiggle_read.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_squiggle_read.cpp g++ -o src/nanopolish_train_poremodel_from_basecalls.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_train_poremodel_from_basecalls.cpp g++ -o src/nanopolish_variant_db.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/nanopolish_variant_db.cpp g++ -o src/training_core.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/training_core.cpp cc -o src/thirdparty/scrappie/event_detection.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC src/thirdparty/scrappie/event_detection.c cc -o src/thirdparty/scrappie/scrappie_common.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC src/thirdparty/scrappie/scrappie_common.c cc -o src/thirdparty/scrappie/util.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC src/thirdparty/scrappie/util.c In file included from src/thirdparty/scrappie/util.h:9:0, from src/thirdparty/scrappie/scrappie_common.c:3: src/thirdparty/scrappie/sse_mathfun.h: In function ‘log_ps’: src/thirdparty/scrappie/sse_mathfun.h:123:1: warning: SSE vector return without SSE enabled changes the ABI [-Wpsabi] static inline v4sf __attribute__((__always_inline__)) log_ps(v4sf x) { ^~~~~~ cc -o src/thirdparty/stdaln.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC src/thirdparty/stdaln.c In file included from src/thirdparty/scrappie/util.h:9:0, from src/thirdparty/scrappie/util.c:7: src/thirdparty/scrappie/sse_mathfun.h: In function ‘log_ps’: src/thirdparty/scrappie/sse_mathfun.h:123:1: warning: SSE vector return without SSE enabled changes the ABI [-Wpsabi] static inline v4sf __attribute__((__always_inline__)) log_ps(v4sf x) { ^~~~~~ g++ -o src/test/nanopolish_test.o -c -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/test/nanopolish_test.cpp g++ -o nanopolish -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/main/nanopolish.o src/alignment/nanopolish_alignment_db.o src/alignment/nanopolish_anchor.o src/alignment/nanopolish_eventalign.o src/common/fs_support.o src/common/logsum.o src/common/nanopolish_alphabet.o src/common/nanopolish_bam_processor.o src/common/nanopolish_bam_utils.o src/common/nanopolish_common.o src/common/nanopolish_iupac.o src/common/nanopolish_klcs.o src/common/nanopolish_model_names.o src/common/nanopolish_variant.o src/hmm/nanopolish_duration_model.o src/hmm/nanopolish_pore_model_set.o src/hmm/nanopolish_profile_hmm.o src/hmm/nanopolish_profile_hmm_r7.o src/hmm/nanopolish_profile_hmm_r9.o src/hmm/nanopolish_transition_parameters.o src/nanopolish_call_methylation.o src/nanopolish_call_variants.o src/nanopolish_extract.o src/nanopolish_getmodel.o src/nanopolish_haplotype.o src/nanopolish_index.o src/nanopolish_methyltrain.o src/nanopolish_phase_reads.o src/nanopolish_poremodel.o src/nanopolish_raw_loader.o src/nanopolish_read_db.o src/nanopolish_scorereads.o src/nanopolish_squiggle_read.o src/nanopolish_train_poremodel_from_basecalls.o src/nanopolish_variant_db.o src/training_core.o src/thirdparty/scrappie/event_detection.o src/thirdparty/scrappie/scrappie_common.o src/thirdparty/scrappie/util.o src/thirdparty/stdaln.o -lz -lrt -lhdf5 -lhts -Wl,-Bsymbolic-functions -Wl,-z,relro -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -Wdate-time -D_FORTIFY_SOURCE=2 -L/usr/lib/i386-linux-gnu/hdf5/serial g++ -o nanopolish_test -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -std=c++11 -fopenmp -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5/src -I./src -I./src/hmm -I./src/thirdparty -I./src/thirdparty/scrappie -I./src/common -I./src/alignment -I/usr/include/eigen3/ -fPIC src/test/nanopolish_test.o