RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux lcy01-31 4.4.0-53-generic #74-Ubuntu SMP Fri Dec 2 15:59:10 UTC 2016 x86_64 Buildd toolchain package versions: launchpad-buildd_141 python-lpbuildd_141 sbuild_0.67.0-2ubuntu7 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1 dpkg-dev_1.18.4ubuntu1.1 python-debian_0.1.27ubuntu2 qemu-user-static_1:2.5+dfsg-5ubuntu10.6. Syncing the system clock with the buildd NTP service... 13 Dec 07:51:10 ntpdate[1876]: adjust time server 10.211.37.1 offset 0.006559 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-11399712', '/home/buildd/filecache-default/5ce6418ad8acb4cb980a16cd30f1736d3291c7a9'] Unpacking chroot for build PACKAGEBUILD-11399712 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-11399712'] Mounting chroot for build PACKAGEBUILD-11399712 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-11399712', 'deb http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty main', 'deb http://ftpmaster.internal/ubuntu zesty main universe'] Overriding sources.list in build-PACKAGEBUILD-11399712 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-11399712', 'i386'] Updating debian chroot for build PACKAGEBUILD-11399712 Get:1 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty InRelease [17.5 kB] Get:2 http://ftpmaster.internal/ubuntu zesty InRelease [253 kB] Ign:1 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty InRelease Get:3 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 Packages [34.7 kB] Get:4 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main Translation-en [12.1 kB] Get:5 http://ftpmaster.internal/ubuntu zesty/main i386 Packages [1227 kB] Get:6 http://ftpmaster.internal/ubuntu zesty/main Translation-en [584 kB] Get:7 http://ftpmaster.internal/ubuntu zesty/universe i386 Packages [7941 kB] Get:8 http://ftpmaster.internal/ubuntu zesty/universe Translation-en [4622 kB] Fetched 14.7 MB in 4s (3402 kB/s) Reading package lists... W: GPG error: http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty InRelease: The following signatures couldn't be verified because the public key is not available: NO_PUBKEY 1E9377A2BA9EF27F W: The repository 'http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty InRelease' is not signed. Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: g++-6 libperl5.22 libstdc++-6-dev perl-modules-5.22 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: cpp-7 g++-7 gcc-7 gcc-7-base libasan4 libgcc-7-dev libperl5.24 libstdc++-7-dev perl-modules-5.24 The following packages will be upgraded: adduser base-files base-passwd bash binutils bsdutils cpp cpp-6 debianutils diffutils dmsetup findutils g++ g++-6 gcc gcc-6 gcc-6-base grep init init-system-helpers libapparmor1 libasan3 libasn1-8-heimdal libassuan0 libatomic1 libblkid1 libcc1-0 libcilkrts5 libcurl3-gnutls libdevmapper1.02.1 libfdisk1 libgcc-6-dev libgcc1 libgcrypt20 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libgssapi3-heimdal libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhogweed4 libhx509-5-heimdal libitm1 libk5crypto3 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libksba8 libldap-2.4-2 liblzma5 libmount1 libmpx2 libnettle6 libnpth0 libpng16-16 libquadmath0 libroken18-heimdal libsasl2-2 libsasl2-modules-db libselinux1 libsemanage-common libsemanage1 libsepol1 libslang2 libsmartcols1 libsqlite3-0 libssl1.0.0 libstdc++-6-dev libstdc++6 libsystemd0 libubsan0 libudev1 libustr-1.0-1 libuuid1 libwind0-heimdal linux-libc-dev mount openssl perl perl-base pinentry-curses pkg-create-dbgsym systemd systemd-sysv tar tzdata ubuntu-keyring util-linux xz-utils 91 upgraded, 9 newly installed, 0 to remove and 0 not upgraded. Need to get 154 MB of archives. After this operation, 463 MB of additional disk space will be used. WARNING: The following packages cannot be authenticated! gcc-7-base libgcc1 libstdc++6 libquadmath0 libitm1 libgomp1 libatomic1 libubsan0 libcilkrts5 libmpx2 libcc1-0 cpp-7 cpp libasan4 libgcc-7-dev gcc-7 gcc libstdc++-7-dev g++-7 g++ Authentication warning overridden. Get:1 http://ftpmaster.internal/ubuntu zesty/main i386 base-files i386 9.6ubuntu8 [56.9 kB] Get:2 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 gcc-7-base i386 7-20161212-0ubuntu2 [14.2 kB] Get:3 http://ftpmaster.internal/ubuntu zesty/main i386 debianutils i386 4.8.1 [85.8 kB] Get:4 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libgcc1 i386 1:7-20161212-0ubuntu2 [46.7 kB] Get:5 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libstdc++6 i386 7-20161212-0ubuntu2 [435 kB] Get:6 http://ftpmaster.internal/ubuntu zesty/main i386 bash i386 4.4-2ubuntu1 [622 kB] Get:7 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libquadmath0 i386 7-20161212-0ubuntu2 [204 kB] Get:8 http://ftpmaster.internal/ubuntu zesty/main i386 bsdutils i386 1:2.29-1ubuntu2 [58.4 kB] Get:9 http://ftpmaster.internal/ubuntu zesty/main i386 diffutils i386 1:3.5-1 [167 kB] Get:10 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libitm1 i386 7-20161212-0ubuntu2 [30.3 kB] Get:11 http://ftpmaster.internal/ubuntu zesty/main i386 findutils i386 4.6.0+git+20161106-1 [291 kB] Get:12 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libgomp1 i386 7-20161212-0ubuntu2 [80.0 kB] Get:13 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libatomic1 i386 7-20161212-0ubuntu2 [9722 B] Get:14 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libubsan0 i386 7-20161212-0ubuntu2 [134 kB] Get:15 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libcilkrts5 i386 7-20161212-0ubuntu2 [47.2 kB] Get:16 http://ftpmaster.internal/ubuntu zesty/main i386 grep i386 2.27-1 [158 kB] Get:17 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libmpx2 i386 7-20161212-0ubuntu2 [12.6 kB] Get:18 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libcc1-0 i386 7-20161212-0ubuntu2 [33.2 kB] Get:19 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 cpp-7 i386 7-20161212-0ubuntu2 [32.2 MB] Get:20 http://ftpmaster.internal/ubuntu zesty/main i386 libuuid1 i386 2.29-1ubuntu2 [15.7 kB] Get:21 http://ftpmaster.internal/ubuntu zesty/main i386 libblkid1 i386 2.29-1ubuntu2 [125 kB] Get:22 http://ftpmaster.internal/ubuntu zesty/main i386 libfdisk1 i386 2.29-1ubuntu2 [161 kB] Get:23 http://ftpmaster.internal/ubuntu zesty/main i386 libselinux1 i386 2.6-3 [73.3 kB] Get:24 http://ftpmaster.internal/ubuntu zesty/main i386 util-linux i386 2.29-1ubuntu2 [927 kB] Get:25 http://ftpmaster.internal/ubuntu zesty/main i386 mount i386 2.29-1ubuntu2 [136 kB] Get:26 http://ftpmaster.internal/ubuntu zesty/main i386 perl-modules-5.24 all 5.24.1~rc4-1 [2663 kB] Get:27 http://ftpmaster.internal/ubuntu zesty/main i386 libperl5.24 i386 5.24.1~rc4-1 [3081 kB] Get:28 http://ftpmaster.internal/ubuntu zesty/main i386 perl i386 5.24.1~rc4-1 [219 kB] Get:29 http://ftpmaster.internal/ubuntu zesty/main i386 perl-base i386 5.24.1~rc4-1 [1408 kB] Get:30 http://ftpmaster.internal/ubuntu zesty/main i386 tar i386 1.29b-1.1 [236 kB] Get:31 http://ftpmaster.internal/ubuntu zesty/main i386 base-passwd i386 3.5.42 [49.1 kB] Get:32 http://ftpmaster.internal/ubuntu zesty/main i386 init-system-helpers all 1.46 [37.3 kB] Get:33 http://ftpmaster.internal/ubuntu zesty/main i386 libapparmor1 i386 2.10.95-4ubuntu5.2 [31.6 kB] Get:34 http://ftpmaster.internal/ubuntu zesty/main i386 libgpg-error0 i386 1.25-2 [37.3 kB] Get:35 http://ftpmaster.internal/ubuntu zesty/main i386 libgcrypt20 i386 1.7.3-2 [372 kB] Get:36 http://ftpmaster.internal/ubuntu zesty/main i386 liblzma5 i386 5.2.2-1.2 [98.7 kB] Get:37 http://ftpmaster.internal/ubuntu zesty/main i386 libmount1 i386 2.29-1ubuntu2 [130 kB] Get:38 http://ftpmaster.internal/ubuntu zesty/main i386 adduser all 3.113+nmu3ubuntu5 [161 kB] Get:39 http://ftpmaster.internal/ubuntu zesty/main i386 systemd i386 232-7 [2406 kB] Get:40 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 cpp i386 4:7-20161116-1ubuntu2 [27.4 kB] Get:41 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libasan4 i386 7-20161212-0ubuntu2 [353 kB] Get:42 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libgcc-7-dev i386 7-20161212-0ubuntu2 [2361 kB] Get:43 http://ftpmaster.internal/ubuntu zesty/main i386 libsystemd0 i386 232-7 [228 kB] Get:44 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 gcc-7 i386 7-20161212-0ubuntu2 [32.0 MB] Get:45 http://ftpmaster.internal/ubuntu zesty/main i386 init i386 1.46 [5318 B] Get:46 http://ftpmaster.internal/ubuntu zesty/main i386 systemd-sysv i386 232-7 [13.9 kB] Get:47 http://ftpmaster.internal/ubuntu zesty/main i386 libsepol1 i386 2.6-2 [240 kB] Get:48 http://ftpmaster.internal/ubuntu zesty/main i386 libustr-1.0-1 i386 1.0.4-6 [63.7 kB] Get:49 http://ftpmaster.internal/ubuntu zesty/main i386 libsemanage-common all 2.6-1 [6832 B] Get:50 http://ftpmaster.internal/ubuntu zesty/main i386 libsemanage1 i386 2.6-1 [89.9 kB] Get:51 http://ftpmaster.internal/ubuntu zesty/main i386 libsmartcols1 i386 2.29-1ubuntu2 [75.9 kB] Get:52 http://ftpmaster.internal/ubuntu zesty/main i386 libudev1 i386 232-7 [60.3 kB] Get:53 http://ftpmaster.internal/ubuntu zesty/main i386 ubuntu-keyring all 2016.10.27 [16.6 kB] Get:54 http://ftpmaster.internal/ubuntu zesty/main i386 libasan3 i386 6.2.1-5ubuntu1 [308 kB] Get:55 http://ftpmaster.internal/ubuntu zesty/main i386 g++-6 i386 6.2.1-5ubuntu1 [7622 kB] Get:56 http://ftpmaster.internal/ubuntu zesty/main i386 libstdc++-6-dev i386 6.2.1-5ubuntu1 [1465 kB] Get:57 http://ftpmaster.internal/ubuntu zesty/main i386 gcc-6 i386 6.2.1-5ubuntu1 [7370 kB] Get:58 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 gcc i386 4:7-20161116-1ubuntu2 [5214 B] Get:59 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 libstdc++-7-dev i386 7-20161212-0ubuntu2 [1523 kB] Get:60 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 g++-7 i386 7-20161212-0ubuntu2 [34.7 MB] Get:61 http://ftpmaster.internal/ubuntu zesty/main i386 libgcc-6-dev i386 6.2.1-5ubuntu1 [2313 kB] Get:62 http://ftpmaster.internal/ubuntu zesty/main i386 binutils i386 2.27.51.20161201-1ubuntu1 [2516 kB] Get:63 http://ftpmaster.internal/ubuntu zesty/main i386 cpp-6 i386 6.2.1-5ubuntu1 [6827 kB] Get:64 http://ftpmaster.internal/ubuntu zesty/main i386 gcc-6-base i386 6.2.1-5ubuntu1 [16.8 kB] Get:65 http://ftpmaster.internal/ubuntu zesty/main i386 tzdata all 2016j-2 [204 kB] Get:66 http://ftpmaster.internal/ubuntu zesty/main i386 libdevmapper1.02.1 i386 2:1.02.136-1ubuntu1 [146 kB] Get:67 http://ftpmaster.internal/ubuntu zesty/main i386 dmsetup i386 2:1.02.136-1ubuntu1 [72.9 kB] Get:68 http://ftpmaster.internal/ubuntu zesty/main i386 libroken18-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [44.4 kB] Get:69 http://ftpmaster.internal/ubuntu zesty/main i386 libasn1-8-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [187 kB] Get:70 http://ftpmaster.internal/ubuntu zesty/main i386 libassuan0 i386 2.4.3-2 [36.6 kB] Get:71 http://ftpmaster.internal/ubuntu zesty/main i386 libhogweed4 i386 3.3-1 [137 kB] Get:72 http://ftpmaster.internal/ubuntu zesty/main i386 libnettle6 i386 3.3-1 [109 kB] Get:73 http://ftpmaster.internal/ubuntu zesty/main i386 libgnutls30 i386 3.5.6-4ubuntu2 [642 kB] Get:74 http://ftpmaster.internal/ubuntu zesty/main i386 libheimbase1-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [32.1 kB] Get:75 http://ftpmaster.internal/ubuntu zesty/main i386 libhcrypto4-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [93.1 kB] Get:76 http://ftpmaster.internal/ubuntu zesty/main i386 libwind0-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [48.4 kB] Get:77 http://ftpmaster.internal/ubuntu zesty/main i386 libhx509-5-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [118 kB] Get:78 http://ftpmaster.internal/ubuntu zesty/main i386 libsqlite3-0 i386 3.15.1-1 [516 kB] Get:79 http://ftpmaster.internal/ubuntu zesty/main i386 libkrb5-26-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [227 kB] Get:80 http://ftpmaster.internal/ubuntu zesty/main i386 libheimntlm0-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [16.6 kB] Get:81 http://ftpmaster.internal/ubuntu zesty/main i386 libgssapi3-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [108 kB] Get:82 http://ftpmaster.internal/ubuntu zesty/main i386 libksba8 i386 1.3.5-2 [99.9 kB] Get:83 http://ftpmaster.internal/ubuntu zesty/main i386 libsasl2-modules-db i386 2.1.27~72-g88d82a3+dfsg-1 [16.0 kB] Get:84 http://ftpmaster.internal/ubuntu zesty/main i386 libsasl2-2 i386 2.1.27~72-g88d82a3+dfsg-1 [52.3 kB] Get:85 http://ftpmaster.internal/ubuntu zesty/main i386 libldap-2.4-2 i386 2.4.42+dfsg-2ubuntu5 [173 kB] Get:86 http://ppa.launchpad.net/ubuntu-toolchain-r/test/ubuntu zesty/main i386 g++ i386 4:7-20161116-1ubuntu2 [1490 B] Get:87 http://ftpmaster.internal/ubuntu zesty/main i386 libnpth0 i386 1.3-1 [8414 B] Get:88 http://ftpmaster.internal/ubuntu zesty/main i386 libslang2 i386 2.3.1-5ubuntu1 [423 kB] Get:89 http://ftpmaster.internal/ubuntu zesty/main i386 libssl1.0.0 i386 1.0.2g-1ubuntu10 [910 kB] Get:90 http://ftpmaster.internal/ubuntu zesty/main i386 pinentry-curses i386 1.0.0-1 [33.4 kB] Get:91 http://ftpmaster.internal/ubuntu zesty/main i386 xz-utils i386 5.2.2-1.2 [86.3 kB] Get:92 http://ftpmaster.internal/ubuntu zesty/main i386 libgssapi-krb5-2 i386 1.15~beta1-1 [129 kB] Get:93 http://ftpmaster.internal/ubuntu zesty/main i386 libkrb5-3 i386 1.15~beta1-1 [299 kB] Get:94 http://ftpmaster.internal/ubuntu zesty/main i386 libkrb5support0 i386 1.15~beta1-1 [33.7 kB] Get:95 http://ftpmaster.internal/ubuntu zesty/main i386 libk5crypto3 i386 1.15~beta1-1 [87.4 kB] Get:96 http://ftpmaster.internal/ubuntu zesty/main i386 libcurl3-gnutls i386 7.51.0-1ubuntu1 [210 kB] Get:97 http://ftpmaster.internal/ubuntu zesty/main i386 libpng16-16 i386 1.6.26-2ubuntu1 [181 kB] Get:98 http://ftpmaster.internal/ubuntu zesty/main i386 openssl i386 1.0.2g-1ubuntu10 [506 kB] Get:99 http://ftpmaster.internal/ubuntu zesty/main i386 linux-libc-dev i386 4.8.0-30.32 [866 kB] Get:100 http://ftpmaster.internal/ubuntu zesty/main i386 pkg-create-dbgsym all 0.73 [8952 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 154 MB in 4s (30.9 MB/s) (Reading database ... 