RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux lcy01-35 4.4.0-57-generic #78-Ubuntu SMP Fri Dec 9 23:50:32 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... 22 Dec 05:17:13 ntpdate[1906]: adjust time server 10.211.37.1 offset 0.013625 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-11768049', '/home/buildd/filecache-default/5ce6418ad8acb4cb980a16cd30f1736d3291c7a9'] Unpacking chroot for build PACKAGEBUILD-11768049 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-11768049'] Mounting chroot for build PACKAGEBUILD-11768049 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-11768049', 'deb http://ftpmaster.internal/ubuntu zesty main universe', 'deb http://ftpmaster.internal/ubuntu zesty-security main universe', 'deb http://ftpmaster.internal/ubuntu zesty-updates main universe', 'deb http://ftpmaster.internal/ubuntu zesty-proposed main universe'] Overriding sources.list in build-PACKAGEBUILD-11768049 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-11768049', 'i386'] Updating debian chroot for build PACKAGEBUILD-11768049 Get:1 http://ftpmaster.internal/ubuntu zesty InRelease [253 kB] Get:2 http://ftpmaster.internal/ubuntu zesty-security InRelease [102 kB] Get:3 http://ftpmaster.internal/ubuntu zesty-updates InRelease [102 kB] Get:4 http://ftpmaster.internal/ubuntu zesty-proposed InRelease [102 kB] Get:5 http://ftpmaster.internal/ubuntu zesty/main i386 Packages [1232 kB] Get:6 http://ftpmaster.internal/ubuntu zesty/main Translation-en [586 kB] Get:7 http://ftpmaster.internal/ubuntu zesty/universe i386 Packages [7992 kB] Get:8 http://ftpmaster.internal/ubuntu zesty/universe Translation-en [4648 kB] Get:9 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 Packages [78.8 kB] Get:10 http://ftpmaster.internal/ubuntu zesty-proposed/main Translation-en [40.2 kB] Get:11 http://ftpmaster.internal/ubuntu zesty-proposed/universe i386 Packages [332 kB] Get:12 http://ftpmaster.internal/ubuntu zesty-proposed/universe Translation-en [148 kB] Fetched 15.6 MB in 4s (3223 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libperl5.22 perl-modules-5.22 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libperl5.24 perl-modules-5.24 The following packages will be upgraded: adduser advancecomp apt apt-transport-https base-files base-passwd bash binutils bsdutils ca-certificates cpp cpp-6 debianutils diffutils dmsetup findutils g++ g++-6 gcc gcc-6 gcc-6-base grep init init-system-helpers libapparmor1 libapt-pkg5.0 libasan3 libasn1-8-heimdal libassuan0 libatomic1 libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcc1-0 libcilkrts5 libcurl3-gnutls libdevmapper1.02.1 libfdisk1 libgcc-6-dev libgcc1 libgcrypt20 libgmp10 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 libseccomp2 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 multiarch-support openssl perl perl-base pinentry-curses pkg-create-dbgsym systemd systemd-sysv tar tzdata ubuntu-keyring util-linux xz-utils zlib1g 104 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 58.5 MB of archives. After this operation, 35.6 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 base-files i386 9.6ubuntu9 [57.0 kB] Get:2 http://ftpmaster.internal/ubuntu zesty/main i386 debianutils i386 4.8.1 [85.8 kB] Get:3 http://ftpmaster.internal/ubuntu zesty/main i386 bash i386 4.4-2ubuntu1 [622 kB] Get:4 http://ftpmaster.internal/ubuntu zesty/main i386 bsdutils i386 1:2.29-1ubuntu2 [58.4 kB] Get:5 http://ftpmaster.internal/ubuntu zesty/main i386 diffutils i386 1:3.5-1 [167 kB] Get:6 http://ftpmaster.internal/ubuntu zesty/main i386 findutils i386 4.6.0+git+20161106-1 [291 kB] Get:7 http://ftpmaster.internal/ubuntu zesty/main i386 grep i386 2.27-1 [158 kB] Get:8 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libc6-dev i386 2.24-7ubuntu2 [1870 kB] Get:9 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libc-dev-bin i386 2.24-7ubuntu2 [66.6 kB] Get:10 http://ftpmaster.internal/ubuntu zesty/main i386 linux-libc-dev i386 4.9.0-11.12 [866 kB] Get:11 http://ftpmaster.internal/ubuntu zesty/main i386 libquadmath0 i386 6.2.1-7ubuntu1 [205 kB] Get:12 http://ftpmaster.internal/ubuntu zesty/main i386 libitm1 i386 6.2.1-7ubuntu1 [31.2 kB] Get:13 http://ftpmaster.internal/ubuntu zesty/main i386 gcc-6-base i386 6.2.1-7ubuntu1 [17.7 kB] Get:14 http://ftpmaster.internal/ubuntu zesty/main i386 libgcc1 i386 1:6.2.1-7ubuntu1 [48.0 kB] Get:15 http://ftpmaster.internal/ubuntu zesty/main i386 libcc1-0 i386 6.2.1-7ubuntu1 [32.9 kB] Get:16 http://ftpmaster.internal/ubuntu zesty/main i386 binutils i386 2.27.51.20161220-1ubuntu1 [2525 kB] Get:17 http://ftpmaster.internal/ubuntu zesty/main i386 libgomp1 i386 6.2.1-7ubuntu1 [80.0 kB] Get:18 http://ftpmaster.internal/ubuntu zesty/main i386 libatomic1 i386 6.2.1-7ubuntu1 [9930 B] Get:19 http://ftpmaster.internal/ubuntu zesty/main i386 libasan3 i386 6.2.1-7ubuntu1 [308 kB] Get:20 http://ftpmaster.internal/ubuntu zesty/main i386 libubsan0 i386 6.2.1-7ubuntu1 [121 kB] Get:21 http://ftpmaster.internal/ubuntu zesty/main i386 libcilkrts5 i386 6.2.1-7ubuntu1 [45.8 kB] Get:22 http://ftpmaster.internal/ubuntu zesty/main i386 libmpx2 i386 6.2.1-7ubuntu1 [12.8 kB] Get:23 http://ftpmaster.internal/ubuntu zesty/main i386 g++-6 i386 6.2.1-7ubuntu1 [7625 kB] Get:24 http://ftpmaster.internal/ubuntu zesty/main i386 libstdc++-6-dev i386 6.2.1-7ubuntu1 [1468 kB] Get:25 http://ftpmaster.internal/ubuntu zesty/main i386 libgcc-6-dev i386 6.2.1-7ubuntu1 [2310 kB] Get:26 http://ftpmaster.internal/ubuntu zesty/main i386 gcc-6 i386 6.2.1-7ubuntu1 [7378 kB] Get:27 http://ftpmaster.internal/ubuntu zesty/main i386 cpp-6 i386 6.2.1-7ubuntu1 [6825 kB] Get:28 http://ftpmaster.internal/ubuntu zesty/main i386 libstdc++6 i386 6.2.1-7ubuntu1 [433 kB] Get:29 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 zlib1g i386 1:1.2.8.dfsg-4ubuntu1 [51.9 kB] Get:30 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libgmp10 i386 2:6.1.2+dfsg-1 [247 kB] Get:31 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libc6 i386 2.24-7ubuntu2 [2279 kB] Get:32 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1.29b-1.1 [236 kB] Get:43 http://ftpmaster.internal/ubuntu zesty/main i386 base-passwd i386 3.5.42 [49.1 kB] Get:44 http://ftpmaster.internal/ubuntu zesty/main i386 init-system-helpers all 1.46 [37.3 kB] Get:45 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libc-bin i386 2.24-7ubuntu2 [582 kB] Get:46 http://ftpmaster.internal/ubuntu zesty/main i386 liblzma5 i386 5.2.2-1.2 [98.7 kB] Get:47 http://ftpmaster.internal/ubuntu zesty/main i386 libapt-pkg5.0 i386 1.4~beta2 [845 kB] Get:48 http://ftpmaster.internal/ubuntu zesty/main i386 adduser all 3.113+nmu3ubuntu5 [161 kB] Get:49 http://ftpmaster.internal/ubuntu zesty/main i386 ubuntu-keyring all 2016.10.27 [16.6 kB] Get:50 http://ftpmaster.internal/ubuntu zesty/main i386 apt i386 1.4~beta2 [1102 kB] Get:51 http://ftpmaster.internal/ubuntu zesty/main i386 libapparmor1 i386 2.10.95-4ubuntu5.2 [31.6 kB] Get:52 http://ftpmaster.internal/ubuntu zesty/main i386 libgpg-error0 i386 1.25-2 [37.3 kB] Get:53 http://ftpmaster.internal/ubuntu zesty/main i386 libgcrypt20 i386 1.7.5-2 [373 kB] Get:54 http://ftpmaster.internal/ubuntu zesty/main i386 libmount1 i386 2.29-1ubuntu2 [130 kB] Get:55 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libseccomp2 i386 2.3.1-2.1ubuntu1 [35.5 kB] Get:56 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 systemd i386 232-8 [2406 kB] Get:57 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libsystemd0 i386 232-8 [229 kB] Get:58 http://ftpmaster.internal/ubuntu zesty/main i386 init i386 1.46 [5318 B] Get:59 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 systemd-sysv i386 232-8 [14.1 kB] Get:60 http://ftpmaster.internal/ubuntu zesty/main i386 libsepol1 i386 2.6-2 [240 kB] Get:61 http://ftpmaster.internal/ubuntu zesty/main i386 libustr-1.0-1 i386 1.0.4-6 [63.7 kB] Get:62 http://ftpmaster.internal/ubuntu zesty/main i386 libsemanage-common all 2.6-1 [6832 B] Get:63 http://ftpmaster.internal/ubuntu zesty/main i386 libsemanage1 i386 2.6-1 [89.9 kB] Get:64 http://ftpmaster.internal/ubuntu zesty/main i386 libsmartcols1 i386 2.29-1ubuntu2 [75.9 kB] Get:65 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libudev1 i386 232-8 [60.5 kB] Get:66 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 multiarch-support i386 2.24-7ubuntu2 [6814 B] Get:67 http://ftpmaster.internal/ubuntu zesty/main i386 tzdata all 2016j-2 [204 kB] Get:68 http://ftpmaster.internal/ubuntu zesty/main i386 libdevmapper1.02.1 i386 2:1.02.136-1ubuntu1 [146 kB] Get:69 http://ftpmaster.internal/ubuntu zesty/main i386 dmsetup i386 2:1.02.136-1ubuntu1 [72.9 kB] Get:70 http://ftpmaster.internal/ubuntu zesty/main i386 