src/alignment/nanopolish_alignment_db.o src/alignment/nanopolish_anchor.o src/alignment/nanopolish_eventalign.o src/common/fs_support.o src/common/logsum.o src/common/nanopolish_alphabet.o src/common/nanopolish_bam_processor.o src/common/nanopolish_bam_utils.o src/common/nanopolish_common.o src/common/nanopolish_iupac.o src/common/nanopolish_klcs.o src/common/nanopolish_model_names.o src/common/nanopolish_variant.o src/hmm/nanopolish_duration_model.o src/hmm/nanopolish_pore_model_set.o src/hmm/nanopolish_profile_hmm.o src/hmm/nanopolish_profile_hmm_r7.o src/hmm/nanopolish_profile_hmm_r9.o src/hmm/nanopolish_transition_parameters.o src/nanopolish_call_methylation.o src/nanopolish_call_variants.o src/nanopolish_extract.o src/nanopolish_getmodel.o src/nanopolish_haplotype.o src/nanopolish_index.o src/nanopolish_methyltrain.o src/nanopolish_phase_reads.o src/nanopolish_poremodel.o src/nanopolish_raw_loader.o src/nanopolish_read_db.o src/nanopolish_scorereads.o src/nanopolish_squiggle_read.o src/nanopolish_train_poremodel_from_basecalls.o src/nanopolish_variant_db.o src/training_core.o src/thirdparty/scrappie/event_detection.o src/thirdparty/scrappie/scrappie_common.o src/thirdparty/scrappie/util.o src/thirdparty/stdaln.o -lz -lrt -lhdf5 -lhts -Wl,-Bsymbolic-functions -Wl,-z,relro -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -flto -Wdate-time -D_FORTIFY_SOURCE=2 -L/usr/lib/i386-linux-gnu/hdf5/serial make[1]: Leaving directory '/<>' dh_auto_test -a make -j4 test make[1]: Entering directory '/<>' ./nanopolish_test =============================================================================== All tests passed (458 assertions in 6 test cases) make[1]: Leaving directory '/<>' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_auto_install -a dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: package nanopolish: unused substitution variable ${perl:Depends} dpkg-gencontrol: warning: package nanopolish: unused substitution variable ${perl:Depends} dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 131 INFO: pkgstriptranslations version 131 pkgstriptranslations: processing nanopolish (in debian/nanopolish); do_strip: , oemstrip: pkgstriptranslations: processing nanopolish-dbgsym (in debian/.debhelper/nanopolish/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/nanopolish/DEBIAN/control, package nanopolish, directory debian/nanopolish pkgstripfiles: Running PNG optimization (using 4 cpus) for package nanopolish ... pkgstripfiles: No PNG files. dpkg-deb: building package 'nanopolish' in '../nanopolish_0.8.1-2_i386.deb'. pkgstripfiles: processing control file: debian/.debhelper/nanopolish/dbgsym-root/DEBIAN/control, package nanopolish-dbgsym, directory debian/.debhelper/nanopolish/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package nanopolish-dbgsym ... pkgstripfiles: No PNG files. dpkg-deb: building package 'nanopolish-dbgsym' in 'debian/.debhelper/scratch-space/build-nanopolish/nanopolish-dbgsym_0.8.1-2_i386.deb'. Renaming nanopolish-dbgsym_0.8.1-2_i386.deb to nanopolish-dbgsym_0.8.1-2_i386.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../nanopolish_0.8.1-2_i386.