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Setting up perl-modules-5.24 (5.24.1~rc4-1) ... Setting up libperl5.24:i386 (5.24.1~rc4-1) ... Setting up libnettle6:i386 (3.3-1) ... Setting up libcc1-0:i386 (7-20161212-0ubuntu2) ... Setting up libssl1.0.0:i386 (1.0.2g-1ubuntu10) ... Setting up libasan4:i386 (7-20161212-0ubuntu2) ... Setting up libpng16-16:i386 (1.6.26-2ubuntu1) ... Setting up libcilkrts5:i386 (7-20161212-0ubuntu2) ... Setting up tzdata (2016j-2) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Dec 13 07:51:59 UTC 2016. Universal Time is now: Tue Dec 13 07:51:59 UTC 2016. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up systemd-sysv (232-7) ... Setting up libubsan0:i386 (7-20161212-0ubuntu2) ... Setting up gcc-6-base:i386 (6.2.1-5ubuntu1) ... Setting up libsasl2-modules-db:i386 (2.1.27~72-g88d82a3+dfsg-1) ... Setting up linux-libc-dev:i386 (4.8.0-30.32) ... Setting up libsasl2-2:i386 (2.1.27~72-g88d82a3+dfsg-1) ... Setting up libroken18-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up libksba8:i386 (1.3.5-2) ... Setting up libdevmapper1.02.1:i386 (2:1.02.136-1ubuntu1) ... Setting up libkrb5support0:i386 (1.15~beta1-1) ... Setting up cpp-7 (7-20161212-0ubuntu2) ... Setting up libhogweed4:i386 (3.3-1) ... Setting up perl (5.24.1~rc4-1) ... Installing new version of config file /etc/perl/sitecustomize.pl ... Setting up libmpx2:i386 (7-20161212-0ubuntu2) ... Processing triggers for libc-bin (2.24-3ubuntu1) ... Setting up pkg-create-dbgsym (0.73) ... Setting up xz-utils (5.2.2-1.2) ... Setting up libheimbase1-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up openssl (1.0.2g-1ubuntu10) ... Setting up libsqlite3-0:i386 (3.15.1-1) ... Setting up dmsetup (2:1.02.136-1ubuntu1) ... Setting up binutils (2.27.51.20161201-1ubuntu1) ... Setting up cpp-6 (6.2.1-5ubuntu1) ... Setting up libslang2:i386 (2.3.1-5ubuntu1) ... Setting up libassuan0:i386 (2.4.3-2) ... Setting up libitm1:i386 (7-20161212-0ubuntu2) ... Setting up cpp (4:7-20161116-1ubuntu2) ... Setting up libk5crypto3:i386 (1.15~beta1-1) ... Setting up libasan3:i386 (6.2.1-5ubuntu1) ... Setting up libgcc-6-dev:i386 (6.2.1-5ubuntu1) ... Setting up libstdc++-6-dev:i386 (6.2.1-5ubuntu1) ... Setting up libwind0-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up init (1.46) ... Setting up libasn1-8-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up libhcrypto4-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up libgnutls30:i386 (3.5.6-4ubuntu2) ... Setting up libhx509-5-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up libgcc-7-dev:i386 (7-20161212-0ubuntu2) ... Setting up gcc-6 (6.2.1-5ubuntu1) ... Setting up g++-6 (6.2.1-5ubuntu1) ... Setting up libstdc++-7-dev:i386 (7-20161212-0ubuntu2) ... Setting up pinentry-curses (1.0.0-1) ... Setting up libkrb5-3:i386 (1.15~beta1-1) ... Setting up libkrb5-26-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up libheimntlm0-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up gcc-7 (7-20161212-0ubuntu2) ... Setting up g++-7 (7-20161212-0ubuntu2) ... Setting up gcc (4:7-20161116-1ubuntu2) ... Setting up libgssapi-krb5-2:i386 (1.15~beta1-1) ... Setting up g++ (4:7-20161116-1ubuntu2) ... Setting up libgssapi3-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up libldap-2.4-2:i386 (2.4.42+dfsg-2ubuntu5) ... Setting up libcurl3-gnutls:i386 (7.51.0-1ubuntu1) ... Processing triggers for libc-bin (2.24-3ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-11399712', 'i386', 'zesty', '-c', 'chroot:autobuild', '--arch=i386', '--dist=zesty', '--purge=never', '--nolog', 'bcftools_1.3.1-1.dsc'] Initiating build PACKAGEBUILD-11399712 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-53-generic #74-Ubuntu SMP Fri Dec 2 15:59:10 UTC 2016 i686 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lcy01-31.buildd +==============================================================================+ | bcftools 1.3.1-1 (i386) 13 Dec 2016 07:52 | +==============================================================================+ Package: bcftools Version: 1.3.1-1 Source Version: 1.3.1-1 Distribution: zesty Machine Architecture: amd64 Host Architecture: i386 Build Architecture: i386 I: NOTICE: Log filtering will replace 'build/bcftools-zXnnlN/bcftools-1.3.1' with '<>' I: NOTICE: Log filtering will replace 'build/bcftools-zXnnlN' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-11399712/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- bcftools_1.3.1-1.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-C9oMyB/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-C9oMyB/apt_archive ./ InRelease Get:2 copy:/<>/resolver-C9oMyB/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-C9oMyB/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-C9oMyB/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-C9oMyB/apt_archive ./ Packages [526 B] Fetched 2859 B in 0s (194 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: g++-6 libperl5.22 libstdc++-6-dev perl-modules-5.22 Use 'sudo 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 770 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-C9oMyB/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [770 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 770 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 (>= 9), zlib1g-dev, libhts-dev (>= 1.3.1), libgsl-dev, tabix, libio-pty-perl Filtered Build-Depends: debhelper (>= 9), zlib1g-dev, libhts-dev (>= 1.3.1), libgsl-dev, tabix, libio-pty-perl dpkg-deb: building package 'sbuild-build-depends-bcftools-dummy' in '/<>/resolver-V3U58M/apt_archive/sbuild-build-depends-bcftools-dummy.deb'. Ign:1 copy:/<>/resolver-V3U58M/apt_archive ./ InRelease Get:2 copy:/<>/resolver-V3U58M/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-V3U58M/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-V3U58M/apt_archive ./ Sources [248 B] Get:5 copy:/<>/resolver-V3U58M/apt_archive ./ Packages [566 B] Fetched 2933 B in 0s (221 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install bcftools 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 libperl5.22 libstdc++-6-dev perl-modules-5.22 Use 'sudo 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 intltool-debian libarchive-zip-perl libbsd0 libcroco3 libfile-stripnondeterminism-perl libglib2.0-0 libgsl-dev libgsl2 libhts-dev libhts1 libicu57 libio-pty-perl libmagic1 libpipeline1 libsigsegv2 libtimedate-perl libtool libunistring0 libxml2 m4 man-db 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 gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libtool-doc gfortran | fortran95-compiler gcj-jdk less www-browser libmail-box-perl Recommended packages: curl | wget | lynx-cur libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev xml-core libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libfile-stripnondeterminism-perl libglib2.0-0 libgsl-dev libgsl2 libhts-dev libhts1 libicu57 libio-pty-perl libmagic1 libpipeline1 libsigsegv2 libtimedate-perl libtool libunistring0 libxml2 m4 man-db po-debconf sbuild-build-depends-bcftools-dummy tabix zlib1g-dev 0 upgraded, 37 newly installed, 0 to remove and 0 not upgraded. Need to get 19.5 MB of archives. After this operation, 75.7 MB of additional disk space will be used. Get:1 copy:/<>/resolver-V3U58M/apt_archive ./ sbuild-build-depends-bcftools-dummy 0.invalid.0 [812 B] Get:2 http://ftpmaster.internal/ubuntu zesty/main i386 groff-base i386 1.22.3-8 [1150 kB] Get:3 http://ftpmaster.internal/ubuntu zesty/main i386 libbsd0 i386 0.8.3-1 [44.9 kB] Get:4 http://ftpmaster.internal/ubuntu zesty/main i386 bsdmainutils i386 9.0.12ubuntu1 [175 kB] Get:5 http://ftpmaster.internal/ubuntu zesty/main i386 libpipeline1 i386 1.4.1-2 [26.5 kB] Get:6 http://ftpmaster.internal/ubuntu zesty/main i386 man-db i386 2.7.5-2 [867 kB] Get:7 http://ftpmaster.internal/ubuntu zesty/main i386 libunistring0 i386 0.9.3-5.2ubuntu1 [277 kB] Get:8 http://ftpmaster.internal/ubuntu zesty/main i386 libmagic1 i386 1:5.28-2ubuntu1 [240 kB] Get:9 http://ftpmaster.internal/ubuntu zesty/main i386 file i386 1:5.28-2ubuntu1 [21.7 kB] Get:10 http://ftpmaster.internal/ubuntu zesty/main i386 gettext-base i386 0.19.8.1-1ubuntu2 [49.0 kB] Get:11 http://ftpmaster.internal/ubuntu zesty/main i386 libglib2.0-0 i386 2.51.0-2 [1214 kB] Get:12 http://ftpmaster.internal/ubuntu zesty/main i386 libicu57 i386 57.1-4 [7816 kB] Get:13 http://ftpmaster.internal/ubuntu zesty/main i386 libxml2 i386 2.9.4+dfsg1-2 [733 kB] Get:14 http://ftpmaster.internal/ubuntu zesty/main i386 libsigsegv2 i386 2.10-5 [14.3 kB] Get:15 http://ftpmaster.internal/ubuntu zesty/main i386 m4 i386 1.4.17-5 [195 kB] Get:16 http://ftpmaster.internal/ubuntu zesty/main i386 autoconf all 2.69-10 [321 kB] Get:17 http://ftpmaster.internal/ubuntu zesty/main i386 autotools-dev all 20161112.1 [39.5 kB] Get:18 http://ftpmaster.internal/ubuntu zesty/main i386 automake all 1:1.15-5ubuntu1 [509 kB] Get:19 http://ftpmaster.internal/ubuntu zesty/main i386 autopoint all 0.19.8.1-1ubuntu2 [412 kB] Get:20 http://ftpmaster.internal/ubuntu zesty/main i386 libtool all 2.4.6-2 [194 kB] Get:21 http://ftpmaster.internal/ubuntu zesty/main i386 dh-autoreconf all 12 [15.8 kB] Get:22 http://ftpmaster.internal/ubuntu zesty/main i386 libarchive-zip-perl all 1.59-1 [84.0 kB] Get:23 http://ftpmaster.internal/ubuntu zesty/main i386 libfile-stripnondeterminism-perl all 0.028-1 [12.5 kB] Get:24 http://ftpmaster.internal/ubuntu zesty/main i386 libtimedate-perl all 2.3000-2 [37.5 kB] Get:25 http://ftpmaster.internal/ubuntu zesty/main i386 dh-strip-nondeterminism all 0.028-1 [4820 B] Get:26 http://ftpmaster.internal/ubuntu zesty/main i386 libcroco3 i386 0.6.11-2 [87.1 kB] Get:27 http://ftpmaster.internal/ubuntu zesty/main i386 gettext i386 0.19.8.1-1ubuntu2 [1086 kB] Get:28 http://ftpmaster.internal/ubuntu zesty/main i386 intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:29 http://ftpmaster.internal/ubuntu zesty/main i386 po-debconf all 1.0.20 [232 kB] Get:30 http://ftpmaster.internal/ubuntu zesty/main i386 debhelper all 10.2.2ubuntu1 [742 kB] Get:31 http://ftpmaster.internal/ubuntu zesty/main i386 libgsl2 i386 2.2.1+dfsg-1 [850 kB] Get:32 http://ftpmaster.internal/ubuntu zesty/main i386 libgsl-dev i386 2.2.1+dfsg-1 [1005 kB] Get:33 http://ftpmaster.internal/ubuntu zesty/universe i386 libhts1 i386 1.3.2-1ubuntu1 [270 kB] Get:34 http://ftpmaster.internal/ubuntu zesty/universe i386 libhts-dev i386 1.3.2-1ubuntu1 [316 kB] Get:35 http://ftpmaster.internal/ubuntu zesty/main i386 libio-pty-perl i386 1:1.08-1.1build3 [30.7 kB] Get:36 http://ftpmaster.internal/ubuntu zesty/universe i386 tabix i386 1.3.2-1ubuntu1 [259 kB] Get:37 http://ftpmaster.internal/ubuntu zesty/main i386 zlib1g-dev i386 1:1.2.8.dfsg-2ubuntu5 [167 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 19.5 MB in 1s (10.8 MB/s) Selecting previously unselected package groff-base. (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 ... 