libroken18-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [44.4 kB] Get:71 http://ftpmaster.internal/ubuntu zesty/main i386 libasn1-8-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [187 kB] Get:72 http://ftpmaster.internal/ubuntu zesty/main i386 libassuan0 i386 2.4.3-2 [36.6 kB] Get:73 http://ftpmaster.internal/ubuntu zesty/main i386 libhogweed4 i386 3.3-1 [137 kB] Get:74 http://ftpmaster.internal/ubuntu zesty/main i386 libnettle6 i386 3.3-1 [109 kB] Get:75 http://ftpmaster.internal/ubuntu zesty/main i386 libgnutls30 i386 3.5.6-4ubuntu2 [642 kB] Get:76 http://ftpmaster.internal/ubuntu zesty/main i386 libheimbase1-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [32.1 kB] Get:77 http://ftpmaster.internal/ubuntu zesty/main i386 libhcrypto4-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [93.1 kB] Get:78 http://ftpmaster.internal/ubuntu zesty/main i386 libwind0-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [48.4 kB] Get:79 http://ftpmaster.internal/ubuntu zesty/main i386 libhx509-5-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [118 kB] Get:80 http://ftpmaster.internal/ubuntu zesty/main i386 libsqlite3-0 i386 3.15.2-2 [517 kB] Get:81 http://ftpmaster.internal/ubuntu zesty/main i386 libkrb5-26-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [227 kB] Get:82 http://ftpmaster.internal/ubuntu zesty/main i386 libheimntlm0-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [16.6 kB] Get:83 http://ftpmaster.internal/ubuntu zesty/main i386 libgssapi3-heimdal i386 1.7~git20160703+dfsg-1ubuntu1 [108 kB] Get:84 http://ftpmaster.internal/ubuntu zesty/main i386 libksba8 i386 1.3.5-2 [99.9 kB] Get:85 http://ftpmaster.internal/ubuntu zesty/main i386 libsasl2-modules-db i386 2.1.27~72-g88d82a3+dfsg-1 [16.0 kB] Get:86 http://ftpmaster.internal/ubuntu zesty/main i386 libsasl2-2 i386 2.1.27~72-g88d82a3+dfsg-1 [52.3 kB] Get:87 http://ftpmaster.internal/ubuntu zesty/main i386 libldap-2.4-2 i386 2.4.42+dfsg-2ubuntu5 [173 kB] Get:88 http://ftpmaster.internal/ubuntu zesty/main i386 libnpth0 i386 1.3-1 [8414 B] Get:89 http://ftpmaster.internal/ubuntu zesty/main i386 libslang2 i386 2.3.1-5ubuntu1 [423 kB] Get:90 http://ftpmaster.internal/ubuntu zesty/main i386 libssl1.0.0 i386 1.0.2g-1ubuntu10 [910 kB] Get:91 http://ftpmaster.internal/ubuntu zesty/main i386 pinentry-curses i386 1.0.0-1 [33.4 kB] Get:92 http://ftpmaster.internal/ubuntu zesty/main i386 xz-utils i386 5.2.2-1.2 [86.3 kB] Get:93 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libgssapi-krb5-2 i386 1.15-1 [129 kB] Get:94 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libkrb5-3 i386 1.15-1 [300 kB] Get:95 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libkrb5support0 i386 1.15-1 [33.8 kB] Get:96 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libk5crypto3 i386 1.15-1 [88.3 kB] Get:97 http://ftpmaster.internal/ubuntu zesty/main i386 libcurl3-gnutls i386 7.51.0-1ubuntu1 [210 kB] Get:98 http://ftpmaster.internal/ubuntu zesty/main i386 apt-transport-https i386 1.4~beta2 [38.2 kB] Get:99 http://ftpmaster.internal/ubuntu zesty/main i386 openssl i386 1.0.2g-1ubuntu10 [506 kB] Get:100 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 ca-certificates all 20161130 [193 kB] Get:101 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libpng16-16 i386 1.6.26-6 [181 kB] Get:102 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 advancecomp i386 1.23-1 [189 kB] Get:103 http://ftpmaster.internal/ubuntu zesty/main i386 cpp i386 4:6.2.1-1ubuntu1 [27.4 kB] Get:104 http://ftpmaster.internal/ubuntu zesty/main i386 gcc i386 4:6.2.1-1ubuntu1 [5206 B] Get:105 http://ftpmaster.internal/ubuntu zesty/main i386 g++ i386 4:6.2.1-1ubuntu1 [1486 B] Get:106 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 58.5 MB in 6s (9654 kB/s) (Reading database ... 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Setting up libperl5.24:i386 (5.24.1~rc4-1) ... Setting up libnettle6:i386 (3.3-1) ... Setting up libcc1-0:i386 (6.2.1-7ubuntu1) ... Setting up libasan3:i386 (6.2.1-7ubuntu1) ... Setting up libssl1.0.0:i386 (1.0.2g-1ubuntu10) ... Setting up libpng16-16:i386 (1.6.26-6) ... Setting up libcilkrts5:i386 (6.2.1-7ubuntu1) ... Setting up tzdata (2016j-2) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Dec 22 05:18:03 UTC 2016. Universal Time is now: Thu Dec 22 05:18:03 UTC 2016. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up systemd-sysv (232-8) ... Setting up libubsan0:i386 (6.2.1-7ubuntu1) ... Setting up libsasl2-modules-db:i386 (2.1.27~72-g88d82a3+dfsg-1) ... Setting up linux-libc-dev:i386 (4.9.0-11.12) ... Setting up advancecomp (1.23-1) ... 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 (1.15-1) ... Setting up perl (5.24.1~rc4-1) ... Installing new version of config file /etc/perl/sitecustomize.pl ... Setting up libmpx2:i386 (6.2.1-7ubuntu1) ... Setting up libgmp10:i386 (2:6.1.2+dfsg-1) ... Processing triggers for libc-bin (2.24-7ubuntu2) ... 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 (3.15.2-2) ... Setting up dmsetup (2:1.02.136-1ubuntu1) ... Setting up binutils (2.27.51.20161220-1ubuntu1) ... Setting up cpp-6 (6.2.1-7ubuntu1) ... Setting up libc-dev-bin (2.24-7ubuntu2) ... Setting up ca-certificates (20161130) ... Updating certificates in /etc/ssl/certs... 10 added, 10 removed; done. Setting up libc6-dev:i386 (2.24-7ubuntu2) ... Setting up libslang2:i386 (2.3.1-5ubuntu1) ... Setting up libassuan0:i386 (2.4.3-2) ... Setting up libitm1:i386 (6.2.1-7ubuntu1) ... Setting up cpp (4:6.2.1-1ubuntu1) ... Setting up libk5crypto3:i386 (1.15-1) ... Setting up libgcc-6-dev:i386 (6.2.1-7ubuntu1) ... Setting up libstdc++-6-dev:i386 (6.2.1-7ubuntu1) ... 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 libhx509-5-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up gcc-6 (6.2.1-7ubuntu1) ... Setting up libhogweed4:i386 (3.3-1) ... Setting up g++-6 (6.2.1-7ubuntu1) ... Setting up pinentry-curses (1.0.0-1) ... Setting up libkrb5-3:i386 (1.15-1) ... Setting up libkrb5-26-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up libheimntlm0-heimdal:i386 (1.7~git20160703+dfsg-1ubuntu1) ... Setting up libgnutls30:i386 (3.5.6-4ubuntu2) ... Setting up gcc (4:6.2.1-1ubuntu1) ... Setting up libgssapi-krb5-2:i386 (1.15-1) ... Setting up g++ (4:6.2.1-1ubuntu1) ... 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) ... Setting up apt-transport-https (1.4~beta2) ... Processing triggers for libc-bin (2.24-7ubuntu2) ... Processing triggers for ca-certificates (20161130) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-11768049', 'i386', 'zesty-proposed', '-c', 'chroot:autobuild', '--arch=i386', '--dist=zesty-proposed', '--purge=never', '--nolog', 'clustalo_1.2.4-1.dsc'] Initiating build PACKAGEBUILD-11768049 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-57-generic #78-Ubuntu SMP Fri Dec 9 23:50:32 UTC 2016 i686 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lcy01-35.buildd +==============================================================================+ | clustalo 1.2.4-1 (i386) 22 Dec 2016 05:18 | +==============================================================================+ Package: clustalo Version: 1.2.4-1 Source Version: 1.2.4-1 Distribution: zesty-proposed Machine Architecture: amd64 Host Architecture: i386 Build Architecture: i386 I: NOTICE: Log filtering will replace 'build/clustalo-hKeftb/clustalo-1.2.4' with '<>' I: NOTICE: Log filtering will replace 'build/clustalo-hKeftb' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-11768049/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- clustalo_1.2.4-1.