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build nanopolish-0.8.1 dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20170920-0945 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ nanopolish_0.8.1-2_i386.changes: -------------------------------- Format: 1.8 Date: Tue, 19 Sep 2017 15:37:43 +0200 Source: nanopolish Binary: nanopolish Architecture: i386 Version: 0.8.1-2 Distribution: artful-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: nanopolish - consensus caller for nanopore sequencing data Changes: nanopolish (0.8.1-2) unstable; urgency=medium . * Team upload. * Hack around broken clean target which tries to build dependencies from external sources * DEP3 * Fix path tp hdf5 lib on i386 (thanks for the hint to Christian Seiler ) * Restrict Architectures: any-amd64 any-i386 x32 since immintrin.h is a x86/amd64 specific header for intrinsics not available on other architectures (Thanks for the hint to Gert Wollny ) * Depends: sse-support [any-i386] (thanks for the hint to Christian Seiler ) Checksums-Sha1: 69cd2ee43534876ec4095fe0594aa3a4b058870a 3702162 nanopolish-dbgsym_0.8.1-2_i386.ddeb 486f8f6edb7c85eb1a5ccec83626fa14feeac423 6747 nanopolish_0.8.1-2_i386.buildinfo 80af5211c9fef787b41daea8a8c1f761f167eb76 2236710 nanopolish_0.8.1-2_i386.deb Checksums-Sha256: 1c3b9fb588fb991914f980bd5bf43513f9a7b914ac057b81e503d8123c51f5d7 3702162 nanopolish-dbgsym_0.8.1-2_i386.ddeb 954362e0b58b84c06f7b01d4c15bb7723937dd0cb7597acf1cdfdb67f5d2fdd6 6747 nanopolish_0.8.1-2_i386.buildinfo 62aa68eadf8fba34e318ff39b5bf6ae5673f9461fd68e56d1dc6a4d3389a188d 2236710 nanopolish_0.8.1-2_i386.deb Files: 32bde6f530524a842659eba711abcb1f 3702162 debug extra nanopolish-dbgsym_0.8.1-2_i386.ddeb 0ece51a4f74738a8058ec94243cc9fd0 6747 science optional nanopolish_0.8.1-2_i386.buildinfo 397a87f33f65b57d77b127fad2704d21 2236710 science optional nanopolish_0.8.1-2_i386.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ nanopolish_0.8.1-2_i386.deb --------------------------- new debian package, version 2.0. size 2236710 bytes: control archive=1229 bytes. 663 bytes, 14 lines control 1379 bytes, 18 lines md5sums Package: nanopolish Version: 0.8.1-2 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 6300 Depends: libc6 (>= 2.23), libgcc1 (>= 1:3.3.1), libgomp1 (>= 4.9), libhdf5-100, libhts2, libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), sse-support Suggests: python, perl, make Section: science Priority: optional Homepage: https://github.com/jts/nanopolish Description: consensus caller for nanopore sequencing data Nanopolish uses a signal-level hidden Markov model for consensus calling of nanopore genome sequencing data. drwxr-xr-x root/root 0 2017-09-19 13:37 ./ drwxr-xr-x root/root 0 2017-09-19 13:37 ./usr/ drwxr-xr-x root/root 0 2017-09-19 13:37 ./usr/bin/ -rwxr-xr-x root/root 2454308 2017-09-19 13:37 ./usr/bin/nanopolish drwxr-xr-x root/root 0 2017-09-19 13:37 ./usr/lib/ drwxr-xr-x root/root 0 2017-09-19 13:37 ./usr/lib/nanopolish/ -rw-r--r-- root/root 2833 2017-09-11 14:02 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+------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: i386 Build-Space: 73908 Build-Time: 115 Distribution: artful-proposed Host Architecture: i386 Install-Time: 9 Job: nanopolish_0.8.1-2.dsc Machine Architecture: amd64 Package: nanopolish Package-Time: 126 Source-Version: 0.8.1-2 Space: 73908 Status: successful Version: 0.8.1-2 -------------------------------------------------------------------------------- Finished at 20170920-0945 Build needed 00:02:06, 73908k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=artful --arch=i386 PACKAGEBUILD-13395508 Scanning for processes to kill in build PACKAGEBUILD-13395508 RUN: /usr/share/launchpad-buildd/slavebin/in-target umount-chroot --backend=chroot --series=artful --arch=i386 PACKAGEBUILD-13395508 Stopping target for build PACKAGEBUILD-13395508 RUN: /usr/share/launchpad-buildd/slavebin/in-target remove-build --backend=chroot --series=artful --arch=i386 PACKAGEBUILD-13395508 Removing build PACKAGEBUILD-13395508