15135 files and directories currently installed.) Preparing to unpack .../00-groff-base_1.22.3-8_i386.deb ... Unpacking groff-base (1.22.3-8) ... Selecting previously unselected package libbsd0:i386. Preparing to unpack .../01-libbsd0_0.8.3-1_i386.deb ... Unpacking libbsd0:i386 (0.8.3-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../02-bsdmainutils_9.0.12ubuntu1_i386.deb ... Unpacking bsdmainutils (9.0.12ubuntu1) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../03-libpipeline1_1.4.1-2_i386.deb ... Unpacking libpipeline1:i386 (1.4.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.7.5-2_i386.deb ... Unpacking man-db (2.7.5-2) ... Selecting previously unselected package libunistring0:i386. Preparing to unpack .../05-libunistring0_0.9.3-5.2ubuntu1_i386.deb ... Unpacking libunistring0:i386 (0.9.3-5.2ubuntu1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../06-libmagic1_1%3a5.28-2ubuntu1_i386.deb ... Unpacking libmagic1:i386 (1:5.28-2ubuntu1) ... Selecting previously unselected package file. Preparing to unpack .../07-file_1%3a5.28-2ubuntu1_i386.deb ... Unpacking file (1:5.28-2ubuntu1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../08-gettext-base_0.19.8.1-1ubuntu2_i386.deb ... 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Setting up libglib2.0-0:i386 (2.51.0-2) ... No schema files found: doing nothing. Setting up gettext-base (0.19.8.1-1ubuntu2) ... Setting up libpipeline1:i386 (1.4.1-2) ... Setting up libgsl2:i386 (2.2.1+dfsg-1) ... Setting up m4 (1.4.17-5) ... Setting up libicu57:i386 (57.1-4) ... Setting up libbsd0:i386 (0.8.3-1) ... Setting up libxml2:i386 (2.9.4+dfsg1-2) ... Setting up libmagic1:i386 (1:5.28-2ubuntu1) ... Setting up libcroco3:i386 (0.6.11-2) ... Processing triggers for libc-bin (2.24-3ubuntu1) ... Setting up autotools-dev (20161112.1) ... Setting up libunistring0:i386 (0.9.3-5.2ubuntu1) ... Setting up tabix (1.3.2-1ubuntu1) ... Setting up bsdmainutils (9.0.12ubuntu1) ... 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 autopoint (0.19.8.1-1ubuntu2) ... Setting up zlib1g-dev:i386 (1:1.2.8.dfsg-2ubuntu5) ... Setting up libfile-stripnondeterminism-perl (0.028-1) ... Setting up gettext (0.19.8.1-1ubuntu2) ... Setting up libgsl-dev (2.2.1+dfsg-1) ... Setting up autoconf (2.69-10) ... Setting up file (1:5.28-2ubuntu1) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up automake (1:1.15-5ubuntu1) ... update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.7.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libtool (2.4.6-2) ... Setting up po-debconf (1.0.20) ... Setting up dh-autoreconf (12) ... Setting up dh-strip-nondeterminism (0.028-1) ... Setting up debhelper (10.2.2ubuntu1) ... Setting up sbuild-build-depends-bcftools-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.24-3ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-53-generic amd64 (i686) Toolchain package versions: binutils_2.27.51.20161201-1ubuntu1 dpkg-dev_1.18.10ubuntu1 g++-6_6.2.1-5ubuntu1 g++-7_7-20161212-0ubuntu2 gcc-6_6.2.1-5ubuntu1 gcc-7_7-20161212-0ubuntu2 libc6-dev_2.24-3ubuntu1 libstdc++-6-dev_6.2.1-5ubuntu1 libstdc++-7-dev_7-20161212-0ubuntu2 libstdc++6_7-20161212-0ubuntu2 linux-libc-dev_4.8.0-30.32 Package versions: adduser_3.113+nmu3ubuntu5 advancecomp_1.20-1 apt_1.3.1 apt-transport-https_1.3.1 autoconf_2.69-10 automake_1:1.15-5ubuntu1 autopoint_0.19.8.1-1ubuntu2 autotools-dev_20161112.1 base-files_9.6ubuntu8 base-passwd_3.5.42 bash_4.4-2ubuntu1 binutils_2.27.51.20161201-1ubuntu1 bsdmainutils_9.0.12ubuntu1 bsdutils_1:2.29-1ubuntu2 build-essential_12.1ubuntu2 bzip2_1.0.6-8build1 ca-certificates_20160104ubuntu1 coreutils_8.25-2ubuntu2 cpp_4:7-20161116-1ubuntu2 cpp-6_6.2.1-5ubuntu1 cpp-7_7-20161212-0ubuntu2 dash_0.5.8-2.3ubuntu1 debconf_1.5.59ubuntu1 debhelper_10.2.2ubuntu1 debianutils_4.8.1 dh-autoreconf_12 dh-strip-nondeterminism_0.028-1 diffutils_1:3.5-1 dmsetup_2:1.02.136-1ubuntu1 dpkg_1.18.10ubuntu1 dpkg-dev_1.18.10ubuntu1 e2fslibs_1.43.3-1 e2fsprogs_1.43.3-1 fakeroot_1.21-1ubuntu2 file_1:5.28-2ubuntu1 findutils_4.6.0+git+20161106-1 g++_4:7-20161116-1ubuntu2 g++-6_6.2.1-5ubuntu1 g++-7_7-20161212-0ubuntu2 gcc_4:7-20161116-1ubuntu2 gcc-6_6.2.1-5ubuntu1 gcc-6-base_6.2.1-5ubuntu1 gcc-7_7-20161212-0ubuntu2 gcc-7-base_7-20161212-0ubuntu2 gettext_0.19.8.1-1ubuntu2 gettext-base_0.19.8.1-1ubuntu2 gnupg_2.1.15-1ubuntu6 gnupg-agent_2.1.15-1ubuntu6 gpgv_2.1.15-1ubuntu6 grep_2.27-1 groff-base_1.22.3-8 gzip_1.6-4ubuntu1 hostname_3.18 init_1.46 init-system-helpers_1.46 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3 libapparmor1_2.10.95-4ubuntu5.2 libapt-pkg5.0_1.3.1 libarchive-zip-perl_1.59-1 libasan3_6.2.1-5ubuntu1 libasan4_7-20161212-0ubuntu2 libasn1-8-heimdal_1.7~git20160703+dfsg-1ubuntu1 libassuan0_2.4.3-2 libatomic1_7-20161212-0ubuntu2 libattr1_1:2.4.47-2 libaudit-common_1:2.6.6-1ubuntu1 libaudit1_1:2.6.6-1ubuntu1 libblkid1_2.29-1ubuntu2 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8build1 libc-bin_2.24-3ubuntu1 libc-dev-bin_2.24-3ubuntu1 libc6_2.24-3ubuntu1 libc6-dev_2.24-3ubuntu1 libcap-ng0_0.7.7-3 libcap2_1:2.25-1 libcc1-0_7-20161212-0ubuntu2 libcilkrts5_7-20161212-0ubuntu2 libcomerr2_1.43.3-1 libcroco3_0.6.11-2 libcryptsetup4_2:1.7.2-0ubuntu1 libcurl3-gnutls_7.51.0-1ubuntu1 libdb5.3_5.3.28-12 libdebconfclient0_0.213ubuntu1 libdevmapper1.02.1_2:1.02.136-1ubuntu1 libdpkg-perl_1.18.10ubuntu1 libfakeroot_1.21-1ubuntu2 libfdisk1_2.29-1ubuntu2 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.028-1 libgcc-6-dev_6.2.1-5ubuntu1 libgcc-7-dev_7-20161212-0ubuntu2 libgcc1_1:7-20161212-0ubuntu2 libgcrypt20_1.7.3-2 libgdbm3_1.8.3-14 libglib2.0-0_2.51.0-2 libgmp10_2:6.1.1+dfsg-1 libgnutls30_3.5.6-4ubuntu2 libgomp1_7-20161212-0ubuntu2 libgpg-error0_1.25-2 libgsl-dev_2.2.1+dfsg-1 libgsl2_2.2.1+dfsg-1 libgssapi-krb5-2_1.15~beta1-1 libgssapi3-heimdal_1.7~git20160703+dfsg-1ubuntu1 libhcrypto4-heimdal_1.7~git20160703+dfsg-1ubuntu1 libheimbase1-heimdal_1.7~git20160703+dfsg-1ubuntu1 libheimntlm0-heimdal_1.7~git20160703+dfsg-1ubuntu1 libhogweed4_3.3-1 libhts-dev_1.3.2-1ubuntu1 libhts1_1.3.2-1ubuntu1 libhx509-5-heimdal_1.7~git20160703+dfsg-1ubuntu1 libicu57_57.1-4 libidn11_1.33-1 libio-pty-perl_1:1.08-1.1build3 libip4tc0_1.6.0-3ubuntu2 libisl15_0.17.1-1 libitm1_7-20161212-0ubuntu2 libk5crypto3_1.15~beta1-1 libkeyutils1_1.5.9-9ubuntu1 libkmod2_22-1.1ubuntu1 libkrb5-26-heimdal_1.7~git20160703+dfsg-1ubuntu1 libkrb5-3_1.15~beta1-1 libkrb5support0_1.15~beta1-1 libksba8_1.3.5-2 libldap-2.4-2_2.4.42+dfsg-2ubuntu5 liblockfile-bin_1.09-6ubuntu1 liblockfile1_1.09-6ubuntu1 liblz4-1_0.0~r131-2ubuntu2 liblzma5_5.2.2-1.2 libmagic1_1:5.28-2ubuntu1 libmount1_2.29-1ubuntu2 libmpc3_1.0.3-1 libmpfr4_3.1.5-1 libmpx2_7-20161212-0ubuntu2 libncurses5_6.0+20160625-1ubuntu1 libncursesw5_6.0+20160625-1ubuntu1 libnettle6_3.3-1 libnpth0_1.3-1 libp11-kit0_0.23.2-5 libpam-modules_1.1.8-3.2ubuntu2 libpam-modules-bin_1.1.8-3.2ubuntu2 libpam-runtime_1.1.8-3.2ubuntu2 libpam0g_1.1.8-3.2ubuntu2 libpcre3_2:8.39-2 libperl5.22_5.22.2-3 libperl5.24_5.24.1~rc4-1 libpipeline1_1.4.1-2 libpng16-16_1.6.26-2ubuntu1 libprocps6_2:3.3.12-1ubuntu2 libquadmath0_7-20161212-0ubuntu2 libreadline7_7.0-0ubuntu2 libroken18-heimdal_1.7~git20160703+dfsg-1ubuntu1 librtmp1_2.4+20151223.gitfa8646d.1-1 libsasl2-2_2.1.27~72-g88d82a3+dfsg-1 libsasl2-modules-db_2.1.27~72-g88d82a3+dfsg-1 libseccomp2_2.3.1-2ubuntu2 libselinux1_2.6-3 libsemanage-common_2.6-1 libsemanage1_2.6-1 libsepol1_2.6-2 libsigsegv2_2.10-5 libslang2_2.3.1-5ubuntu1 libsmartcols1_2.29-1ubuntu2 libsqlite3-0_3.15.1-1 libss2_1.43.3-1 libssl1.0.0_1.0.2g-1ubuntu10 libstdc++-6-dev_6.2.1-5ubuntu1 libstdc++-7-dev_7-20161212-0ubuntu2 libstdc++6_7-20161212-0ubuntu2 libsystemd0_232-7 libtasn1-6_4.9-4 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160625-1ubuntu1 libtool_2.4.6-2 libubsan0_7-20161212-0ubuntu2 libudev1_232-7 libunistring0_0.9.3-5.2ubuntu1 libusb-0.1-4_2:0.1.12-30 libustr-1.0-1_1.0.4-6 libuuid1_2.29-1ubuntu2 libwind0-heimdal_1.7~git20160703+dfsg-1ubuntu1 libxml2_2.9.4+dfsg1-2 linux-libc-dev_4.8.0-30.32 lockfile-progs_0.1.17 login_1:4.2-3.2ubuntu1 lsb-base_9.20160110ubuntu5 m4_1.4.17-5 make_4.1-9 man-db_2.7.5-2 mawk_1.3.3-17ubuntu2 mount_2.29-1ubuntu2 multiarch-support_2.24-3ubuntu1 ncurses-base_6.0+20160625-1ubuntu1 ncurses-bin_6.0+20160625-1ubuntu1 openssl_1.0.2g-1ubuntu10 optipng_0.7.6-1build1 passwd_1:4.2-3.2ubuntu1 patch_2.7.5-1 perl_5.24.1~rc4-1 perl-base_5.24.1~rc4-1 perl-modules-5.22_5.22.2-3 perl-modules-5.24_5.24.1~rc4-1 pinentry-curses_1.0.0-1 pkg-create-dbgsym_0.73 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-bcftools-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.2-8 sensible-utils_0.0.9 systemd_232-7 systemd-sysv_232-7 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.8git1 tabix_1.3.2-1ubuntu1 tar_1.29b-1.1 tzdata_2016j-2 ubuntu-keyring_2016.10.27 util-linux_2.29-1ubuntu2 xz-utils_5.2.2-1.2 zlib1g_1:1.2.8.dfsg-2ubuntu5 zlib1g-dev_1:1.2.8.dfsg-2ubuntu5 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Tue Apr 26 05:26:43 2016 UTC gpgv: using RSA key gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./bcftools_1.3.1-1.dsc dpkg-source: info: extracting bcftools in bcftools-1.3.1 dpkg-source: info: unpacking bcftools_1.3.1.orig.tar.gz dpkg-source: info: unpacking bcftools_1.3.1-1.debian.tar.xz dpkg-source: info: applying external-libs.patch dpkg-source: info: applying compiler-flags.patch dpkg-source: info: applying destdir.patch dpkg-source: info: applying tests-pluginpath.patch Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/home/buildd LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd MAIL=/var/mail/buildd OLDPWD=/ PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games PWD=/<> SHELL=/bin/sh SUDO_COMMAND=/usr/sbin/chroot /<> su buildd -s /bin/sh -c cd '/<>' && 'env' SUDO_GID=2501 SUDO_UID=2001 SUDO_USER=buildd TERM=unknown USER=buildd USERNAME=root dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package bcftools dpkg-buildpackage: info: source version 1.3.1-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build bcftools-1.3.1 dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean --parallel dh_testdir -O--parallel dh_auto_clean -O--parallel make -j4 distclean make[1]: Entering directory '/<>' rm -f test/*.o test/*~ test/test-rbuf rm -f plugins/*.so plugins/*.P rm -rf plugins/*.dSYM rm -f gmon.out *.o *~ bcftools version.h plugins/*.so plugins/*.P rm -rf *.dSYM plugins/*.dSYM test/*.dSYM rm -f TAGS make[1]: Leaving directory '/<>' dh_clean -O--parallel debian/rules build-arch dh build-arch --parallel dh_testdir -a -O--parallel dh_update_autotools_config -a -O--parallel dh_auto_configure -a -O--parallel dh_auto_build -a -O--parallel make -j4 make[1]: Entering directory '/<>' echo '#define BCFTOOLS_VERSION "1.3.1"' > version.h cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfindex.o vcfindex.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o tabix.o tabix.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfstats.o vcfstats.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfisec.o vcfisec.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfmerge.o vcfmerge.c vcfmerge.c: In function ‘info_rules_init’: vcfmerge.c:277:9: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while ( *ss ) ss++; ss++; ^~~~~ vcfmerge.c:277:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘while’ while ( *ss ) ss++; ss++; ^~ vcfmerge.c:303:9: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while ( *ss ) ss++; ss++; n++; ^~~~~ vcfmerge.c:303:29: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘while’ while ( *ss ) ss++; ss++; n++; ^~ cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfquery.o vcfquery.c vcfmerge.c: In function ‘debug_maux’: vcfmerge.c:1661:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for (j=0; jnals; j++) fprintf(stderr,"%s %dx %s", j==0?"":",",maux->cnt[j], maux->als[j]); fprintf(stderr,"\n"); ^~~ vcfmerge.c:1661:105: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for (j=0; jnals; j++) fprintf(stderr,"%s %dx %s", j==0?"":",",maux->cnt[j], maux->als[j]); fprintf(stderr,"\n"); ^~~~~~~ cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcffilter.o vcffilter.