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-JpLaKq/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-JpLaKq/apt_archive ./ InRelease Get:2 copy:/<>/resolver-JpLaKq/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-JpLaKq/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-JpLaKq/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-JpLaKq/apt_archive ./ Packages [525 B] Fetched 2858 B in 0s (163 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: libperl5.22 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-JpLaKq/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 (>= 10), dh-autoreconf, dh-linktree, libargtable2-dev, doxygen, graphviz, sphinx-common Filtered Build-Depends: debhelper (>= 10), dh-autoreconf, dh-linktree, libargtable2-dev, doxygen, graphviz, sphinx-common dpkg-deb: building package 'sbuild-build-depends-clustalo-dummy' in '/<>/resolver-eRK6rY/apt_archive/sbuild-build-depends-clustalo-dummy.deb'. Ign:1 copy:/<>/resolver-eRK6rY/apt_archive ./ InRelease Get:2 copy:/<>/resolver-eRK6rY/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-eRK6rY/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-eRK6rY/apt_archive ./ Sources [261 B] Get:5 copy:/<>/resolver-eRK6rY/apt_archive ./ Packages [583 B] Fetched 2963 B in 0s (184 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install clustalo build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.22 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-linktree dh-strip-nondeterminism doxygen file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base graphviz groff-base intltool-debian libarchive-zip-perl libargtable2-0 libargtable2-dev libargtable2-docs libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-3.9 libcroco3 libdatrie1 libedit2 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libgd3 libglib2.0-0 libgraphite2-3 libgvc6 libgvpr2 libharfbuzz0b libice6 libicu57 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore libllvm3.9 libltdl7 libmagic-mgc libmagic1 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpipeline1 libpixman-1-0 libsigsegv2 libsm6 libthai-data libthai0 libtiff5 libtimedate-perl libtool libunistring0 libwebp6 libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2 libxmu6 libxpm4 libxrender1 libxt6 m4 man-db po-debconf sphinx-common ucf x11-common Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make doxygen-latex doxygen-doc doxygen-gui gettext-doc libasprintf-dev libgettextpo-dev gsfonts graphviz-doc groff libgd-tools libtool-doc gfortran | fortran95-compiler gcj-jdk less www-browser libmail-box-perl Recommended packages: curl | wget | lynx-cur fonts-liberation libglib2.0-data shared-mime-info xdg-user-dirs javascript-common libltdl-dev xml-core libmail-sendmail-perl python-sphinx | python3-sphinx The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-linktree dh-strip-nondeterminism doxygen file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base graphviz groff-base intltool-debian libarchive-zip-perl libargtable2-0 libargtable2-dev libargtable2-docs libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-3.9 libcroco3 libdatrie1 libedit2 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libgd3 libglib2.0-0 libgraphite2-3 libgvc6 libgvpr2 libharfbuzz0b libice6 libicu57 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore libllvm3.9 libltdl7 libmagic-mgc libmagic1 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpipeline1 libpixman-1-0 libsigsegv2 libsm6 libthai-data libthai0 libtiff5 libtimedate-perl libtool libunistring0 libwebp6 libx11-6 libx11-data libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2 libxmu6 libxpm4 libxrender1 libxt6 m4 man-db po-debconf sbuild-build-depends-clustalo-dummy sphinx-common ucf x11-common 0 upgraded, 89 newly installed, 0 to remove and 0 not upgraded. Need to get 49.9 MB of archives. After this operation, 190 MB of additional disk space will be used. Get:1 copy:/<>/resolver-eRK6rY/apt_archive ./ sbuild-build-depends-clustalo-dummy 0.invalid.0 [824 B] Get:2 http://ftpmaster.internal/ubuntu zesty/main i386 libxau6 i386 1:1.0.8-1 [8352 B] Get:3 http://ftpmaster.internal/ubuntu zesty/main i386 libxdmcp6 i386 1:1.1.2-1.1 [11.4 kB] Get:4 http://ftpmaster.internal/ubuntu zesty/main i386 libxcb1 i386 1.11.1-1ubuntu1 [44.1 kB] Get:5 http://ftpmaster.internal/ubuntu zesty/main i386 libx11-data all 2:1.6.3-1ubuntu3 [113 kB] Get:6 http://ftpmaster.internal/ubuntu zesty/main i386 libx11-6 i386 2:1.6.3-1ubuntu3 [593 kB] Get:7 http://ftpmaster.internal/ubuntu zesty/main i386 libxext6 i386 2:1.3.3-1 [31.6 kB] Get:8 http://ftpmaster.internal/ubuntu zesty/main i386 groff-base i386 1.22.3-9 [1163 kB] Get:9 http://ftpmaster.internal/ubuntu zesty/main i386 libbsd0 i386 0.8.3-1 [44.9 kB] Get:10 http://ftpmaster.internal/ubuntu zesty/main i386 bsdmainutils i386 9.0.12ubuntu1 [175 kB] Get:11 http://ftpmaster.internal/ubuntu zesty/main i386 libpipeline1 i386 1.4.1-2 [26.5 kB] Get:12 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 man-db i386 2.7.6.1-2 [906 kB] Get:13 http://ftpmaster.internal/ubuntu zesty/main i386 fonts-dejavu-core all 2.37-1 [1041 kB] Get:14 http://ftpmaster.internal/ubuntu zesty/main i386 ucf all 3.0036 [52.9 kB] Get:15 http://ftpmaster.internal/ubuntu zesty/main i386 fontconfig-config all 2.11.94-0ubuntu2 [49.9 kB] Get:16 http://ftpmaster.internal/ubuntu zesty/main i386 libexpat1 i386 2.2.0-1 [74.9 kB] Get:17 http://ftpmaster.internal/ubuntu zesty/main i386 libfreetype6 i386 2.6.3-3ubuntu1 [335 kB] Get:18 http://ftpmaster.internal/ubuntu zesty/main i386 libfontconfig1 i386 2.11.94-0ubuntu2 [140 kB] Get:19 http://ftpmaster.internal/ubuntu zesty/main i386 fontconfig i386 2.11.94-0ubuntu2 [177 kB] Get:20 http://ftpmaster.internal/ubuntu zesty/main i386 x11-common all 1:7.7+16ubuntu2 [21.9 kB] Get:21 http://ftpmaster.internal/ubuntu zesty/main i386 libice6 i386 2:1.0.9-1 [38.2 kB] Get:22 http://ftpmaster.internal/ubuntu zesty/main i386 libjpeg-turbo8 i386 1.5.1-0ubuntu1 [120 kB] Get:23 http://ftpmaster.internal/ubuntu zesty/main i386 libsm6 i386 2:1.2.2-1 [14.8 kB] Get:24 http://ftpmaster.internal/ubuntu zesty/main i386 libunistring0 i386 0.9.3-5.2ubuntu1 [277 kB] Get:25 http://ftpmaster.internal/ubuntu zesty/main i386 libxpm4 i386 1:3.5.11-1 [32.1 kB] Get:26 http://ftpmaster.internal/ubuntu zesty/main i386 libjbig0 i386 2.1-3.1 [27.0 kB] Get:27 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libmagic-mgc i386 1:5.29-2 [180 kB] Get:28 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libmagic1 i386 1:5.29-2 [74.2 kB] Get:29 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 file i386 1:5.29-2 [21.7 kB] Get:30 http://ftpmaster.internal/ubuntu zesty/main i386 gettext-base i386 0.19.8.1-1ubuntu2 [49.0 kB] Get:31 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libedit2 i386 3.1-20160903-2 [80.3 kB] Get:32 http://ftpmaster.internal/ubuntu zesty/main i386 libglib2.0-0 i386 2.51.0-2 [1214 kB] Get:33 http://ftpmaster.internal/ubuntu zesty/main i386 libicu57 i386 57.1-5 [7813 kB] Get:34 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libxml2 i386 2.9.4+dfsg1-2.1 [733 kB] Get:35 http://ftpmaster.internal/ubuntu zesty/main i386 libsigsegv2 i386 2.10-5 [14.3 kB] Get:36 http://ftpmaster.internal/ubuntu zesty/main i386 m4 i386 1.4.17-5 [195 kB] Get:37 http://ftpmaster.internal/ubuntu zesty/main i386 autoconf all 2.69-10 [321 kB] Get:38 http://ftpmaster.internal/ubuntu zesty/main i386 autotools-dev all 20161112.1 [39.5 kB] Get:39 http://ftpmaster.internal/ubuntu zesty/main i386 automake all 1:1.15-5ubuntu1 [509 kB] Get:40 http://ftpmaster.internal/ubuntu zesty/main i386 autopoint all 0.19.8.1-1ubuntu2 [412 kB] Get:41 http://ftpmaster.internal/ubuntu zesty/main i386 libtool all 2.4.6-2 [194 kB] Get:42 http://ftpmaster.internal/ubuntu zesty/main i386 dh-autoreconf all 12 [15.8 kB] Get:43 http://ftpmaster.internal/ubuntu zesty/main i386 libarchive-zip-perl all 1.59-1 [84.0 kB] Get:44 http://ftpmaster.internal/ubuntu zesty/main i386 libfile-stripnondeterminism-perl all 0.028-1 [12.5 kB] Get:45 http://ftpmaster.internal/ubuntu zesty/main i386 libtimedate-perl all 2.3000-2 [37.5 kB] Get:46 http://ftpmaster.internal/ubuntu zesty/main i386 dh-strip-nondeterminism all 0.028-1 [4820 B] Get:47 http://ftpmaster.internal/ubuntu zesty/main i386 libcroco3 i386 0.6.11-2 [87.1 kB] Get:48 http://ftpmaster.internal/ubuntu zesty/main i386 gettext i386 0.19.8.1-1ubuntu2 [1086 kB] Get:49 http://ftpmaster.internal/ubuntu zesty/main i386 intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:50 http://ftpmaster.internal/ubuntu zesty/main i386 po-debconf all 1.0.20 [232 kB] Get:51 http://ftpmaster.internal/ubuntu zesty/main i386 debhelper all 10.2.2ubuntu1 [742 kB] Get:52 http://ftpmaster.internal/ubuntu zesty/universe i386 dh-linktree all 0.4 [11.0 kB] Get:53 http://ftpmaster.internal/ubuntu zesty/main i386 libllvm3.9 i386 1:3.9.1-1ubuntu1 [12.5 MB] Get:54 http://ftpmaster.internal/ubuntu zesty/main i386 libclang1-3.9 i386 1:3.9.1-1ubuntu1 [6816 kB] Get:55 http://ftpmaster.internal/ubuntu zesty/main i386 doxygen i386 1.8.12-1ubuntu1 [3620 kB] Get:56 http://ftpmaster.internal/ubuntu zesty/main i386 libcdt5 i386 2.38.0-15ubuntu2 [19.6 kB] Get:57 http://ftpmaster.internal/ubuntu zesty/main i386 libcgraph6 i386 2.38.0-15ubuntu2 [43.4 kB] Get:58 http://ftpmaster.internal/ubuntu zesty/main i386 libjpeg8 i386 8c-2ubuntu8 [2188 B] Get:59 http://ftpmaster.internal/ubuntu zesty/main i386 libtiff5 i386 4.0.7-3 [158 kB] Get:60 http://ftpmaster.internal/ubuntu zesty/main i386 libwebp6 i386 0.5.1-4 [182 kB] Get:61 http://ftpmaster.internal/ubuntu zesty/main i386 libgd3 i386 2.2.3-87-gd0fec80-3 [114 kB] Get:62 http://ftpmaster.internal/ubuntu zesty/main i386 libpixman-1-0 i386 0.34.0-1 [235 kB] Get:63 http://ftpmaster.internal/ubuntu zesty/main i386 libxcb-render0 i386 1.11.1-1ubuntu1 [12.2 kB] Get:64 http://ftpmaster.internal/ubuntu zesty/main i386 libxcb-shm0 i386 1.11.1-1ubuntu1 [5754 B] Get:65 http://ftpmaster.internal/ubuntu zesty/main i386 libxrender1 i386 1:0.9.10-1 [19.9 kB] Get:66 http://ftpmaster.internal/ubuntu zesty/main i386 libcairo2 i386 1.14.8-1 [612 kB] Get:67 http://ftpmaster.internal/ubuntu zesty/main i386 libltdl7 i386 2.4.6-2 [40.5 kB] Get:68 http://ftpmaster.internal/ubuntu zesty/main i386 libthai-data all 0.1.26-1 [131 kB] Get:69 http://ftpmaster.internal/ubuntu zesty/main i386 libdatrie1 i386 0.2.10-4 [18.9 kB] Get:70 http://ftpmaster.internal/ubuntu zesty/main i386 libthai0 i386 0.1.26-1 [18.6 kB] Get:71 http://ftpmaster.internal/ubuntu zesty/main i386 libpango-1.0-0 i386 1.40.3-3 [155 kB] Get:72 http://ftpmaster.internal/ubuntu zesty/main i386 libgraphite2-3 i386 1.3.9-2 [74.1 kB] Get:73 http://ftpmaster.internal/ubuntu zesty/main i386 libharfbuzz0b i386 1.2.7-1 [188 kB] Get:74 http://ftpmaster.internal/ubuntu zesty/main i386 libpangoft2-1.0-0 i386 1.40.3-3 [35.5 kB] Get:75 http://ftpmaster.internal/ubuntu zesty/main i386 libpangocairo-1.0-0 i386 1.40.3-3 [21.9 kB] Get:76 http://ftpmaster.internal/ubuntu zesty/main i386 libpathplan4 i386 2.38.0-15ubuntu2 [22.8 kB] Get:77 http://ftpmaster.internal/ubuntu zesty/main i386 libgvc6 i386 2.38.0-15ubuntu2 [610 kB] Get:78 http://ftpmaster.internal/ubuntu zesty/main i386 libgvpr2 i386 2.38.0-15ubuntu2 [179 kB] Get:79 http://ftpmaster.internal/ubuntu zesty/main i386 libxt6 i386 1:1.1.5-1 [164 kB] Get:80 http://ftpmaster.internal/ubuntu zesty/main i386 libxmu6 i386 2:1.1.2-2 [48.4 kB] Get:81 http://ftpmaster.internal/ubuntu zesty/main i386 libxaw7 i386 2:1.0.13-1 [182 kB] Get:82 http://ftpmaster.internal/ubuntu zesty/main i386 graphviz i386 2.38.0-15ubuntu2 [680 kB] Get:83 http://ftpmaster.internal/ubuntu zesty/universe i386 libargtable2-0 i386 13-1 [14.6 kB] Get:84 http://ftpmaster.internal/ubuntu zesty/universe i386 libargtable2-docs all 13-1 [2618 kB] Get:85 http://ftpmaster.internal/ubuntu zesty/universe i386 libargtable2-dev i386 13-1 [53.1 kB] Get:86 http://ftpmaster.internal/ubuntu zesty-proposed/main i386 libjs-jquery all 3.1.1-2 [151 kB] Get:87 http://ftpmaster.internal/ubuntu zesty/main i386 libjs-underscore all 1.8.3~dfsg-1 [59.9 kB] Get:88 http://ftpmaster.internal/ubuntu zesty/main i386 libjs-sphinxdoc all 1.4.9-2 [69.5 kB] Get:89 http://ftpmaster.internal/ubuntu zesty/main i386 sphinx-common all 1.4.9-2 [350 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 49.9 MB in 4s (10.5 MB/s) Selecting previously unselected package libxau6:i386. (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 ... 14127 files and directories currently installed.) Preparing to unpack .../00-libxau6_1%3a1.0.8-1_i386.deb ... Unpacking libxau6:i386 (1:1.0.8-1) ... Selecting previously unselected package libxdmcp6:i386. Preparing to unpack .../01-libxdmcp6_1%3a1.1.2-1.1_i386.deb ... Unpacking libxdmcp6:i386 (1:1.1.2-1.1) ... Selecting previously unselected package libxcb1:i386. Preparing to unpack .../02-libxcb1_1.11.1-1ubuntu1_i386.deb ... 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Setting up libllvm3.9:i386 (1:3.9.1-1ubuntu1) ... Setting up libjs-sphinxdoc (1.4.9-2) ... Setting up libdatrie1:i386 (0.2.10-4) ... Setting up gettext-base (0.19.8.1-1ubuntu2) ... Setting up libjpeg-turbo8:i386 (1.5.1-0ubuntu1) ... Setting up libpipeline1:i386 (1.4.1-2) ... Setting up m4 (1.4.17-5) ... Setting up libicu57:i386 (57.1-5) ... Setting up libbsd0:i386 (0.8.3-1) ... Setting up ucf (3.0036) ... Setting up libxml2:i386 (2.9.4+dfsg1-2.1) ... Setting up libfreetype6:i386 (2.6.3-3ubuntu1) ... Setting up libmagic-mgc (1:5.29-2) ... Setting up libmagic1:i386 (1:5.29-2) ... Setting up libgraphite2-3:i386 (1.3.9-2) ... Setting up libcroco3:i386 (0.6.11-2) ... Setting up libpixman-1-0:i386 (0.34.0-1) ... Processing triggers for libc-bin (2.24-7ubuntu2) ... Setting up autotools-dev (20161112.1) ... Setting up libunistring0:i386 (0.9.3-5.2ubuntu1) ... Setting up libclang1-3.9:i386 (1:3.9.1-1ubuntu1) ... Processing triggers for systemd (232-8) ... Setting up libltdl7:i386 (2.4.6-2) ... Setting up sphinx-common (1.4.9-2) ... Setting up libargtable2-dev (13-1) ... Setting up libthai-data (0.1.26-1) ... Setting up libxdmcp6:i386 (1:1.1.2-1.1) ... 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 x11-common (1:7.7+16ubuntu2) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libcdt5 (2.38.0-15ubuntu2) ... Setting up libx11-data (2:1.6.3-1ubuntu3) ... Setting up libxau6:i386 (1:1.0.8-1) ... Setting up autopoint (0.19.8.1-1ubuntu2) ... Setting up libcgraph6 (2.38.0-15ubuntu2) ... Setting up libwebp6:i386 (0.5.1-4) ... Setting up libfile-stripnondeterminism-perl (0.028-1) ... Setting up libjpeg8:i386 (8c-2ubuntu8) ... Setting up fontconfig-config (2.11.94-0ubuntu2) ... Setting up gettext (0.19.8.1-1ubuntu2) ... Setting up libgvpr2 (2.38.0-15ubuntu2) ... Setting up doxygen (1.8.12-1ubuntu1) ... Setting up libharfbuzz0b:i386 (1.2.7-1) ... Setting up libtiff5:i386 (4.0.7-3) ... Setting up autoconf (2.69-10) ... Setting up libthai0:i386 (0.1.26-1) ... Setting up file (1:5.29-2) ... 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 libice6:i386 (2:1.0.9-1) ... Setting up man-db (2.7.6.1-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libxcb1:i386 (1.11.1-1ubuntu1) ... Setting up libtool (2.4.6-2) ... Setting up libfontconfig1:i386 (2.11.94-0ubuntu2) ... Setting up libsm6:i386 (2:1.2.2-1) ... Setting up libxcb-render0:i386 (1.11.1-1ubuntu1) ... Setting up po-debconf (1.0.20) ... Setting up libx11-6:i386 (2:1.6.3-1ubuntu3) ... Setting up libxcb-shm0:i386 (1.11.1-1ubuntu1) ... Setting up libxpm4:i386 (1:3.5.11-1) ... Setting up libxt6:i386 (1:1.1.5-1) ... Setting up libxrender1:i386 (1:0.9.10-1) ... Setting up fontconfig (2.11.94-0ubuntu2) ... Regenerating fonts cache... done. Setting up libxext6:i386 (2:1.3.3-1) ... Setting up libgd3:i386 (2.2.3-87-gd0fec80-3) ... Setting up libxmu6:i386 (2:1.1.2-2) ... Setting up libpango-1.0-0:i386 (1.40.3-3) ... Setting up libxaw7:i386 (2:1.0.13-1) ... Setting up libcairo2:i386 (1.14.8-1) ... Setting up libpangoft2-1.0-0:i386 (1.40.3-3) ... Setting up libpangocairo-1.0-0:i386 (1.40.3-3) ... Setting up libgvc6 (2.38.0-15ubuntu2) ... Setting up graphviz (2.38.0-15ubuntu2) ... Setting up dh-autoreconf (12) ... Setting up debhelper (10.2.2ubuntu1) ... Setting up dh-linktree (0.4) ... Setting up dh-strip-nondeterminism (0.028-1) ... Setting up sbuild-build-depends-clustalo-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.24-7ubuntu2) ... Processing triggers for systemd (232-8) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-57-generic amd64 (i686) Toolchain package versions: binutils_2.27.51.20161220-1ubuntu1 dpkg-dev_1.18.10ubuntu1 g++-6_6.2.1-7ubuntu1 gcc-6_6.2.1-7ubuntu1 libc6-dev_2.24-7ubuntu2 libstdc++-6-dev_6.2.1-7ubuntu1 libstdc++6_6.2.1-7ubuntu1 linux-libc-dev_4.9.0-11.12 Package versions: adduser_3.113+nmu3ubuntu5 advancecomp_1.23-1 apt_1.4~beta2 apt-transport-https_1.4~beta2 autoconf_2.69-10 automake_1:1.15-5ubuntu1 autopoint_0.19.8.1-1ubuntu2 autotools-dev_20161112.1 base-files_9.6ubuntu9 base-passwd_3.5.42 bash_4.4-2ubuntu1 binutils_2.27.51.20161220-1ubuntu1 bsdmainutils_9.0.12ubuntu1 bsdutils_1:2.29-1ubuntu2 build-essential_12.1ubuntu2 bzip2_1.0.6-8build1 ca-certificates_20161130 coreutils_8.25-2ubuntu2 cpp_4:6.2.1-1ubuntu1 cpp-6_6.2.1-7ubuntu1 dash_0.5.8-2.3ubuntu1 debconf_1.5.59ubuntu1 debhelper_10.2.2ubuntu1 debianutils_4.8.1 dh-autoreconf_12 dh-linktree_0.4 dh-strip-nondeterminism_0.028-1 diffutils_1:3.5-1 dmsetup_2:1.02.136-1ubuntu1 doxygen_1.8.12-1ubuntu1 dpkg_1.18.10ubuntu1 dpkg-dev_1.18.10ubuntu1 e2fslibs_1.43.3-1 e2fsprogs_1.43.3-1 fakeroot_1.21-1ubuntu2 file_1:5.29-2 findutils_4.6.0+git+20161106-1 fontconfig_2.11.94-0ubuntu2 fontconfig-config_2.11.94-0ubuntu2 fonts-dejavu-core_2.37-1 g++_4:6.2.1-1ubuntu1 g++-6_6.2.1-7ubuntu1 gcc_4:6.2.1-1ubuntu1 gcc-6_6.2.1-7ubuntu1 gcc-6-base_6.2.1-7ubuntu1 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 graphviz_2.38.0-15ubuntu2 grep_2.27-1 groff-base_1.22.3-9 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_1.4~beta2 libarchive-zip-perl_1.59-1 libargtable2-0_13-1 libargtable2-dev_13-1 libargtable2-docs_13-1 libasan3_6.2.1-7ubuntu1 libasn1-8-heimdal_1.7~git20160703+dfsg-1ubuntu1 libassuan0_2.4.3-2 libatomic1_6.2.1-7ubuntu1 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_2.24-7ubuntu2 libc-dev-bin_2.24-7ubuntu2 libc6_2.24-7ubuntu2 libc6-dev_2.24-7ubuntu2 libcairo2_1.14.8-1 libcap-ng0_0.7.7-3 libcap2_1:2.25-1 libcc1-0_6.2.1-7ubuntu1 libcdt5_2.38.0-15ubuntu2 libcgraph6_2.38.0-15ubuntu2 libcilkrts5_6.2.1-7ubuntu1 