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o filter.o filter.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfsom.o vcfsom.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfnorm.o vcfnorm.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfgtcheck.o vcfgtcheck.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfview.o vcfview.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfannotate.o vcfannotate.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfroh.o vcfroh.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfconcat.o vcfconcat.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfcall.o vcfcall.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mcall.o mcall.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcmp.o vcmp.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gvcf.o gvcf.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o reheader.o reheader.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o convert.o convert.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfconvert.o vcfconvert.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o tsv2vcf.o tsv2vcf.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfcnv.o vcfcnv.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o HMM.o HMM.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vcfplugin.o vcfplugin.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o consensus.o consensus.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ploidy.o ploidy.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o version.o version.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ccall.o ccall.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o em.o em.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o prob1.o prob1.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o kmin.o kmin.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o polysomy.o polysomy.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o peakfit.o peakfit.c cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o test/test-rbuf.o test/test-rbuf.c test/test-rbuf.c: In function ‘debug_print’: test/test-rbuf.c:32:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for (i=-1; rbuf_next(rbuf, &i); ) printf(" %2d", i); printf("\n"); ^~~ test/test-rbuf.c:32:58: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for (i=-1; rbuf_next(rbuf, &i); ) printf(" %2d", i); printf("\n"); ^~~~~~ test/test-rbuf.c:33:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for (i=-1; rbuf_next(rbuf, &i); ) printf(" %2d", dat[i]); printf("\n"); ^~~ test/test-rbuf.c:33:63: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘for’ for (i=-1; rbuf_next(rbuf, &i); ) printf(" %2d", dat[i]); printf("\n"); ^~~~~~ cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/setGT.so version.c plugins/setGT.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/tag2tag.so version.c plugins/tag2tag.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/fixploidy.so ploidy.c version.c plugins/fixploidy.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/frameshifts.so version.c plugins/frameshifts.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/vcf2sex.so ploidy.c version.c plugins/vcf2sex.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/fill-tags.so version.c plugins/fill-tags.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/counts.so version.c plugins/counts.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/color-chrs.so HMM.c version.c plugins/color-chrs.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/mendelian.so version.c plugins/mendelian.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts plugins/mendelian.c: In function ‘init’: plugins/mendelian.c:149:13: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while ( *se && *se!=',' ) se++; if ( *se!=',' ) error("Could not parse %s: %s\n",trio_file, ss); ^~~~~ plugins/mendelian.c:149:45: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘while’ while ( *se && *se!=',' ) se++; if ( *se!=',' ) error("Could not parse %s: %s\n",trio_file, ss); ^~ plugins/mendelian.c:154:13: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while ( *se && *se!=',' ) se++; if ( *se!=',' ) error("Could not parse %s\n",trio_file); ^~~~~ plugins/mendelian.c:154:45: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘while’ while ( *se && *se!=',' ) se++; if ( *se!=',' ) error("Could not parse %s\n",trio_file); ^~ plugins/mendelian.c:159:13: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while ( *se ) se++; if ( ss==se ) error("Could not parse %s\n",trio_file); ^~~~~ plugins/mendelian.c:159:33: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘while’ while ( *se ) se++; if ( ss==se ) error("Could not parse %s\n",trio_file); ^~ plugins/vcf2sex.c: In function ‘run’: plugins/vcf2sex.c:415:17: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (*tmp) error("Unexpected argument to --nsites: %s\n", optarg); break; ^~ plugins/vcf2sex.c:415:83: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the ‘if’ if (*tmp) error("Unexpected argument to --nsites: %s\n", optarg); break; ^~~~~ cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/missing2ref.so version.c plugins/missing2ref.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/GTisec.so version.c plugins/GTisec.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/dosage.so version.c plugins/dosage.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/impute-info.so version.c plugins/impute-info.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -fPIC -shared -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -o plugins/fill-AN-AC.so version.c plugins/fill-AN-AC.c -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -g -Wall -Wc++-compat -O2 -I. -I/usr/include -DPLUGINPATH=\"/usr/lib/i386-linux-gnu/bcftools\" -DUSE_GPL -Wdate-time -D_FORTIFY_SOURCE=2 -c -o main.o main.c cc -Wl,-Bsymbolic-functions -Wl,-z,relro -o test/test-rbuf test/test-rbuf.o -lm -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts cc -rdynamic -Wl,-Bsymbolic-functions -Wl,-z,relro -o bcftools main.o vcfindex.o tabix.o vcfstats.o vcfisec.o vcfmerge.o vcfquery.o vcffilter.o filter.o vcfsom.o vcfnorm.o vcfgtcheck.o vcfview.o vcfannotate.o vcfroh.o vcfconcat.o vcfcall.o mcall.o vcmp.o gvcf.o reheader.o convert.o vcfconvert.o tsv2vcf.o vcfcnv.o HMM.o vcfplugin.o consensus.o ploidy.o version.o ccall.o em.o prob1.o kmin.o polysomy.o peakfit.o -lpthread -lz -lm -ldl -lgsl -lgslcblas -Wl,-Bsymbolic-functions -Wl,-z,relro -lhts make[1]: Leaving directory '/<>' dh_auto_test -a -O--parallel make -j4 test make[1]: Entering directory '/<>' ./test/test.pl --exec bgzip=/usr/bin/bgzip --exec tabix=/usr/bin/tabix test_usage: bcftools .. ok test_usage_subcommand: bcftools index .. ok test_usage_subcommand: bcftools annotate .. ok test_usage_subcommand: bcftools concat .. ok test_usage_subcommand: bcftools convert .. ok test_usage_subcommand: bcftools isec .. ok test_usage_subcommand: bcftools merge .. ok test_usage_subcommand: bcftools norm .. ok test_usage_subcommand: bcftools plugin .. ok test_usage_subcommand: bcftools query .. ok test_usage_subcommand: bcftools reheader .. ok test_usage_subcommand: bcftools view .. ok test_usage_subcommand: bcftools call .. ok test_usage_subcommand: bcftools consensus .. ok test_usage_subcommand: bcftools cnv .. ok test_usage_subcommand: bcftools filter .. ok test_usage_subcommand: bcftools gtcheck .. ok test_usage_subcommand: bcftools polysomy .. ok test_usage_subcommand: bcftools roh .. ok test_usage_subcommand: bcftools stats .. ok test_tabix: /usr/bin/tabix /tmp/nbslSrup95/merge.a.vcf.gz 2:3199812-3199812 .. ok test_tabix: /<>/bcftools view -H /tmp/nbslSrup95/merge.a.bcf 2:3199812-3199812 .. ok test_tabix: /usr/bin/tabix /tmp/nbslSrup95/merge.a.vcf.gz 1:3000151-3000151 .. ok test_tabix: /<>/bcftools view -H /tmp/nbslSrup95/merge.a.bcf 1:3000151-3000151 .. ok test_tabix: /usr/bin/tabix /tmp/nbslSrup95/large_chrom_tbi_limit.vcf.gz chr11:1-536870912 .. ok test_tabix: /<>/bcftools view -H /tmp/nbslSrup95/large_chrom_tbi_limit.bcf chr11:1-536870912 .. ok test_index: /<>/bcftools view -H /tmp/nbslSrup95/large_chrom_csi_limit.vcf.gz chr20:1-2147483647 .. ok test_index: /<>/bcftools view -H /tmp/nbslSrup95/large_chrom_csi_limit.bcf chr20:1-2147483647 .. ok test_index: /<>/bcftools view -H /tmp/nbslSrup95/large_chrom_csi_limit.vcf.gz chr20 .. ok test_index: /<>/bcftools view -H /tmp/nbslSrup95/large_chrom_csi_limit.bcf chr20 .. ok test_vcf_idxstats: /<>/bcftools index -s /tmp/nbslSrup95/idx.vcf.gz .. ok test_vcf_idxstats: /<>/bcftools index -s /tmp/nbslSrup95/idx.vcf.gz .. ok test_vcf_idxstats: /<>/bcftools index -s /tmp/nbslSrup95/idx.bcf .. ok test_vcf_idxstats: /<>/bcftools index -n /tmp/nbslSrup95/idx.vcf.gz .. ok test_vcf_idxstats: /<>/bcftools index -n /tmp/nbslSrup95/idx.vcf.gz .. ok test_vcf_idxstats: /<>/bcftools index -n /tmp/nbslSrup95/idx.bcf .. ok test_vcf_idxstats: /<>/bcftools index -s /tmp/nbslSrup95/empty.vcf.gz .. ok test_vcf_idxstats: /<>/bcftools index -s /tmp/nbslSrup95/empty.vcf.gz .. ok test_vcf_idxstats: /<>/bcftools index -s /tmp/nbslSrup95/empty.bcf .. ok test_vcf_idxstats: /<>/bcftools index -n /tmp/nbslSrup95/empty.vcf.gz .. ok test_vcf_idxstats: /<>/bcftools index -n /tmp/nbslSrup95/empty.vcf.gz .. ok test_vcf_idxstats: /<>/bcftools index -n /tmp/nbslSrup95/empty.bcf .. ok test_vcf_check: /<>/bcftools stats -s - /tmp/nbslSrup95/check.vcf.gz | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID ' .. ok test_vcf_check: /<>/bcftools view -Ob /tmp/nbslSrup95/check.vcf.gz | /<>/bcftools stats -s - | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID ' .. ok test_vcf_check_merge: /<>/plot-vcfstats -m /tmp/nbslSrup95/check.1.chk /tmp/nbslSrup95/check.2.chk /tmp/nbslSrup95/check.3.chk /tmp/nbslSrup95/check.4.chk 2>/dev/null | grep -v 'plot-vcfstats' | grep -v '^# The command' | grep -v '^# This' | grep -v '^ID ' .. ok test_vcf_stats: /<>/bcftools stats -s - /tmp/nbslSrup95/stats.a.vcf.gz /tmp/nbslSrup95/stats.b.vcf.gz | grep -v '^#' | grep -v '^ID ' .. ok test_vcf_isec: /<>/bcftools isec -n =2 /tmp/nbslSrup95/isec.a.vcf.gz /tmp/nbslSrup95/isec.b.vcf.gz 2>/dev/null .. ok test_vcf_isec: /<>/bcftools isec -Ob -n =2 /tmp/nbslSrup95/isec.a.vcf.gz /tmp/nbslSrup95/isec.b.vcf.gz 2>/dev/null .. ok test_vcf_isec: /<>/bcftools isec -n =2 -i"STRLEN(REF)==2" /tmp/nbslSrup95/isec.a.vcf.gz /tmp/nbslSrup95/isec.b.vcf.gz 2>/dev/null .. ok test_vcf_isec: /<>/bcftools isec -Ob -n =2 -i"STRLEN(REF)==2" /tmp/nbslSrup95/isec.a.vcf.gz /tmp/nbslSrup95/isec.b.vcf.gz 2>/dev/null .. ok test_vcf_isec: /<>/bcftools isec -n =2 -c both /tmp/nbslSrup95/isec.a.vcf.gz /tmp/nbslSrup95/isec.b.vcf.gz 2>/dev/null .. ok test_vcf_isec: /<>/bcftools isec -Ob -n =2 -c both /tmp/nbslSrup95/isec.a.vcf.gz /tmp/nbslSrup95/isec.b.vcf.gz 2>/dev/null .. ok test_vcf_isec: /<>/bcftools isec -n =2 -c any /tmp/nbslSrup95/isec.a.vcf.gz /tmp/nbslSrup95/isec.b.vcf.gz 2>/dev/null .. ok test_vcf_isec: /<>/bcftools isec -Ob -n =2 -c any /tmp/nbslSrup95/isec.a.vcf.gz /tmp/nbslSrup95/isec.b.vcf.gz 2>/dev/null .. ok test_vcf_isec: /<>/bcftools isec -C -c any /tmp/nbslSrup95/isec.a.vcf.gz /tmp/nbslSrup95/isec.b.vcf.gz 2>/dev/null .. ok test_vcf_isec: /<>/bcftools isec -Ob -C -c any /tmp/nbslSrup95/isec.a.vcf.gz /tmp/nbslSrup95/isec.b.vcf.gz 2>/dev/null .. ok test_vcf_isec2: /<>/bcftools isec --no-version -T /tmp/nbslSrup95/isec.tab.gz /tmp/nbslSrup95/isec.a.vcf.gz 2>/dev/null .. ok test_vcf_isec2: /<>/bcftools isec -Ob -T /tmp/nbslSrup95/isec.tab.gz /tmp/nbslSrup95/isec.a.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_merge: /<>/bcftools merge --no-version --force-samples /tmp/nbslSrup95/merge.a.vcf.gz /tmp/nbslSrup95/merge.b.vcf.gz /tmp/nbslSrup95/merge.c.vcf.gz The outputs differ: /<>/test/merge.abc.out /<>/test/merge.abc.out.new .. failed ... test_vcf_merge: /<>/bcftools merge -Ob --force-samples /tmp/nbslSrup95/merge.a.vcf.gz /tmp/nbslSrup95/merge.b.vcf.gz /tmp/nbslSrup95/merge.c.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/merge.abc.out /<>/test/merge.abc.out.new .. failed ... test_vcf_merge: /<>/bcftools merge --no-version --force-samples -m none /tmp/nbslSrup95/merge.2.a.vcf.gz /tmp/nbslSrup95/merge.2.b.vcf.gz The outputs differ: /<>/test/merge.2.none.out /<>/test/merge.2.none.out.new .. failed ... test_vcf_merge: /<>/bcftools merge -Ob --force-samples -m none /tmp/nbslSrup95/merge.2.a.vcf.gz /tmp/nbslSrup95/merge.2.b.