libclang1-3.9_1:3.9.1-1ubuntu1 libcomerr2_1.43.3-1 libcroco3_0.6.11-2 libcryptsetup4_2:1.7.2-0ubuntu1 libcurl3-gnutls_7.51.0-1ubuntu1 libdatrie1_0.2.10-4 libdb5.3_5.3.28-12 libdebconfclient0_0.213ubuntu1 libdevmapper1.02.1_2:1.02.136-1ubuntu1 libdpkg-perl_1.18.10ubuntu1 libedit2_3.1-20160903-2 libexpat1_2.2.0-1 libfakeroot_1.21-1ubuntu2 libfdisk1_2.29-1ubuntu2 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.028-1 libfontconfig1_2.11.94-0ubuntu2 libfreetype6_2.6.3-3ubuntu1 libgcc-6-dev_6.2.1-7ubuntu1 libgcc1_1:6.2.1-7ubuntu1 libgcrypt20_1.7.5-2 libgd3_2.2.3-87-gd0fec80-3 libgdbm3_1.8.3-14 libglib2.0-0_2.51.0-2 libgmp10_2:6.1.2+dfsg-1 libgnutls30_3.5.6-4ubuntu2 libgomp1_6.2.1-7ubuntu1 libgpg-error0_1.25-2 libgraphite2-3_1.3.9-2 libgssapi-krb5-2_1.15-1 libgssapi3-heimdal_1.7~git20160703+dfsg-1ubuntu1 libgvc6_2.38.0-15ubuntu2 libgvpr2_2.38.0-15ubuntu2 libharfbuzz0b_1.2.7-1 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 libhx509-5-heimdal_1.7~git20160703+dfsg-1ubuntu1 libice6_2:1.0.9-1 libicu57_57.1-5 libidn11_1.33-1 libip4tc0_1.6.0-3ubuntu2 libisl15_0.17.1-1 libitm1_6.2.1-7ubuntu1 libjbig0_2.1-3.1 libjpeg-turbo8_1.5.1-0ubuntu1 libjpeg8_8c-2ubuntu8 libjs-jquery_3.1.1-2 libjs-sphinxdoc_1.4.9-2 libjs-underscore_1.8.3~dfsg-1 libk5crypto3_1.15-1 libkeyutils1_1.5.9-9ubuntu1 libkmod2_22-1.1ubuntu1 libkrb5-26-heimdal_1.7~git20160703+dfsg-1ubuntu1 libkrb5-3_1.15-1 libkrb5support0_1.15-1 libksba8_1.3.5-2 libldap-2.4-2_2.4.42+dfsg-2ubuntu5 libllvm3.9_1:3.9.1-1ubuntu1 liblockfile-bin_1.09-6ubuntu1 liblockfile1_1.09-6ubuntu1 libltdl7_2.4.6-2 liblz4-1_0.0~r131-2ubuntu2 liblzma5_5.2.2-1.2 libmagic-mgc_1:5.29-2 libmagic1_1:5.29-2 libmount1_2.29-1ubuntu2 libmpc3_1.0.3-1 libmpfr4_3.1.5-1 libmpx2_6.2.1-7ubuntu1 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 libpango-1.0-0_1.40.3-3 libpangocairo-1.0-0_1.40.3-3 libpangoft2-1.0-0_1.40.3-3 libpathplan4_2.38.0-15ubuntu2 libpcre3_2:8.39-2 libperl5.22_5.22.2-3 libperl5.24_5.24.1~rc4-1 libpipeline1_1.4.1-2 libpixman-1-0_0.34.0-1 libpng16-16_1.6.26-6 libprocps6_2:3.3.12-1ubuntu2 libquadmath0_6.2.1-7ubuntu1 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_2.3.1-2.1ubuntu1 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 libsm6_2:1.2.2-1 libsmartcols1_2.29-1ubuntu2 libsqlite3-0_3.15.2-2 libss2_1.43.3-1 libssl1.0.0_1.0.2g-1ubuntu10 libstdc++-6-dev_6.2.1-7ubuntu1 libstdc++6_6.2.1-7ubuntu1 libsystemd0_232-8 libtasn1-6_4.9-4 libthai-data_0.1.26-1 libthai0_0.1.26-1 libtiff5_4.0.7-3 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160625-1ubuntu1 libtool_2.4.6-2 libubsan0_6.2.1-7ubuntu1 libudev1_232-8 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 libwebp6_0.5.1-4 libwind0-heimdal_1.7~git20160703+dfsg-1ubuntu1 libx11-6_2:1.6.3-1ubuntu3 libx11-data_2:1.6.3-1ubuntu3 libxau6_1:1.0.8-1 libxaw7_2:1.0.13-1 libxcb-render0_1.11.1-1ubuntu1 libxcb-shm0_1.11.1-1ubuntu1 libxcb1_1.11.1-1ubuntu1 libxdmcp6_1:1.1.2-1.1 libxext6_2:1.3.3-1 libxml2_2.9.4+dfsg1-2.1 libxmu6_2:1.1.2-2 libxpm4_1:3.5.11-1 libxrender1_1:0.9.10-1 libxt6_1:1.1.5-1 linux-libc-dev_4.9.0-11.12 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_2.7.6.1-2 mawk_1.3.3-17ubuntu2 mount_2.29-1ubuntu2 multiarch-support_2.24-7ubuntu2 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-clustalo-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.2-8 sensible-utils_0.0.9 sphinx-common_1.4.9-2 systemd_232-8 systemd-sysv_232-8 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.8git1 tar_1.29b-1.1 tzdata_2016j-2 ubuntu-keyring_2016.10.27 ucf_3.0036 util-linux_2.29-1ubuntu2 x11-common_1:7.7+16ubuntu2 xz-utils_5.2.2-1.2 zlib1g_1:1.2.8.dfsg-4ubuntu1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Wed Dec 21 20:08:05 2016 UTC gpgv: using RSA key gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./clustalo_1.2.4-1.dsc dpkg-source: info: extracting clustalo in clustalo-1.2.4 dpkg-source: info: unpacking clustalo_1.2.4.orig.tar.gz dpkg-source: info: unpacking clustalo_1.2.4-1.debian.tar.xz 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 clustalo dpkg-buildpackage: info: source version 1.2.4-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build clustalo-1.2.4 dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean --with autoreconf --with linktree dh_testdir dh_auto_clean dh_autoreconf_clean debian/rules override_dh_clean make[1]: Entering directory '/<>' dh_clean rm -f _configs.sed rm -rf doc make[1]: Leaving directory '/<>' debian/rules build-arch dh build-arch --with autoreconf --with linktree dh_testdir -a dh_update_autotools_config -a dh_autoreconf -a configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:172: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:5356: _LT_LANG_CXX_CONFIG is expanded from... m4/libtool.m4:785: _LT_LANG is expanded from... m4/libtool.m4:768: LT_LANG is expanded from... configure.ac:172: the top level configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:172: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:5356: _LT_LANG_CXX_CONFIG is expanded from... m4/libtool.m4:785: _LT_LANG is expanded from... m4/libtool.m4:768: LT_LANG is expanded from... configure.ac:172: the top level configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from... m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from... m4/libtool.m4:138: _LT_SETUP is expanded from... m4/libtool.m4:67: LT_INIT is expanded from... configure.ac:150: the top level configure.ac:172: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body ../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from... ../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from... ../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from... m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from... m4/libtool.m4:5356: _LT_LANG_CXX_CONFIG is expanded from... m4/libtool.m4:785: _LT_LANG is expanded from... m4/libtool.m4:768: LT_LANG is expanded from... configure.ac:172: the top level libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' configure.ac:133: installing './compile' configure.ac:115: installing './missing' src/Makefile.am: installing './depcomp' dh_auto_configure -a ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --libexecdir=\${prefix}/lib/i386-linux-gnu --disable-maintainer-mode --disable-dependency-tracking configure: WARNING: unrecognized options: --disable-maintainer-mode configure: Welcome to Clustal Omega - version 1.2.4 (AndreaGiacomo) +NMMMMMMMMMS= MMMMM? :MMMMM8 IMMMMS MMMMM, ~MMMMN ,MMMMM =MMMMM MMMMM ?MMMMM +MMMMM MMMMMS MMMMM MMMMM MMMMM: MMMMM MMMMM+ MMMMM MMMMM~ MMMMM MMMMM MMMMMZ MMMMM MMMMM ,MMMMZ MMMM8 MMMM+ MMMMS MMMM, MMMMO MMMM ,N SMMM MMM8 +8 ,M7 M+ M+ :M8 ,MMMMMMMMMMMMI MMMMMMMMMMMM8 ,MMMMMMMMMMMM8 MMMMMMMMMMMM8 ,MMMMMMMMMMMMN MMMMMMMMMMMM8 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for style of include used by make... GNU checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking minix/config.h usability... no checking minix/config.h presence... no checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu checking whether make sets $(MAKE)... (cached) yes checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop checking how to convert i686-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... no checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for gcc... (cached) gcc checking whether we are using the GNU C compiler... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to accept ISO C89... (cached) none needed checking whether gcc understands -c and -o together... (cached) yes checking dependency style of gcc... (cached) none checking how to run the C preprocessor... gcc -E checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... no checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking how to run the C++ preprocessor... g++ -E checking for ANSI C header files... (cached) yes checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking ctype.h usability... yes checking ctype.h presence... yes checking for ctype.h... yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking math.h usability... yes checking math.h presence... yes checking for math.h... yes checking for memory.h... (cached) yes checking stdarg.h usability... yes checking stdarg.h presence... yes checking for stdarg.h... yes checking stdio.h usability... yes checking stdio.h presence... yes checking for stdio.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking time.h usability... yes checking time.h presence... yes checking for time.h... yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for size_t... yes checking for inline... inline checking for log in -lm... yes checking for log2 in -lm... yes checking argtable2.h usability... yes checking argtable2.h presence... yes checking for argtable2.h... yes checking for arg_parse in -largtable2... yes checking for OpenMP flag of C compiler... -fopenmp checking whether byte ordering is bigendian... no checking for ntohs... yes checking for ntohl... yes checking for ntons... no checking for ntonl... no checking size of unsigned short... 2 checking size of unsigned int... 4 checking size of unsigned long... 4 checking size of unsigned long long... 8 checking for stroul... no checking for strtoull... yes checking for ftello... yes checking for fseeko... yes checking for ftello64... yes checking for fseeko64... yes checking for ftell64... no checking for fseek64... no checking for off_t... yes checking size of fpos_t... 12 checking if malloc debugging is wanted... no checking whether to build with debug information... no checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating clustalo.pc config.status: creating Doxyfile config.status: creating src/clustal/Makefile config.status: creating src/hhalign/Makefile config.status: creating src/kmpp/Makefile config.status: creating src/squid/Makefile config.status: creating src/config.h config.status: executing src/clustal-omega-config.h commands config.status: creating src/clustal-omega-config.h - prefix CLUSTAL_OMEGA for src/config.h defines config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -a make -j4 make[1]: Entering directory '/<>' Making all in src make[2]: Entering directory '/<>/src' make all-recursive make[3]: Entering directory '/<>/src' Making all in hhalign make[4]: Entering directory '/<>/src/hhalign' /bin/bash ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o hhalign.lo hhalign.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c hhalign.cpp -fPIC -DPIC -o .libs/hhalign.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c hhalign.cpp -fPIE -o hhalign.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CXX --mode=link g++ -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -o libhhalign.la hhalign.lo -largtable2 -lm libtool: link: ar cru .libs/libhhalign.a .libs/hhalign.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libhhalign.a libtool: link: ( cd ".libs" && rm -f "libhhalign.la" && ln -s "../libhhalign.la" "libhhalign.la" ) make[4]: Leaving directory '/<>/src/hhalign' Making all in squid make[4]: Entering directory '/<>/src/squid' /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o a2m.lo a2m.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o aligneval.lo aligneval.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o alignio.lo alignio.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o clustal.lo clustal.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c a2m.c -fPIC -DPIC -o .libs/a2m.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c aligneval.c -fPIC -DPIC -o .libs/aligneval.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c alignio.c -fPIC -DPIC -o .libs/alignio.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c clustal.c -fPIC -DPIC -o .libs/clustal.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c a2m.c -fPIE -o a2m.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time 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-D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c seq.c -fPIC -DPIC -o .libs/seq.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o symmatrix.lo symmatrix.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c symmatrix.c -fPIC -DPIC -o .libs/symmatrix.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o tree.lo tree.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c tree.c -fPIC -DPIC -o .libs/tree.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o util.lo util.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c symmatrix.c -fPIE -o symmatrix.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c tree.c -fPIE -o tree.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c util.c -fPIC -DPIC -o .libs/util.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o weights.lo weights.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c seq.c -fPIE -o seq.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c util.c -fPIE -o util.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c weights.c -fPIC -DPIC -o .libs/weights.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c weights.c -fPIE -o weights.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=link gcc -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -o libclustal.la hhalign_wrapper.lo ktuple_pair.lo list.lo log.lo muscle_upgma.lo muscle_tree.lo mbed.lo pair_dist.lo progress.lo seq.lo symmatrix.lo tree.lo util.lo weights.lo -largtable2 -lm libtool: link: ar cru .libs/libclustal.a .libs/hhalign_wrapper.o .libs/ktuple_pair.o .libs/list.o .libs/log.o .libs/muscle_upgma.o .libs/muscle_tree.o .libs/mbed.o .libs/pair_dist.o .libs/progress.o .libs/seq.o .libs/symmatrix.o .libs/tree.o .libs/util.o .libs/weights.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libclustal.a libtool: link: ( cd ".libs" && rm -f "libclustal.la" && ln -s "../libclustal.la" "libclustal.la" ) make[4]: Leaving directory '/<>/src/clustal' make[4]: Entering directory '/<>/src' /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o clustal-omega.lo clustal-omega.c g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o main.o main.cpp gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -c -o mymain.o mymain.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c clustal-omega.c -fPIC -DPIC -o .libs/clustal-omega.o clustal-omega.c: In function ‘PrintLongVersion’: clustal-omega.c:152:49: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] PACKAGE_VERSION, PACKAGE_CODENAME, __DATE__); ^~~~~~~~ libtool: compile: gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -c clustal-omega.c -fPIE -o clustal-omega.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=link gcc -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -static -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -o libclustalo.la -rpath /usr/lib/i386-linux-gnu clustal-omega.lo clustal/libclustal.la hhalign/libhhalign.la squid/libsquid.la kmpp/libkmpp.la -largtable2 -lm libtool: link: (cd .libs/libclustalo.lax/libclustal.a && ar x "/<>/src/clustal/.libs/libclustal.a") libtool: link: (cd .libs/libclustalo.lax/libhhalign.a && ar x "/<>/src/hhalign/.libs/libhhalign.a") libtool: link: (cd .libs/libclustalo.lax/libsquid.a && ar x "/<>/src/squid/.libs/libsquid.a") libtool: link: (cd .libs/libclustalo.lax/libkmpp.a && ar x "/<>/src/kmpp/.libs/libkmpp.a") libtool: link: ar cru .libs/libclustalo.a clustal-omega.o .libs/libclustalo.lax/libclustal.a/hhalign_wrapper.o .libs/libclustalo.lax/libclustal.a/ktuple_pair.o .libs/libclustalo.lax/libclustal.a/list.o .libs/libclustalo.lax/libclustal.a/log.o .libs/libclustalo.lax/libclustal.a/mbed.o .libs/libclustalo.lax/libclustal.a/muscle_tree.o .libs/libclustalo.lax/libclustal.a/muscle_upgma.o .libs/libclustalo.lax/libclustal.a/pair_dist.o .libs/libclustalo.lax/libclustal.a/progress.o .libs/libclustalo.lax/libclustal.a/seq.o .libs/libclustalo.lax/libclustal.a/symmatrix.o .libs/libclustalo.lax/libclustal.a/tree.o .libs/libclustalo.lax/libclustal.a/util.o .libs/libclustalo.lax/libclustal.a/weights.o .libs/libclustalo.lax/libhhalign.a/hhalign.o .libs/libclustalo.lax/libsquid.a/a2m.o .libs/libclustalo.lax/libsquid.a/aligneval.o .libs/libclustalo.lax/libsquid.a/alignio.o .libs/libclustalo.lax/libsquid.a/clustal.o .libs/libclustalo.lax/libsquid.a/cluster.o .libs/libclustalo.lax/libsquid.a/dayhoff.o .libs/libclustalo.lax/libsquid.a/eps.o .libs/libclustalo.lax/libsquid.a/file.o .libs/libclustalo.lax/libsquid.a/getopt.o .libs/libclustalo.lax/libsquid.a/gki.o .libs/libclustalo.lax/libsquid.a/gsi.o .libs/libclustalo.lax/libsquid.a/gsi64.o .libs/libclustalo.lax/libsquid.a/hsregex.o .libs/libclustalo.lax/libsquid.a/iupac.o .libs/libclustalo.lax/libsquid.a/msa.o .libs/libclustalo.lax/libsquid.a/msf.o .libs/libclustalo.lax/libsquid.a/phylip.o .libs/libclustalo.lax/libsquid.a/revcomp.o .libs/libclustalo.lax/libsquid.a/rk.o .libs/libclustalo.lax/libsquid.a/selex.o .libs/libclustalo.lax/libsquid.a/seqencode.o .libs/libclustalo.lax/libsquid.a/shuffle.o .libs/libclustalo.lax/libsquid.a/sqerror.o .libs/libclustalo.lax/libsquid.a/sqio.o .libs/libclustalo.lax/libsquid.a/squidcore.o .libs/libclustalo.lax/libsquid.a/sre_ctype.o .libs/libclustalo.lax/libsquid.a/sre_math.o .libs/libclustalo.lax/libsquid.a/sre_random.o .libs/libclustalo.lax/libsquid.a/sre_string.o .libs/libclustalo.lax/libsquid.a/ssi.o .libs/libclustalo.lax/libsquid.a/stack.o .libs/libclustalo.lax/libsquid.a/stockholm.o .libs/libclustalo.lax/libsquid.a/stopwatch.o .libs/libclustalo.lax/libsquid.a/translate.o .libs/libclustalo.lax/libsquid.a/types.o .libs/libclustalo.lax/libsquid.a/vectorops.o .libs/libclustalo.lax/libsquid.a/weight.o .libs/libclustalo.lax/libkmpp.a/KMeans.o .libs/libclustalo.lax/libkmpp.a/KmTree.o .libs/libclustalo.lax/libkmpp.a/KmUtils.