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/merge.2.none.out /<>/test/merge.2.none.out.new .. failed ... test_vcf_merge: /<>/bcftools merge --no-version --force-samples -m both /tmp/nbslSrup95/merge.2.a.vcf.gz /tmp/nbslSrup95/merge.2.b.vcf.gz The outputs differ: /<>/test/merge.2.both.out /<>/test/merge.2.both.out.new .. failed ... test_vcf_merge: /<>/bcftools merge -Ob --force-samples -m both /tmp/nbslSrup95/merge.2.a.vcf.gz /tmp/nbslSrup95/merge.2.b.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/merge.2.both.out /<>/test/merge.2.both.out.new .. failed ... test_vcf_merge: /<>/bcftools merge --no-version --force-samples -m all /tmp/nbslSrup95/merge.2.a.vcf.gz /tmp/nbslSrup95/merge.2.b.vcf.gz The outputs differ: /<>/test/merge.2.all.out /<>/test/merge.2.all.out.new .. failed ... test_vcf_merge: /<>/bcftools merge -Ob --force-samples -m all /tmp/nbslSrup95/merge.2.a.vcf.gz /tmp/nbslSrup95/merge.2.b.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/merge.2.all.out /<>/test/merge.2.all.out.new .. failed ... test_vcf_merge: /<>/bcftools merge --no-version --force-samples -i TR:sum,TA:sum,TG:sum /tmp/nbslSrup95/merge.3.a.vcf.gz /tmp/nbslSrup95/merge.3.b.vcf.gz The outputs differ: /<>/test/merge.3.out /<>/test/merge.3.out.new .. failed ... test_vcf_merge: /<>/bcftools merge -Ob --force-samples -i TR:sum,TA:sum,TG:sum /tmp/nbslSrup95/merge.3.a.vcf.gz /tmp/nbslSrup95/merge.3.b.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/merge.3.out /<>/test/merge.3.out.new .. failed ... test_vcf_merge: /<>/bcftools merge --no-version --force-samples -m id /tmp/nbslSrup95/merge.4.a.vcf.gz /tmp/nbslSrup95/merge.4.b.vcf.gz The outputs differ: /<>/test/merge.4.out /<>/test/merge.4.out.new .. failed ... test_vcf_merge: /<>/bcftools merge -Ob --force-samples -m id /tmp/nbslSrup95/merge.4.a.vcf.gz /tmp/nbslSrup95/merge.4.b.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/merge.4.out /<>/test/merge.4.out.new .. failed ... test_vcf_query: /<>/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n' /tmp/nbslSrup95/query.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.vcf.gz | /<>/bcftools query -f '%CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n' .. ok test_vcf_query: /<>/bcftools query -f'%XRI\n' -i'XRI[*]>1111' /tmp/nbslSrup95/view.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/view.filter.vcf.gz | /<>/bcftools query -f'%XRI\n' -i'XRI[*]>1111' .. ok test_vcf_query: /<>/bcftools query -f'%XRF\n' -i'XRF[*]=2e6' /tmp/nbslSrup95/view.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/view.filter.vcf.gz | /<>/bcftools query -f'%XRF\n' -i'XRF[*]=2e6' .. ok test_vcf_query: /<>/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"' /tmp/nbslSrup95/view.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/view.filter.vcf.gz | /<>/bcftools query -f'%XGS\n' -i'XGS[5]="PQR"' .. ok test_vcf_query: /<>/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"' /tmp/nbslSrup95/view.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/view.filter.vcf.gz | /<>/bcftools query -f'%XGS\n' -i'XGS[*]="GHI"' .. ok test_vcf_query: /<>/bcftools query -f'%XGS\n' -i'XGS[2]~"H"' /tmp/nbslSrup95/view.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/view.filter.vcf.gz | /<>/bcftools query -f'%XGS\n' -i'XGS[2]~"H"' .. ok test_vcf_query: /<>/bcftools query -f'%XGS\n' -i'XGS[3]!~"H"' /tmp/nbslSrup95/view.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/view.filter.vcf.gz | /<>/bcftools query -f'%XGS\n' -i'XGS[3]!~"H"' .. ok test_vcf_query: /<>/bcftools query -f'%XGS\n' -i'XGS[*]~"H"' /tmp/nbslSrup95/view.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/view.filter.vcf.gz | /<>/bcftools query -f'%XGS\n' -i'XGS[*]~"H"' .. ok test_vcf_query: /<>/bcftools query -f'%XGS\n' -i'XGS[*]~"HI,JK"' /tmp/nbslSrup95/view.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/view.filter.vcf.gz | /<>/bcftools query -f'%XGS\n' -i'XGS[*]~"HI,JK"' .. ok test_vcf_query: /<>/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT~"CT"' /tmp/nbslSrup95/query.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.vcf.gz | /<>/bcftools query -f'%POS %REF %ALT\n' -i'REF~"C" && ALT~"CT"' .. ok test_vcf_query: /<>/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2' /tmp/nbslSrup95/query.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.vcf.gz | /<>/bcftools query -f'%POS %REF %ALT\n' -i'N_ALT=2' .. ok test_vcf_query: /<>/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES' /tmp/nbslSrup95/query.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.vcf.gz | /<>/bcftools query -f'%POS %AN\n' -i'AN!=2*N_SAMPLES' .. ok test_vcf_query: /<>/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[0]))=10' /tmp/nbslSrup95/query.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.vcf.gz | /<>/bcftools query -f'%POS[ %GL]\n' -i'min(abs(GL[0]))=10' .. ok test_vcf_query: /<>/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4' /tmp/nbslSrup95/view.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/view.filter.vcf.gz | /<>/bcftools query -f'%POS %CIGAR\n' -i'strlen(CIGAR[*])=4' .. ok test_vcf_query: /<>/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3' /tmp/nbslSrup95/query.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.vcf.gz | /<>/bcftools query -f'%POS[ %GT]\n' -i'AC[0]=3' .. ok test_vcf_query: /<>/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4' /tmp/nbslSrup95/query.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.vcf.gz | /<>/bcftools query -f'%POS[ %GT]\n' -i'AF[0]=3/4' .. ok test_vcf_query: /<>/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1' /tmp/nbslSrup95/query.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.vcf.gz | /<>/bcftools query -f'%POS[ %GT]\n' -i'MAC[0]=1' .. ok test_vcf_query: /<>/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4' /tmp/nbslSrup95/query.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.vcf.gz | /<>/bcftools query -f'%POS[ %GT]\n' -i'MAF[0]=1/4' .. ok test_vcf_query: /<>/bcftools query -f'I8=%I8 I16=%I16 I32=%I32 IF=%IF IA8=%IA8 IA16=%IA16 IA32=%IA32 IAF=%IAF IA8=%IA8{1} IA16=%IA16{1} IA32=%IA32{1} IAF=%IAF{1} [ %F8:%F16:%F32:%FF]\n' /tmp/nbslSrup95/view.vectors.vcf.gz The outputs differ: /<>/test/query.12.out /<>/test/query.12.out.new .. failed ... test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/view.vectors.vcf.gz | /<>/bcftools query -f'I8=%I8 I16=%I16 I32=%I32 IF=%IF IA8=%IA8 IA16=%IA16 IA32=%IA32 IAF=%IAF IA8=%IA8{1} IA16=%IA16{1} IA32=%IA32{1} IAF=%IAF{1} [ %F8:%F16:%F32:%FF]\n' The outputs differ: /<>/test/query.12.out /<>/test/query.12.out.new .. failed ... test_vcf_query: /<>/bcftools query -f'%POS[ %GT]\n' -i'GT ="1"' /tmp/nbslSrup95/query.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.filter.vcf.gz | /<>/bcftools query -f'%POS[ %GT]\n' -i'GT ="1"' .. ok test_vcf_query: /<>/bcftools query -f'%POS[ %GT]\n' -i'GT!="1"' /tmp/nbslSrup95/query.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.filter.vcf.gz | /<>/bcftools query -f'%POS[ %GT]\n' -i'GT!="1"' .. ok test_vcf_query: /<>/bcftools query -f'%POS[ %GT]\n' -e'GT ="1"' /tmp/nbslSrup95/query.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.filter.vcf.gz | /<>/bcftools query -f'%POS[ %GT]\n' -e'GT ="1"' .. ok test_vcf_query: /<>/bcftools query -f'%POS[ %GT]\n' -e'GT!="1"' /tmp/nbslSrup95/query.filter.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.filter.vcf.gz | /<>/bcftools query -f'%POS[ %GT]\n' -e'GT!="1"' .. ok test_vcf_query: /<>/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n' /tmp/nbslSrup95/query.2.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/query.2.vcf.gz | /<>/bcftools query -f'%XX_A %XX.A %XX.A0 %xx.a0\n' .. ok test_vcf_query: /<>/bcftools query -i'IINT="."' -f'%POS %IINT\n' /tmp/nbslSrup95/missing.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -i'IINT="."' -f'%POS %IINT\n' .. ok test_vcf_query: /<>/bcftools query -i'IINT!="."' -f'%POS %IINT\n' /tmp/nbslSrup95/missing.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -i'IINT!="."' -f'%POS %IINT\n' .. ok test_vcf_query: /<>/bcftools query -e'IINT!="."' -f'%POS %IINT\n' /tmp/nbslSrup95/missing.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -e'IINT!="."' -f'%POS %IINT\n' .. ok test_vcf_query: /<>/bcftools query -e'IINT="."' -f'%POS %IINT\n' /tmp/nbslSrup95/missing.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -e'IINT="."' -f'%POS %IINT\n' .. ok test_vcf_query: /<>/bcftools query -i'IFLT="."' -f'%POS %IFLT\n' /tmp/nbslSrup95/missing.vcf.gz The outputs differ: /<>/test/query.20.out /<>/test/query.20.out.new .. failed ... test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -i'IFLT="."' -f'%POS %IFLT\n' The outputs differ: /<>/test/query.20.out /<>/test/query.20.out.new .. failed ... test_vcf_query: /<>/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n' /tmp/nbslSrup95/missing.vcf.gz The outputs differ: /<>/test/query.21.out /<>/test/query.21.out.new .. failed ... test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -i'IFLT!="."' -f'%POS %IFLT\n' The outputs differ: /<>/test/query.21.out /<>/test/query.21.out.new .. failed ... test_vcf_query: /<>/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n' /tmp/nbslSrup95/missing.vcf.gz The outputs differ: /<>/test/query.20.out /<>/test/query.20.out.new .. failed ... test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -e'IFLT!="."' -f'%POS %IFLT\n' The outputs differ: /<>/test/query.20.out /<>/test/query.20.out.new .. failed ... test_vcf_query: /<>/bcftools query -e'IFLT="."' -f'%POS %IFLT\n' /tmp/nbslSrup95/missing.vcf.gz The outputs differ: /<>/test/query.21.out /<>/test/query.21.out.new .. failed ... test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -e'IFLT="."' -f'%POS %IFLT\n' The outputs differ: /<>/test/query.21.out /<>/test/query.21.out.new .. failed ... test_vcf_query: /<>/bcftools query -i'ISTR="."' -f'%POS %ISTR\n' /tmp/nbslSrup95/missing.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -i'ISTR="."' -f'%POS %ISTR\n' .. ok test_vcf_query: /<>/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n' /tmp/nbslSrup95/missing.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -i'ISTR!="."' -f'%POS %ISTR\n' .. ok test_vcf_query: /<>/bcftools query -e'ISTR="."' -f'%POS %ISTR\n' /tmp/nbslSrup95/missing.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -e'ISTR="."' -f'%POS %ISTR\n' .. ok test_vcf_query: /<>/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n' /tmp/nbslSrup95/missing.vcf.gz .. ok test_vcf_query: /<>/bcftools view -Ob /tmp/nbslSrup95/missing.vcf.gz | /<>/bcftools query -e'ISTR!="."' -f'%POS %ISTR\n' .. ok test_vcf_norm: /<>/bcftools norm --no-version -f /<>/test/norm.fa /tmp/nbslSrup95/norm.vcf.gz 2>/dev/null .. ok test_vcf_norm: /<>/bcftools norm -Ob -f /<>/test/norm.fa /tmp/nbslSrup95/norm.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_norm: /<>/bcftools norm --no-version -m- /tmp/nbslSrup95/norm.split.vcf.gz 2>/dev/null The outputs differ: /<>/test/norm.split.out /<>/test/norm.split.out.new .. failed ... test_vcf_norm: /<>/bcftools norm -Ob -m- /tmp/nbslSrup95/norm.split.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/norm.split.out /<>/test/norm.split.out.new .. failed ... test_vcf_norm: /<>/bcftools norm --no-version -m- /tmp/nbslSrup95/norm.split.2.vcf.gz 2>/dev/null .. ok test_vcf_norm: /<>/bcftools norm -Ob -m- /tmp/nbslSrup95/norm.split.2.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_norm: /<>/bcftools norm --no-version -m- -f /<>/test/norm.fa /tmp/nbslSrup95/norm.split.vcf.gz 2>/dev/null The outputs differ: /<>/test/norm.split.and.norm.out /<>/test/norm.split.and.norm.out.new .. failed ... test_vcf_norm: /<>/bcftools norm -Ob -m- -f /<>/test/norm.fa /tmp/nbslSrup95/norm.split.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/norm.split.and.norm.out /<>/test/norm.split.and.norm.out.new .. failed ... test_vcf_norm: /<>/bcftools norm --no-version -m+ /tmp/nbslSrup95/norm.merge.vcf.gz 2>/dev/null The outputs differ: /<>/test/norm.merge.out /<>/test/norm.merge.out.new .. failed ... test_vcf_norm: /<>/bcftools norm -Ob -m+ /tmp/nbslSrup95/norm.merge.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/norm.merge.out /<>/test/norm.merge.out.new .. failed ... test_vcf_norm: /<>/bcftools norm --no-version -m+ /tmp/nbslSrup95/norm.merge.2.vcf.gz 2>/dev/null .. ok test_vcf_norm: /<>/bcftools norm -Ob -m+ /tmp/nbslSrup95/norm.merge.2.