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libclustalo.a libtool: link: rm -fr .libs/libclustalo.lax libtool: link: ( cd ".libs" && rm -f "libclustalo.la" && ln -s "../libclustalo.la" "libclustalo.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z,relro -Wl,-z,now -o clustalo main.o mymain.o libclustalo.la -largtable2 -lm libtool: link: g++ -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<>=. -fPIE -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -fPIE -pie -Wl,-z -Wl,relro -Wl,-z -Wl,now -o clustalo main.o mymain.o ./.libs/libclustalo.a /usr/lib/i386-linux-gnu/libargtable2.so -lm -fopenmp ./.libs/libclustalo.a(clustal-omega.o): In function `AlnToHHMFile': ./src/clustal-omega.c:393: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' make[4]: Leaving directory '/<>/src' make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test -a make -j4 check VERBOSE=1 make[1]: Entering directory '/<>' Making check in src make[2]: Entering directory '/<>/src' Making check in hhalign make[3]: Entering directory '/<>/src/hhalign' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/src/hhalign' Making check in squid make[3]: Entering directory '/<>/src/squid' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/src/squid' Making check in kmpp make[3]: Entering directory '/<>/src/kmpp' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/src/kmpp' Making check in clustal make[3]: Entering directory '/<>/src/clustal' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/src/clustal' make[3]: Entering directory '/<>/src' make[3]: Leaving directory '/<>/src' make[2]: Leaving directory '/<>/src' make[2]: Entering directory '/<>' make[2]: Nothing to be done for 'check-am'. make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' fakeroot debian/rules binary-arch dh binary-arch --with autoreconf --with linktree dh_testroot -a dh_prep -a dh_installdirs -a debian/rules override_dh_auto_install-arch make[1]: Entering directory '/<>' dh_auto_install -a make -j4 install DESTDIR=/<>/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/<>' Making install in src make[3]: Entering directory '/<>/src' Making install in hhalign make[4]: Entering directory '/<>/src/hhalign' make[5]: Entering directory '/<>/src/hhalign' make[5]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/include/clustalo/hhalign' /usr/bin/install -c -m 644 general.h hhfunc.h '/<>/debian/tmp/usr/include/clustalo/hhalign' make[5]: Leaving directory '/<>/src/hhalign' make[4]: Leaving directory '/<>/src/hhalign' Making install in squid make[4]: Entering directory '/<>/src/squid' make[5]: Entering directory '/<>/src/squid' make[5]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/include/clustalo/squid' /usr/bin/install -c -m 644 gki.h gsi64.h msa.h rk.h squid.h stopwatch.h sqfuncs.h sre_random.h ssi.h stockholm.h vectorops.h version.h '/<>/debian/tmp/usr/include/clustalo/squid' make[5]: Leaving directory '/<>/src/squid' make[4]: Leaving directory '/<>/src/squid' Making install in kmpp make[4]: Entering directory '/<>/src/kmpp' make[5]: Entering directory '/<>/src/kmpp' make[5]: Nothing to be done for 'install-exec-am'. make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/<>/src/kmpp' make[4]: Leaving directory '/<>/src/kmpp' Making install in clustal make[4]: Entering directory '/<>/src/clustal' make[5]: Entering directory '/<>/src/clustal' make[5]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/include/clustalo/clustal' /usr/bin/install -c -m 644 hhalign_wrapper.h ktuple_pair.h log.h mbed.h muscle_tree.h pair_dist.h progress.h seq.h symmatrix.h tree.h util.h weights.h '/<>/debian/tmp/usr/include/clustalo/clustal' make[5]: Leaving directory '/<>/src/clustal' make[4]: Leaving directory '/<>/src/clustal' make[4]: Entering directory '/<>/src' make[5]: Entering directory '/<>/src' /bin/mkdir -p '/<>/debian/tmp/usr/lib/i386-linux-gnu' /bin/bash ../libtool --mode=install /usr/bin/install -c libclustalo.la '/<>/debian/tmp/usr/lib/i386-linux-gnu' /bin/mkdir -p '/<>/debian/tmp/usr/include/clustalo/' /usr/bin/install -c -m 644 clustal-omega-config.h clustal-omega.h '/<>/debian/tmp/usr/include/clustalo/' libtool: install: /usr/bin/install -c .libs/libclustalo.lai /<>/debian/tmp/usr/lib/i386-linux-gnu/libclustalo.la libtool: install: /usr/bin/install -c .libs/libclustalo.a /<>/debian/tmp/usr/lib/i386-linux-gnu/libclustalo.a libtool: install: chmod 644 /<>/debian/tmp/usr/lib/i386-linux-gnu/libclustalo.a libtool: install: ranlib /<>/debian/tmp/usr/lib/i386-linux-gnu/libclustalo.a libtool: warning: remember to run 'libtool --finish /usr/lib/i386-linux-gnu' /bin/mkdir -p '/<>/debian/tmp/usr/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c clustalo '/<>/debian/tmp/usr/bin' libtool: install: /usr/bin/install -c clustalo /<>/debian/tmp/usr/bin/clustalo make[5]: Leaving directory '/<>/src' make[4]: Leaving directory '/<>/src' make[3]: Leaving directory '/<>/src' make[3]: Entering directory '/<>' make[4]: Entering directory '/<>' make[4]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/debian/tmp/usr/share/doc/clustal-omega' /bin/mkdir -p '/<>/debian/tmp/usr/lib/i386-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 README '/<>/debian/tmp/usr/share/doc/clustal-omega' /usr/bin/install -c -m 644 clustalo.pc '/<>/debian/tmp/usr/lib/i386-linux-gnu/pkgconfig' make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' rm -rf debian/tmp/usr/lib/pkgconfig rm -f debian/tmp/usr/lib/*/libclustalo.la mv debian/tmp/usr/include debian/libclustalo-dev/usr mv debian/tmp/usr/lib debian/libclustalo-dev/usr mv debian/tmp/usr/bin debian/clustalo/usr make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_perl -a dh_link -a dh_linktree -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_strip -a dh_strip debug symbol extraction: enabling -a due to Build-Debug-Symbols: yes in /CurrentlyBuilding dh_strip debug symbol extraction: all non-arch-all packages for this build platform i386: clustalo libclustalo-dev dh_strip debug symbol extraction: packages to act on: clustalo libclustalo-dev dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: deferring build of .ddeb to dh_gencontrol Using buildid for compat level >= 9 libclustalo-dev has no unstripped objects, ignoring find: ‘/<>/debian/libclustalo-dev-dbgsym’: No such file or directory /usr/bin/pkg_create_dbgsym: nothing in /<>/debian/libclustalo-dev-dbgsym and no dbgdepends, ignoring dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: Depends field of package libclustalo-dev: unknown substitution variable ${shlibs:Depends} dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: all non-arch-all packages for this build platform i386: clustalo libclustalo-dev dh_gencontrol debug symbol wrapper: packages to act on: clustalo libclustalo-dev dh_gencontrol debug symbol wrapper: ignored packages: dh_gencontrol debug symbol wrapper: processing package clustalo (pkgdir debian/clustalo, ddeb package dir debian/clustalo-dbgsym) dh_gencontrol debug symbol wrapper: building clustalo-dbgsym_1.2.4-1_i386.ddeb dpkg-deb: building package 'clustalo-dbgsym' in '../clustalo-dbgsym_1.2.4-1_i386.ddeb'. dh_gencontrol debug symbol wrapper: dpkg-distaddfile clustalo-dbgsym_1.2.4-1_i386.ddeb science extra dpkg-distaddfile: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_gencontrol debug symbol wrapper: no debian/libclustalo-dev-dbgsym, skipping package libclustalo-dev dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 131 INFO: pkgstriptranslations version 131 pkgstriptranslations: processing libclustalo-dev (in debian/libclustalo-dev); do_strip: , oemstrip: pkgstriptranslations: processing clustalo (in debian/clustalo); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libclustalo-dev/DEBIAN/control, package libclustalo-dev, directory debian/libclustalo-dev INFO: pkgstripfiles: waiting for lock (libclustalo-dev) ... pkgstripfiles: processing control file: debian/clustalo/DEBIAN/control, package clustalo, directory debian/clustalo pkgstripfiles: Running PNG optimization (using 4 cpus) for package clustalo ... pkgstripfiles: No PNG files. dpkg-deb: building package 'clustalo' in '../clustalo_1.2.4-1_i386.deb'. Searching for duplicated docs in dependency clustalo... symlinking changelog.Debian.gz in libclustalo-dev to file in clustalo pkgstripfiles: Running PNG optimization (using 4 cpus) for package libclustalo-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libclustalo-dev' in '../libclustalo-dev_1.2.4-1_i386.deb'. dpkg-genchanges --build=any -mLaunchpad Build Daemon >../clustalo_1.2.4-1_i386.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build clustalo-1.2.4 dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20161222-0520 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ clustalo_1.2.4-1_i386.changes: ------------------------------ Format: 1.8 Date: Wed, 21 Dec 2016 21:06:08 +0100 Source: clustalo Binary: clustalo libclustalo-dev libclustalo-doc Architecture: i386 Version: 1.2.4-1 Distribution: zesty-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: clustalo - General purpose multiple sequence alignment program for proteins libclustalo-dev - library to embed Clustal Omega libclustalo-doc - API documentation for library to embed Clustal Omega Changes: clustalo (1.2.4-1) unstable; urgency=medium . * New upstream version * d/watch: version=4 * debhelper 10 Checksums-Sha1: 97297489671d26c075ed431b5f8725d409e58d32 435908 clustalo-dbgsym_1.2.4-1_i386.ddeb c2f3103ca492cea9335b1ec4bf7ea584b0e590d6 268268 clustalo_1.2.4-1_i386.deb 8a63a3b723bce102eb7c9a8002cdb8dcc23af0ed 326018 libclustalo-dev_1.2.4-1_i386.deb Checksums-Sha256: d5a4acc1412bb75a4242943062704617a3b4c5b9b2a93e87c1569a6aaf4209c1 435908 clustalo-dbgsym_1.2.4-1_i386.ddeb c655576e318d1d08e3fc2b362f5d9cc6423235c3a15e4ab406e4bbd3ec9a02ed 268268 clustalo_1.2.4-1_i386.deb 438e3d930d69c2d7dca4762dbabd997936a44afe627adffa1b403d9d9a3ca2b0 326018 libclustalo-dev_1.2.4-1_i386.deb Files: db8db20ab777c55121e6623950e1a90e 435908 science extra clustalo-dbgsym_1.2.4-1_i386.ddeb 772af23d4cb3ea0957159936603b6cb7 268268 science optional clustalo_1.2.4-1_i386.deb 8e02c79046a71c2af05cc14d1f00a1d0 326018 libdevel optional libclustalo-dev_1.2.4-1_i386.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ clustalo_1.2.4-1_i386.deb ------------------------- new debian package, version 2.0. size 268268 bytes: control archive=815 bytes. 727 bytes, 15 lines control 406 bytes, 6 lines md5sums Package: clustalo Version: 1.2.4-1 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 688 Depends: libargtable2-0 (>= 7), libc6 (>= 2.4), libgcc1 (>= 1:3.0), libgomp1 (>= 4.9), libstdc++6 (>= 5.2) Section: science Priority: optional Homepage: http://www.clustal.org/omega/ Description: General purpose multiple sequence alignment program for proteins Clustal-Omega is a general purpose multiple sequence alignment (MSA) program for dna/rna/proteins. It produces high quality MSAs and is capable of handling data-sets of hundreds of thousands of sequences in reasonable time. drwxr-xr-x root/root 0 2016-12-21 20:06 ./ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/bin/ -rwxr-xr-x root/root 674528 2016-12-21 20:06 ./usr/bin/clustalo drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/share/ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/share/doc/ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/share/doc/clustalo/ -rw-r--r-- root/root 10994 2013-08-27 12:07 ./usr/share/doc/clustalo/README.gz -rw-r--r-- root/root 830 2016-12-21 20:06 ./usr/share/doc/clustalo/changelog.Debian.gz -rw-r--r-- root/root 1174 2016-12-21 20:06 ./usr/share/doc/clustalo/copyright drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/share/doc/clustalo/examples/ -rw-r--r-- root/root 2269 2016-12-21 20:06 ./usr/share/doc/clustalo/examples/example.fa drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/share/man/ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/share/man/man1/ -rw-r--r-- root/root 1083 2016-12-21 20:06 ./usr/share/man/man1/clustalo.1.gz libclustalo-dev_1.2.4-1_i386.deb -------------------------------- new debian package, version 2.0. size 326018 bytes: control archive=1461 bytes. 583 bytes, 16 lines control 2238 bytes, 31 lines md5sums Package: libclustalo-dev Source: clustalo Version: 1.2.4-1 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1129 Depends: libargtable2-dev, clustalo (= 1.2.4-1) Suggests: libclustalo-doc Section: libdevel Priority: optional Homepage: http://www.clustal.org/omega/ Description: library to embed Clustal Omega This package contains headers and libraries to include Clustal Omega in a program. It provides clustal usage with an API. drwxr-xr-x root/root 0 2016-12-21 20:06 ./ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/include/ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/include/clustalo/ -rw-r--r-- root/root 9523 2016-12-21 20:06 ./usr/include/clustalo/clustal-omega-config.h -rw-r--r-- root/root 4740 2016-12-21 20:06 ./usr/include/clustalo/clustal-omega.h drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/include/clustalo/clustal/ -rw-r--r-- root/root 1159 2016-12-21 20:06 ./usr/include/clustalo/clustal/hhalign_wrapper.h -rw-r--r-- root/root 1251 2016-12-21 20:06 ./usr/include/clustalo/clustal/ktuple_pair.h -rw-r--r-- root/root 1787 2016-12-21 20:06 ./usr/include/clustalo/clustal/log.h -rw-r--r-- root/root 866 2016-12-21 20:06 ./usr/include/clustalo/clustal/mbed.h -rw-r--r-- root/root 4112 2016-12-21 20:06 ./usr/include/clustalo/clustal/muscle_tree.h -rw-r--r-- root/root 1303 2016-12-21 20:06 ./usr/include/clustalo/clustal/pair_dist.h -rw-r--r-- root/root 1257 2016-12-21 20:06 ./usr/include/clustalo/clustal/progress.h -rw-r--r-- root/root 4032 2016-12-21 20:06 ./usr/include/clustalo/clustal/seq.h -rw-r--r-- root/root 2310 2016-12-21 20:06 ./usr/include/clustalo/clustal/symmatrix.h -rw-r--r-- root/root 1066 2016-12-21 20:06 ./usr/include/clustalo/clustal/tree.h -rw-r--r-- root/root 2308 2016-12-21 20:06 ./usr/include/clustalo/clustal/util.h -rw-r--r-- root/root 741 2016-12-21 20:06 ./usr/include/clustalo/clustal/weights.h drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/include/clustalo/hhalign/ -rw-r--r-- root/root 2961 2016-12-21 20:06 ./usr/include/clustalo/hhalign/general.h -rw-r--r-- root/root 859 2016-12-21 20:06 ./usr/include/clustalo/hhalign/hhfunc.h drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/include/clustalo/squid/ -rw-r--r-- root/root 1381 2016-12-21 20:06 ./usr/include/clustalo/squid/gki.h -rw-r--r-- root/root 3473 2016-12-21 20:06 ./usr/include/clustalo/squid/gsi64.h -rw-r--r-- root/root 13442 2016-12-21 20:06 ./usr/include/clustalo/squid/msa.h -rw-r--r-- root/root 1264 2016-12-21 20:06 ./usr/include/clustalo/squid/rk.h -rw-r--r-- root/root 10390 2016-12-21 20:06 ./usr/include/clustalo/squid/sqfuncs.h -rw-r--r-- root/root 19594 2016-12-21 20:06 ./usr/include/clustalo/squid/squid.h -rw-r--r-- root/root 489 2016-12-21 20:06 ./usr/include/clustalo/squid/sre_random.h -rw-r--r-- root/root 7610 2016-12-21 20:06 ./usr/include/clustalo/squid/ssi.h -rw-r--r-- root/root 1868 2016-12-21 20:06 ./usr/include/clustalo/squid/stockholm.h -rw-r--r-- root/root 1937 2016-12-21 20:06 ./usr/include/clustalo/squid/stopwatch.h -rw-r--r-- root/root 1434 2016-12-21 20:06 ./usr/include/clustalo/squid/vectorops.h -rw-r--r-- root/root 333 2016-12-21 20:06 ./usr/include/clustalo/squid/version.h drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/lib/ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/lib/i386-linux-gnu/ -rw-r--r-- root/root 1017010 2016-12-21 20:06 ./usr/lib/i386-linux-gnu/libclustalo.a drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/lib/i386-linux-gnu/pkgconfig/ -rw-r--r-- root/root 245 2016-12-21 20:06 ./usr/lib/i386-linux-gnu/pkgconfig/clustalo.pc drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/share/ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/share/doc/ drwxr-xr-x root/root 0 2016-12-21 20:06 ./usr/share/doc/libclustalo-dev/ lrwxrwxrwx root/root 0 2016-12-21 20:06 ./usr/share/doc/libclustalo-dev/changelog.Debian.gz -> ../clustalo/changelog.Debian.gz -rw-r--r-- root/root 1174 2016-12-21 20:06 ./usr/share/doc/libclustalo-dev/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Not removing build depends: as requested Keeping session: +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: i386 Build-Space: 25772 Build-Time: 90 Distribution: zesty-proposed Host Architecture: i386 Install-Time: 35 Job: clustalo_1.2.4-1.dsc Machine Architecture: amd64 Package: clustalo Package-Time: 126 Source-Version: 1.2.4-1 Space: 25772 Status: successful Version: 1.2.4-1 -------------------------------------------------------------------------------- Finished at 20161222-0520 Build needed 00:02:06, 25772k disc space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-11768049'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-11768049/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-11768049'] Unmounting chroot for build PACKAGEBUILD-11768049... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-11768049'] Removing build PACKAGEBUILD-11768049