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_norm: /<>/bcftools norm --no-version -m+ /tmp/nbslSrup95/norm.merge.3.vcf.gz 2>/dev/null The outputs differ: /<>/test/norm.merge.3.out /<>/test/norm.merge.3.out.new .. failed ... test_vcf_norm: /<>/bcftools norm -Ob -m+ /tmp/nbslSrup95/norm.merge.3.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/norm.merge.3.out /<>/test/norm.merge.3.out.new .. failed ... test_vcf_norm: /<>/bcftools norm --no-version -m+ -s /tmp/nbslSrup95/norm.merge.vcf.gz 2>/dev/null The outputs differ: /<>/test/norm.merge.strict.out /<>/test/norm.merge.strict.out.new .. failed ... test_vcf_norm: /<>/bcftools norm -Ob -m+ -s /tmp/nbslSrup95/norm.merge.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/norm.merge.strict.out /<>/test/norm.merge.strict.out.new .. failed ... test_vcf_norm: /<>/bcftools norm --no-version -Nc s -f /<>/test/norm.fa /tmp/nbslSrup95/norm.setref.vcf.gz 2>/dev/null .. ok test_vcf_norm: /<>/bcftools norm -Ob -Nc s -f /<>/test/norm.fa /tmp/nbslSrup95/norm.setref.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_norm: /<>/bcftools norm --no-version -f /<>/test/norm.fa /tmp/nbslSrup95/norm.telomere.vcf.gz 2>/dev/null .. ok test_vcf_norm: /<>/bcftools norm -Ob -f /<>/test/norm.fa /tmp/nbslSrup95/norm.telomere.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -aUc1 -C1 -s NA00002 -v snps /tmp/nbslSrup95/view.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -aUc1 -C1 -s NA00002 -v snps /tmp/nbslSrup95/view.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -f PASS -Xks NA00003 /tmp/nbslSrup95/view.vcf.gz -r20,Y .. ok test_vcf_view: /<>/bcftools view -Ob -f PASS -Xks NA00003 /tmp/nbslSrup95/view.vcf.gz -r20,Y | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -xs NA00003 /tmp/nbslSrup95/view.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -xs NA00003 /tmp/nbslSrup95/view.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/nbslSrup95/view.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -i 'QUAL==999 && (FS<20 || FS>=41.02) && ICF>-0.1 && HWE*2>1.2' /tmp/nbslSrup95/view.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -p /tmp/nbslSrup95/view.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -p /tmp/nbslSrup95/view.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -P /tmp/nbslSrup95/view.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -P /tmp/nbslSrup95/view.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -hm2 -M2 -q0.3 -Q0.7 /tmp/nbslSrup95/view.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -hm2 -M2 -q0.3 -Q0.7 /tmp/nbslSrup95/view.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -Hu /tmp/nbslSrup95/view.vcf.gz .. ok test_vcf_view: /<>/bcftools view --no-version -GVsnps /tmp/nbslSrup95/view.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -GVsnps /tmp/nbslSrup95/view.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -ne 'INDEL=1 || PV4[0]<0.006' /tmp/nbslSrup95/view.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -ne 'INDEL=1 || PV4[0]<0.006' /tmp/nbslSrup95/view.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -s ^NA00003 /tmp/nbslSrup95/view.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -s ^NA00003 /tmp/nbslSrup95/view.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version /tmp/nbslSrup95/view.omitgenotypes.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob /tmp/nbslSrup95/view.omitgenotypes.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -G /tmp/nbslSrup95/view.omitgenotypes.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -G /tmp/nbslSrup95/view.omitgenotypes.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -HG /tmp/nbslSrup95/view.omitgenotypes.vcf.gz .. ok test_vcf_view: /<>/bcftools view --no-version -a /tmp/nbslSrup95/many.alleles.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -a /tmp/nbslSrup95/many.alleles.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -asA /tmp/nbslSrup95/view.vectors.vcf.gz The outputs differ: /<>/test/view.vectors.A.out /<>/test/view.vectors.A.out.new .. failed ... test_vcf_view: /<>/bcftools view -Ob -asA /tmp/nbslSrup95/view.vectors.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/view.vectors.A.out /<>/test/view.vectors.A.out.new .. failed ... test_vcf_view: /<>/bcftools view --no-version -asB /tmp/nbslSrup95/view.vectors.vcf.gz The outputs differ: /<>/test/view.vectors.B.out /<>/test/view.vectors.B.out.new .. failed ... test_vcf_view: /<>/bcftools view -Ob -asB /tmp/nbslSrup95/view.vectors.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/view.vectors.B.out /<>/test/view.vectors.B.out.new .. failed ... test_vcf_view: /<>/bcftools view --no-version -H -i'FMT/FGS[0]="AAAAAA"' /tmp/nbslSrup95/view.filter.vcf.gz The outputs differ: /<>/test/view.filter.1.out /<>/test/view.filter.1.out.new .. failed ... test_vcf_view: /<>/bcftools view --no-version -H -i'FMT/FGS[2]="C"' /tmp/nbslSrup95/view.filter.vcf.gz The outputs differ: /<>/test/view.filter.2.out /<>/test/view.filter.2.out.new .. failed ... test_vcf_view: /<>/bcftools view --no-version -H -i'FMT/FGS[4]="EE"' /tmp/nbslSrup95/view.filter.vcf.gz The outputs differ: /<>/test/view.filter.3.out /<>/test/view.filter.3.out.new .. failed ... test_vcf_view: /<>/bcftools view --no-version -H -i'FMT/FRS[1]="BB"' /tmp/nbslSrup95/view.filter.vcf.gz The outputs differ: /<>/test/view.filter.4.out /<>/test/view.filter.4.out.new .. failed ... test_vcf_view: /<>/bcftools view --no-version -H -i'TXT0="text"' /tmp/nbslSrup95/view.filter.vcf.gz The outputs differ: /<>/test/view.filter.5.out /<>/test/view.filter.5.out.new .. failed ... test_vcf_view: /<>/bcftools view --no-version -T /<>/test/view.chrs.tab /tmp/nbslSrup95/view.chrs.vcf.gz .. ok test_vcf_view: /<>/bcftools view -Ob -T /<>/test/view.chrs.tab /tmp/nbslSrup95/view.chrs.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_view: /<>/bcftools view --no-version -i 'POS>=3062917' /tmp/nbslSrup95/filter.2.vcf.gz 1:3062917-3157410 .. ok test_vcf_view: /<>/bcftools view -Ob -i 'POS>=3062917' /tmp/nbslSrup95/filter.2.vcf.gz 1:3062917-3157410 | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_filter: /<>/bcftools filter -S. -e'TXT0="text"' /<>/test/view.filter.vcf | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.6.out /<>/test/view.filter.6.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -Ob -S. -e'TXT0="text"' /<>/test/view.filter.vcf | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.6.out /<>/test/view.filter.6.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -S. -e'FMT/FRS[1]="BB"' /<>/test/view.filter.vcf | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.7.out /<>/test/view.filter.7.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -Ob -S. -e'FMT/FRS[1]="BB"' /<>/test/view.filter.vcf | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.7.out /<>/test/view.filter.7.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -S. -e'FMT/FGS[0]="AAAAAA"' /<>/test/view.filter.vcf | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.8.out /<>/test/view.filter.8.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -Ob -S. -e'FMT/FGS[0]="AAAAAA"' /<>/test/view.filter.vcf | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.8.out /<>/test/view.filter.8.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -S. -e'FMT/FGS[1]="BBB"' /<>/test/view.filter.vcf | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.9.out /<>/test/view.filter.9.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -Ob -S. -e'FMT/FGS[1]="BBB"' /<>/test/view.filter.vcf | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.9.out /<>/test/view.filter.9.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -S. -e'FMT/FGS[4]="EE"' /<>/test/view.filter.vcf | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.10.out /<>/test/view.filter.10.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -Ob -S. -e'FMT/FGS[4]="EE"' /<>/test/view.filter.vcf | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.10.out /<>/test/view.filter.10.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -S. -e'FMT/STR="XX"' /<>/test/view.filter.vcf | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.11.out /<>/test/view.filter.11.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -Ob -S. -e'FMT/STR="XX"' /<>/test/view.filter.vcf | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/view.filter.11.out /<>/test/view.filter.11.out.new .. failed ... test_vcf_view: /<>/bcftools view --no-version -H -C5:nonmajor /tmp/nbslSrup95/view.minmaxac.vcf.gz .. ok test_vcf_view: /<>/bcftools view --no-version -H -c6:nonmajor /tmp/nbslSrup95/view.minmaxac.vcf.gz .. ok test_vcf_view: /<>/bcftools view --no-version -H -q0.3:major /tmp/nbslSrup95/view.minmaxac.vcf.gz .. ok test_vcf_view: /<>/bcftools view --no-version -H -i 'Gene.refGene=="RAD21L1"' /tmp/nbslSrup95/view.filter.annovar.vcf.gz The outputs differ: /<>/test/view.filter.annovar.1.out /<>/test/view.filter.annovar.1.out.new .. failed ... test_vcf_view: /<>/bcftools view --no-version -H -i 'Gene.refGene~"NOD"' /tmp/nbslSrup95/view.filter.annovar.vcf.gz .. ok test_vcf_view: /<>/bcftools view --no-version -H -i 'LJB2_MutationTaster=="0.291000"' /tmp/nbslSrup95/view.filter.annovar.vcf.gz .. ok test_vcf_call: /<>/bcftools call --no-version -mv /<>/test/mpileup.vcf 2>/dev/null .. ok test_vcf_call: /<>/bcftools call -Ob -mv /<>/test/mpileup.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_call: /<>/bcftools call --no-version -mg0 /<>/test/mpileup.vcf 2>/dev/null .. ok test_vcf_call: /<>/bcftools call -Ob -mg0 /<>/test/mpileup.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_call: /<>/bcftools call --no-version -mv --ploidy-file /<>/test/mpileup.ploidy -S /<>/test/mpileup.samples /<>/test/mpileup.X.vcf 2>/dev/null .. ok test_vcf_call: /<>/bcftools call -Ob -mv --ploidy-file /<>/test/mpileup.ploidy -S /<>/test/mpileup.samples /<>/test/mpileup.X.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_call: /<>/bcftools call --no-version -mv --ploidy-file /<>/test/mpileup.ploidy -S /<>/test/mpileup.ped /<>/test/mpileup.X.vcf 2>/dev/null .. ok test_vcf_call: /<>/bcftools call -Ob -mv --ploidy-file /<>/test/mpileup.ploidy -S /<>/test/mpileup.ped /<>/test/mpileup.X.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_call_cAls: /<>/bcftools call --no-version -mA -C alleles -T /tmp/nbslSrup95/mpileup.tab.gz /<>/test/mpileup.vcf 2>/dev/null .. ok test_vcf_call_cAls: /<>/bcftools call -Ob -mA -C alleles -T /tmp/nbslSrup95/mpileup.tab.gz /<>/test/mpileup.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_call: /<>/bcftools call --no-version -cv /<>/test/mpileup.c.vcf 2>/dev/null .. ok test_vcf_call: /<>/bcftools call -Ob -cv /<>/test/mpileup.c.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_call: /<>/bcftools call --no-version -cv --ploidy-file /<>/test/mpileup.ploidy -S /<>/test/mpileup.samples /<>/test/mpileup.c.X.vcf 2>/dev/null .. ok test_vcf_call: /<>/bcftools call -Ob -cv --ploidy-file /<>/test/mpileup.ploidy -S /<>/test/mpileup.samples /<>/test/mpileup.c.X.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_call: /<>/bcftools call --no-version -cv --ploidy-file /<>/test/mpileup.ploidy -S /<>/test/mpileup.ped /<>/test/mpileup.c.X.vcf 2>/dev/null .. ok test_vcf_call: /<>/bcftools call -Ob -cv --ploidy-file /<>/test/mpileup.ploidy -S /<>/test/mpileup.ped /<>/test/mpileup.c.X.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_filter: /<>/bcftools filter -mx -g2 -G2 /<>/test/filter.1.vcf | grep -v ^##bcftools_ .. ok test_vcf_filter: /<>/bcftools filter -Ob -mx -g2 -G2 /<>/test/filter.1.vcf | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_filter: /<>/bcftools filter -e'QUAL==59.2 || (INDEL=0 & (FMT/GQ=25 | FMT/DP=10))' -sModified -S. /<>/test/filter.2.vcf | grep -v ^##bcftools_ The outputs differ: /<>/test/filter.2.out /<>/test/filter.2.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -Ob -e'QUAL==59.2 || (INDEL=0 & (FMT/GQ=25 | FMT/DP=10))' -sModified -S. /<>/test/filter.2.vcf | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/filter.2.out /<>/test/filter.2.out.new .. failed ... test_vcf_filter: /<>/bcftools filter -e'DP=19' /<>/test/filter.3.vcf | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -e'DP=19' /<>/test/filter.3.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -e'DP=19' -s XX /<>/test/filter.3.vcf | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -e'DP=19' -s XX /<>/test/filter.3.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -e'DP=19' -s XX -m+ /<>/test/filter.3.vcf | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -e'DP=19' -s XX -m+ /<>/test/filter.3.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -e'DP=19' -s XX -mx /<>/test/filter.3.vcf | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -e'DP=19' -s XX -mx /<>/test/filter.3.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -e'DP=19' -s XX -m+x /<>/test/filter.3.vcf | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -e'DP=19' -s XX -m+x /<>/test/filter.3.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -e'FMT/GT="0/2"' /<>/test/filter.3.vcf | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -e'FMT/GT="0/2"' /<>/test/filter.3.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -e'FMT/GT="0/2"' -s XX /<>/test/filter.3.vcf | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX /<>/test/filter.3.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -e'FMT/GT="0/2"' -s XX -m+ /<>/test/filter.3.vcf | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -m+ /<>/test/filter.3.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -e'FMT/GT="0/2"' -s XX -mx /<>/test/filter.3.vcf | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -mx /<>/test/filter.3.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -e'FMT/GT="0/2"' -s XX -m+x /<>/test/filter.3.vcf | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -e'FMT/GT="0/2"' -s XX -m+x /<>/test/filter.3.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%FILTER\t%DP[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -i'FMT/GT="0/0" && AC[*]=2' /<>/test/filter.2.vcf | /<>/bcftools query -f '%POS\t%AC[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -i'FMT/GT="0/0" && AC[*]=2' /<>/test/filter.2.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%AC[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -i'AC[*]=2 && FMT/GT="0/0"' /<>/test/filter.2.vcf | /<>/bcftools query -f '%POS\t%AC[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -i'AC[*]=2 && FMT/GT="0/0"' /<>/test/filter.2.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%AC[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -i'ALT="."' /<>/test/filter.2.vcf | /<>/bcftools query -f '%POS\t%AC[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -Ob -i'ALT="."' /<>/test/filter.2.vcf | /<>/bcftools view | /<>/bcftools query -f '%POS\t%AC[\t%GT]\n' .. ok test_vcf_filter: /<>/bcftools filter -S . -i 'FORMAT/TEST3<25' /<>/test/filter.4.vcf | grep -v ^##bcftools_ .. ok test_vcf_filter: /<>/bcftools filter -Ob -S . -i 'FORMAT/TEST3<25' /<>/test/filter.4.vcf | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_filter: /<>/bcftools filter -S . -i 'FORMAT/TEST4<25' /<>/test/filter.4.vcf | grep -v ^##bcftools_ .. ok test_vcf_filter: /<>/bcftools filter -Ob -S . -i 'FORMAT/TEST4<25' /<>/test/filter.4.vcf | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_regions: /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /<>/test/regions.tab /tmp/nbslSrup95/regions.vcf.gz .. ok test_vcf_regions: /<>/bcftools view -Ob /tmp/nbslSrup95/regions.vcf.gz | /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /<>/test/regions.tab .. ok test_vcf_regions: /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /<>/test/regions.tab /tmp/nbslSrup95/regions.vcf.gz .. ok test_vcf_regions: /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/nbslSrup95/regions.tab.gz /tmp/nbslSrup95/regions.vcf.gz .. ok test_vcf_regions: /<>/bcftools view -Ob /tmp/nbslSrup95/regions.vcf.gz | /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/nbslSrup95/regions.tab.gz .. ok test_vcf_regions: /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/nbslSrup95/regions.tab.gz /tmp/nbslSrup95/regions.vcf.gz .. ok test_vcf_regions: /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/nbslSrup95/regions.bed /tmp/nbslSrup95/regions.vcf.gz .. ok test_vcf_regions: /<>/bcftools view -Ob /tmp/nbslSrup95/regions.vcf.gz | /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/nbslSrup95/regions.bed .. ok test_vcf_regions: /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/nbslSrup95/regions.bed /tmp/nbslSrup95/regions.vcf.gz .. ok test_vcf_regions: /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/nbslSrup95/regions.bed.gz /tmp/nbslSrup95/regions.vcf.gz .. ok test_vcf_regions: /<>/bcftools view -Ob /tmp/nbslSrup95/regions.vcf.gz | /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -T /tmp/nbslSrup95/regions.bed.gz .. ok test_vcf_regions: /<>/bcftools query -f'%CHROM %POS %REF,%ALT\n' -R /tmp/nbslSrup95/regions.bed.gz /tmp/nbslSrup95/regions.vcf.gz .. ok test_vcf_annotate: /<>/bcftools annotate -a /tmp/nbslSrup95/annotate.tab.gz -h /<>/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /<>/test/annotate.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate.out /<>/test/annotate.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -Ob -a /tmp/nbslSrup95/annotate.tab.gz -h /<>/test/annotate.hdr -c CHROM,POS,REF,ALT,ID,QUAL,INFO/T_INT,INFO/T_FLOAT,INDEL /<>/test/annotate.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate.out /<>/test/annotate.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -a /tmp/nbslSrup95/annotate2.tab.gz -h /<>/test/annotate.hdr -c CHROM,FROM,TO,T_STR /<>/test/annotate.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate2.out /<>/test/annotate2.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -Ob -a /tmp/nbslSrup95/annotate2.tab.gz -h /<>/test/annotate.hdr -c CHROM,FROM,TO,T_STR /<>/test/annotate.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate2.out /<>/test/annotate2.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -a /tmp/nbslSrup95/annots.vcf.gz -c STR,ID,QUAL,FILTER /tmp/nbslSrup95/annotate.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate3.out /<>/test/annotate3.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -Ob -a /tmp/nbslSrup95/annots.vcf.gz -c STR,ID,QUAL,FILTER /tmp/nbslSrup95/annotate.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate3.out /<>/test/annotate3.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -a /tmp/nbslSrup95/annots2.vcf.gz -c ID,QUAL,FILTER,INFO,FMT /tmp/nbslSrup95/annotate2.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate4.out /<>/test/annotate4.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -Ob -a /tmp/nbslSrup95/annots2.vcf.gz -c ID,QUAL,FILTER,INFO,FMT /tmp/nbslSrup95/annotate2.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate4.out /<>/test/annotate4.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -a /tmp/nbslSrup95/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/nbslSrup95/annotate2.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate5.out /<>/test/annotate5.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -Ob -a /tmp/nbslSrup95/annots2.vcf.gz -c ID,QUAL,+FILTER,+INFO,FMT/GT -s A /tmp/nbslSrup95/annotate2.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate5.out /<>/test/annotate5.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -x ID,QUAL,^FILTER/fltA,FILTER/fltB,^INFO/AA,INFO/BB,^FMT/GT,FMT/PL /<>/test/annotate3.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_annotate: /<>/bcftools annotate -Ob -x ID,QUAL,^FILTER/fltA,FILTER/fltB,^INFO/AA,INFO/BB,^FMT/GT,FMT/PL /<>/test/annotate3.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_annotate: /<>/bcftools annotate -x FORMAT /<>/test/annotate3.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_annotate: /<>/bcftools annotate -Ob -x FORMAT /<>/test/annotate3.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_annotate: /<>/bcftools annotate -a /tmp/nbslSrup95/annots4.vcf.gz -c +INFO /tmp/nbslSrup95/annotate4.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate8.out /<>/test/annotate8.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -Ob -a /tmp/nbslSrup95/annots4.vcf.gz -c +INFO /tmp/nbslSrup95/annotate4.vcf.gz 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate8.out /<>/test/annotate8.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -a /tmp/nbslSrup95/annots4.tab.gz -h /<>/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /<>/test/annotate4.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate8.out /<>/test/annotate8.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -Ob -a /tmp/nbslSrup95/annots4.tab.gz -h /<>/test/annotate4.hdr -c CHROM,POS,REF,ALT,+FA,+FR,+IA,+IR,+SA,+SR /<>/test/annotate4.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate8.out /<>/test/annotate8.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -a /tmp/nbslSrup95/annots10.tab.gz -h /<>/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /<>/test/annotate10.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate10.out /<>/test/annotate10.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -Ob -a /tmp/nbslSrup95/annots10.tab.gz -h /<>/test/annotate10.hdr -c CHROM,POS,FMT/FINT,FMT/FFLT,FMT/FSTR /<>/test/annotate10.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate10.out /<>/test/annotate10.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -a /tmp/nbslSrup95/annots9.tab.gz -c CHROM,POS,REF,ALT,+ID /<>/test/annotate9.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate9.out /<>/test/annotate9.out.new .. failed ... test_vcf_annotate: /<>/bcftools annotate -Ob -a /tmp/nbslSrup95/annots9.tab.gz -c CHROM,POS,REF,ALT,+ID /<>/test/annotate9.vcf 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ The outputs differ: /<>/test/annotate9.out /<>/test/annotate9.out.new .. failed ... test_vcf_concat: /<>/bcftools concat --no-version /tmp/nbslSrup95/concat.1.a.vcf.gz /tmp/nbslSrup95/concat.1.b.vcf.gz .. ok test_vcf_concat: /<>/bcftools concat -Ob /tmp/nbslSrup95/concat.1.a.vcf.gz /tmp/nbslSrup95/concat.1.b.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_concat: /<>/bcftools concat --no-version /tmp/nbslSrup95/concat.1.a.bcf /tmp/nbslSrup95/concat.1.b.bcf .. ok test_vcf_concat: /<>/bcftools concat -Ob /tmp/nbslSrup95/concat.1.a.bcf /tmp/nbslSrup95/concat.1.b.bcf | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_concat: /<>/bcftools concat --no-version -a /tmp/nbslSrup95/concat.2.a.vcf.gz /tmp/nbslSrup95/concat.2.b.vcf.gz .. ok test_vcf_concat: /<>/bcftools concat -Ob -a /tmp/nbslSrup95/concat.2.a.vcf.gz /tmp/nbslSrup95/concat.2.b.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_concat: /<>/bcftools concat --no-version -a /tmp/nbslSrup95/concat.2.a.bcf /tmp/nbslSrup95/concat.2.b.bcf .. ok test_vcf_concat: /<>/bcftools concat -Ob -a /tmp/nbslSrup95/concat.2.a.bcf /tmp/nbslSrup95/concat.2.b.bcf | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_concat: /<>/bcftools concat --no-version -aD /tmp/nbslSrup95/concat.2.a.vcf.gz /tmp/nbslSrup95/concat.2.b.vcf.gz .. ok test_vcf_concat: /<>/bcftools concat -Ob -aD /tmp/nbslSrup95/concat.2.a.vcf.gz /tmp/nbslSrup95/concat.2.b.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_concat: /<>/bcftools concat --no-version -aD /tmp/nbslSrup95/concat.2.a.bcf /tmp/nbslSrup95/concat.2.b.bcf .. ok test_vcf_concat: /<>/bcftools concat -Ob -aD /tmp/nbslSrup95/concat.2.a.bcf /tmp/nbslSrup95/concat.2.b.bcf | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_concat: /<>/bcftools concat --no-version -l /tmp/nbslSrup95/concat.3.a.vcf.gz /tmp/nbslSrup95/concat.3.b.vcf.gz /tmp/nbslSrup95/concat.3.0.vcf.gz /tmp/nbslSrup95/concat.3.c.vcf.gz /tmp/nbslSrup95/concat.3.d.vcf.gz /tmp/nbslSrup95/concat.3.e.vcf.gz /tmp/nbslSrup95/concat.3.f.vcf.gz .. ok test_vcf_concat: /<>/bcftools concat -Ob -l /tmp/nbslSrup95/concat.3.a.vcf.gz /tmp/nbslSrup95/concat.3.b.vcf.gz /tmp/nbslSrup95/concat.3.0.vcf.gz /tmp/nbslSrup95/concat.3.c.vcf.gz /tmp/nbslSrup95/concat.3.d.vcf.gz /tmp/nbslSrup95/concat.3.e.vcf.gz /tmp/nbslSrup95/concat.3.f.vcf.gz | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_concat: /<>/bcftools concat --no-version -l /tmp/nbslSrup95/concat.3.a.bcf /tmp/nbslSrup95/concat.3.b.bcf /tmp/nbslSrup95/concat.3.0.bcf /tmp/nbslSrup95/concat.3.c.bcf /tmp/nbslSrup95/concat.3.d.bcf /tmp/nbslSrup95/concat.3.e.bcf /tmp/nbslSrup95/concat.3.f.bcf .. ok test_vcf_concat: /<>/bcftools concat -Ob -l /tmp/nbslSrup95/concat.3.a.bcf /tmp/nbslSrup95/concat.3.b.bcf /tmp/nbslSrup95/concat.3.0.bcf /tmp/nbslSrup95/concat.3.c.bcf /tmp/nbslSrup95/concat.3.d.bcf /tmp/nbslSrup95/concat.3.e.bcf /tmp/nbslSrup95/concat.3.f.bcf | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_reheader: /<>/bcftools reheader -h /<>/test/reheader.hdr /<>/test/reheader.vcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /<>/test/reheader.vcf | /<>/bcftools reheader -h /<>/test/reheader.hdr | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -h /<>/test/reheader.hdr /tmp/nbslSrup95/reheader.bcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/reheader.bcf | /<>/bcftools reheader -h /<>/test/reheader.hdr | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -h /<>/test/reheader.hdr /tmp/nbslSrup95/reheader.vcf.gz | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/reheader.vcf.gz | /<>/bcftools reheader -h /<>/test/reheader.hdr | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples /<>/test/reheader.vcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /<>/test/reheader.vcf | /<>/bcftools reheader -s /<>/test/reheader.samples | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples /tmp/nbslSrup95/reheader.bcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/reheader.bcf | /<>/bcftools reheader -s /<>/test/reheader.samples | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples /tmp/nbslSrup95/reheader.vcf.gz | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/reheader.vcf.gz | /<>/bcftools reheader -s /<>/test/reheader.samples | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples2 /<>/test/reheader.vcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /<>/test/reheader.vcf | /<>/bcftools reheader -s /<>/test/reheader.samples2 | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples2 /tmp/nbslSrup95/reheader.bcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/reheader.bcf | /<>/bcftools reheader -s /<>/test/reheader.samples2 | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples2 /tmp/nbslSrup95/reheader.vcf.gz | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/reheader.vcf.gz | /<>/bcftools reheader -s /<>/test/reheader.samples2 | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples3 /<>/test/reheader.vcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /<>/test/reheader.vcf | /<>/bcftools reheader -s /<>/test/reheader.samples3 | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples3 /tmp/nbslSrup95/reheader.bcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/reheader.bcf | /<>/bcftools reheader -s /<>/test/reheader.samples3 | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples3 /tmp/nbslSrup95/reheader.vcf.gz | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/reheader.vcf.gz | /<>/bcftools reheader -s /<>/test/reheader.samples3 | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples4 /<>/test/reheader.vcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /<>/test/reheader.vcf | /<>/bcftools reheader -s /<>/test/reheader.samples4 | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples4 /tmp/nbslSrup95/reheader.bcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/reheader.bcf | /<>/bcftools reheader -s /<>/test/reheader.samples4 | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -s /<>/test/reheader.samples4 /tmp/nbslSrup95/reheader.vcf.gz | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/reheader.vcf.gz | /<>/bcftools reheader -s /<>/test/reheader.samples4 | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -h /<>/test/reheader.empty.hdr /<>/test/empty.vcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /<>/test/empty.vcf | /<>/bcftools reheader -h /<>/test/reheader.empty.hdr | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -h /<>/test/reheader.empty.hdr /tmp/nbslSrup95/empty.bcf | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/empty.bcf | /<>/bcftools reheader -h /<>/test/reheader.empty.hdr | /<>/bcftools view --no-version .. ok test_vcf_reheader: /<>/bcftools reheader -h /<>/test/reheader.empty.hdr /tmp/nbslSrup95/empty.vcf.gz | /<>/bcftools view --no-version .. ok test_vcf_reheader: cat /tmp/nbslSrup95/empty.vcf.gz | /<>/bcftools reheader -h /<>/test/reheader.empty.hdr | /<>/bcftools view --no-version .. ok test_rename_chrs: /<>/bcftools annotate --rename-chrs /tmp/nbslSrup95/rename.map -Ov /tmp/nbslSrup95/annotate.bcf | /<>/bcftools query -f'%CHROM\t%POS\n' .. ok test_rename_chrs: /<>/bcftools annotate --rename-chrs /tmp/nbslSrup95/rename.map -Ob /tmp/nbslSrup95/annotate.bcf | /<>/bcftools query -f'%CHROM\t%POS\n' .. ok test_rename_chrs: /<>/bcftools annotate --rename-chrs /tmp/nbslSrup95/rename.map -Ov /<>/test/annotate.vcf | /<>/bcftools query -f'%CHROM\t%POS\n' .. ok test_rename_chrs: /<>/bcftools annotate --rename-chrs /tmp/nbslSrup95/rename.map -Ob /<>/test/annotate.vcf | /<>/bcftools query -f'%CHROM\t%POS\n' .. ok test_vcf_convert: /<>/bcftools convert -g -,. /tmp/nbslSrup95/convert.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/convert.vcf.gz | /<>/bcftools convert -g -,. 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -g .,- /tmp/nbslSrup95/convert.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/convert.vcf.gz | /<>/bcftools convert -g .,- 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -g -,. --tag PL /tmp/nbslSrup95/convert.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/convert.vcf.gz | /<>/bcftools convert -g -,. --tag PL 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -g .,- --tag PL /tmp/nbslSrup95/convert.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/convert.vcf.gz | /<>/bcftools convert -g .,- --tag PL 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -g -,. --vcf-ids /tmp/nbslSrup95/check.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/check.vcf.gz | /<>/bcftools convert -g -,. --vcf-ids 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -g .,- --vcf-ids /tmp/nbslSrup95/check.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/check.vcf.gz | /<>/bcftools convert -g .,- --vcf-ids 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -g -,. --chrom /tmp/nbslSrup95/check.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/check.vcf.gz | /<>/bcftools convert -g -,. --chrom 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -g .,- --chrom /tmp/nbslSrup95/check.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/check.vcf.gz | /<>/bcftools convert -g .,- --chrom 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -g -,. --chrom --vcf-ids /tmp/nbslSrup95/check.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/check.vcf.gz | /<>/bcftools convert -g -,. --chrom --vcf-ids 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -g .,- --chrom --vcf-ids /tmp/nbslSrup95/check.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/check.vcf.gz | /<>/bcftools convert -g .,- --chrom --vcf-ids 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -h -,.,. /tmp/nbslSrup95/convert.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/convert.vcf.gz | /<>/bcftools convert -h -,.,. 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -h .,-,. /tmp/nbslSrup95/convert.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/convert.vcf.gz | /<>/bcftools convert -h .,-,. 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert -h .,.,- /tmp/nbslSrup95/convert.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/convert.vcf.gz | /<>/bcftools convert -h .,.,- 2>/dev/null .. ok test_vcf_convert_hls2vcf: /<>/bcftools convert -H /<>/test/convert.hls.gt.hap,/<>/test/convert.hls.gt.legend,/<>/test/convert.hls.gt.samples 2>/dev/null | grep -v ^## .. ok test_vcf_convert_hls2vcf: /<>/bcftools convert -H /<>/test/convert.hls.gt.hap,/<>/test/convert.hls.gt.legend,/<>/test/convert.hls.gt.samples -Ou 2>/dev/null | /<>/bcftools view | grep -v ^## .. ok test_vcf_convert_hs2vcf: /<>/bcftools convert --hapsample2vcf /<>/test/convert.hs.gt.hap,/<>/test/convert.hs.gt.samples 2>/dev/null | grep -v ^## .. ok test_vcf_convert_hs2vcf: /<>/bcftools convert --hapsample2vcf /<>/test/convert.hs.gt.hap,/<>/test/convert.hs.gt.samples -Ou 2>/dev/null | /<>/bcftools view | grep -v ^## .. ok test_vcf_convert: /<>/bcftools convert --hapsample -,. /tmp/nbslSrup95/convert.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/convert.vcf.gz | /<>/bcftools convert --hapsample -,. 2>/dev/null .. ok test_vcf_convert: /<>/bcftools convert --hapsample .,- /tmp/nbslSrup95/convert.vcf.gz 2>/dev/null .. ok test_vcf_convert: /<>/bcftools view -Ob /tmp/nbslSrup95/convert.vcf.gz | /<>/bcftools convert --hapsample .,- 2>/dev/null .. ok test_vcf_convert_gvcf: /<>/bcftools convert --no-version --gvcf2vcf -f /<>/test/gvcf.fa /tmp/nbslSrup95/convert.gvcf.vcf.gz 2>/dev/null .. ok test_vcf_convert_gvcf: /<>/bcftools view -Ob /tmp/nbslSrup95/convert.gvcf.vcf.gz | /<>/bcftools convert --gvcf2vcf -f /<>/test/gvcf.fa 2>/dev/null | grep -v ^##bcftools .. ok test_vcf_convert_tsv2vcf: /<>/bcftools convert --no-version -c ID,CHROM,POS,AA -s SAMPLE1 -f /<>/test/23andme.fa --tsv2vcf /<>/test/convert.23andme 2>/dev/null .. ok test_vcf_convert_tsv2vcf: /<>/bcftools convert -Ou -c ID,CHROM,POS,AA -s SAMPLE1 -f /<>/test/23andme.fa --tsv2vcf /<>/test/convert.23andme 2>/dev/null | /<>/bcftools view | grep -v ^##bcftools_ .. ok test_vcf_consensus: /<>/bcftools consensus /tmp/nbslSrup95/consensus.vcf.gz -f /<>/test/consensus.fa -m /<>/test/consensus.tab 2>/dev/null .. ok test_vcf_consensus_chain: /<>/bcftools consensus /tmp/nbslSrup95/consensus.vcf.gz -f /<>/test/consensus.fa -m /<>/test/consensus.tab -c /tmp/nbslSrup95/consensus.1.chain.new > /dev/null 2>/dev/null; cat /tmp/nbslSrup95/consensus.1.chain.new .. ok test_vcf_consensus: /<>/bcftools consensus /tmp/nbslSrup95/consensus.vcf.gz -f /<>/test/consensus.fa -H 1 -m /<>/test/consensus.tab 2>/dev/null .. ok test_vcf_consensus_chain: /<>/bcftools consensus /tmp/nbslSrup95/consensus.vcf.gz -f /<>/test/consensus.fa -H 1 -m /<>/test/consensus.tab -c /tmp/nbslSrup95/consensus.2.chain.new > /dev/null 2>/dev/null; cat /tmp/nbslSrup95/consensus.2.chain.new .. ok test_vcf_consensus: /<>/bcftools consensus /tmp/nbslSrup95/consensus.vcf.gz -f /<>/test/consensus.fa -i -m /<>/test/consensus.tab 2>/dev/null .. ok test_vcf_consensus_chain: /<>/bcftools consensus /tmp/nbslSrup95/consensus.vcf.gz -f /<>/test/consensus.fa -i -m /<>/test/consensus.tab -c /tmp/nbslSrup95/consensus.3.chain.new > /dev/null 2>/dev/null; cat /tmp/nbslSrup95/consensus.3.chain.new .. ok test_vcf_consensus: /<>/bcftools consensus /tmp/nbslSrup95/consensus.vcf.gz -f /<>/test/consensus.fa -H 1 2>/dev/null .. ok test_vcf_consensus_chain: /<>/bcftools consensus /tmp/nbslSrup95/consensus.vcf.gz -f /<>/test/consensus.fa -H 1 -c /tmp/nbslSrup95/consensus.4.chain.new > /dev/null 2>/dev/null; cat /tmp/nbslSrup95/consensus.4.chain.new .. ok test_vcf_consensus: /<>/bcftools consensus /tmp/nbslSrup95/consensus2.vcf.gz -f /<>/test/consensus2.fa -H 1 2>/dev/null .. ok test_vcf_consensus: /<>/bcftools consensus /tmp/nbslSrup95/consensus2.vcf.gz -f /<>/test/consensus2.fa -H 2 2>/dev/null .. ok test_vcf_consensus: /<>/bcftools consensus /tmp/nbslSrup95/empty.vcf.gz -f /<>/test/consensus.fa 2>/dev/null .. ok Number of tests: total .. 410 passed .. 336 failed .. 74 Makefile:102: recipe for target 'test' failed make[1]: *** [test] Error 1 make[1]: Leaving directory '/<>' dh_auto_test: make -j4 test returned exit code 2 debian/rules:11: recipe for target 'build-arch' failed make: *** [build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 -------------------------------------------------------------------------------- Build finished at 20161213-0752 Finished -------- E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Not removing build depends: as requested Keeping session: +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: i386 Build-Space: 11376 Build-Time: 21 Distribution: zesty Fail-Stage: build Host Architecture: i386 Install-Time: 14 Job: bcftools_1.3.1-1.dsc Machine Architecture: amd64 Package: bcftools Package-Time: 37 Source-Version: 1.3.1-1 Space: 11376 Status: attempted Version: 1.3.1-1 -------------------------------------------------------------------------------- Finished at 20161213-0752 Build needed 00:00:37, 11376k disc space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-11399712'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-11399712/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-11399712'] Unmounting chroot for build PACKAGEBUILD-11399712... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-11399712'] Removing build PACKAGEBUILD-11399712