RUN: /usr/share/launchpad-buildd/slavebin/slave-prep ['slave-prep'] Forking launchpad-buildd slave process... Kernel version: Linux denneed02 3.13.0-8-generic #28-Ubuntu SMP Tue Feb 11 17:58:07 UTC 2014 ppc64le Buildd toolchain package versions: launchpad-buildd_121~0.IS.08.04.0 python-lpbuildd_121~0.IS.08.04.0 dpkg-dev_1.17.5ubuntu4. Syncing the system clock with the buildd NTP service... 18 Feb 16:42:55 ntpdate[2978]: adjust time server 10.211.37.1 offset 0.000318 sec RUN: /usr/share/launchpad-buildd/slavebin/unpack-chroot ['unpack-chroot', 'PACKAGEBUILD-5598679', '/home/buildd/filecache-default/1418c9e5f0eb143d9f77e4665c5b7c89c42011cc'] Unpacking chroot for build PACKAGEBUILD-5598679 RUN: /usr/share/launchpad-buildd/slavebin/mount-chroot ['mount-chroot', 'PACKAGEBUILD-5598679'] Mounting chroot for build PACKAGEBUILD-5598679 RUN: /usr/share/launchpad-buildd/slavebin/override-sources-list ['override-sources-list', 'PACKAGEBUILD-5598679', 'deb http://ftpmaster.internal/ubuntu trusty main universe'] Overriding sources.list in build-PACKAGEBUILD-5598679 RUN: /usr/share/launchpad-buildd/slavebin/update-debian-chroot ['update-debian-chroot', 'PACKAGEBUILD-5598679', 'ppc64el'] Updating debian chroot for build PACKAGEBUILD-5598679 Ign http://ftpmaster.internal trusty InRelease Ign http://archive-team.internal trusty InRelease Ign http://ftpmaster.internal trusty InRelease Ign http://archive-team.internal trusty Release.gpg Get:1 http://ftpmaster.internal trusty Release.gpg [933 B] Hit http://archive-team.internal trusty Release Get:2 http://ftpmaster.internal trusty Release.gpg [933 B] Ign http://archive-team.internal trusty/main ppc64el Packages/DiffIndex Get:3 http://ftpmaster.internal trusty Release [58.5 kB] Get:4 http://ftpmaster.internal trusty Release [58.5 kB] Get:5 http://ftpmaster.internal trusty/main ppc64el Packages [1220 kB] Ign http://archive-team.internal trusty/main Translation-en Hit http://archive-team.internal trusty/main ppc64el Packages Get:6 http://ftpmaster.internal trusty/universe ppc64el Packages [3718 kB] Get:7 http://ftpmaster.internal trusty/main Translation-en [760 kB] Get:8 http://ftpmaster.internal trusty/universe Translation-en [4059 kB] Get:9 http://ftpmaster.internal trusty/main ppc64el Packages [1226 kB] Get:10 http://ftpmaster.internal trusty/universe ppc64el Packages [5005 kB] Get:11 http://ftpmaster.internal trusty/main Translation-en [760 kB] Get:12 http://ftpmaster.internal trusty/universe Translation-en [4056 kB] Fetched 20.9 MB in 11s (1792 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: gcc-4.9-base libgcc1 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 43.4 kB of archives. After this operation, 1024 B of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ trusty/main gcc-4.9-base ppc64el 4.9-20140217-0ubuntu1 [14.3 kB] Get:2 http://ftpmaster.internal/ubuntu/ trusty/main libgcc1 ppc64el 1:4.9-20140217-0ubuntu1 [29.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 43.4 kB in 0s (89.1 kB/s) (Reading database ... 11450 files and directories currently installed.) Preparing to unpack .../gcc-4.9-base_4.9-20140217-0ubuntu1_ppc64el.deb ... Unpacking gcc-4.9-base:ppc64el (4.9-20140217-0ubuntu1) over (4.9-20140213-0ubuntu2) ... Setting up gcc-4.9-base:ppc64el (4.9-20140217-0ubuntu1) ... (Reading database ... 11450 files and directories currently installed.) Preparing to unpack .../libgcc1_1%3a4.9-20140217-0ubuntu1_ppc64el.deb ... Unpacking libgcc1:ppc64el (1:4.9-20140217-0ubuntu1) over (1:4.9-20140213-0ubuntu2) ... Setting up libgcc1:ppc64el (1:4.9-20140217-0ubuntu1) ... Processing triggers for libc-bin (2.18-0ubuntu7) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package ['sbuild-package', 'PACKAGEBUILD-5598679', 'ppc64el', 'trusty', '--nolog', '--batch', '--archive=ubuntu', '--dist=trusty', '--purpose=PRIMARY', '--architecture=ppc64el', '--comp=universe', 'gff2aplot_2.0-7.dsc'] Initiating build PACKAGEBUILD-5598679 with 8 jobs across 8 processor cores. Kernel reported to sbuild: 3.13.0-8-generic #28-Ubuntu SMP Tue Feb 11 17:58:07 UTC 2014 ppc64le Automatic build of gff2aplot_2.0-7 on denneed02 by sbuild/ppc64el 1.170.5 Build started at 20140218-1643 ****************************************************************************** gff2aplot_2.0-7.dsc exists in cwd ** Using build dependencies supplied by package: Build-Depends: debhelper (>= 9) Checking for already installed source dependencies... debhelper: missing Checking for source dependency conflicts... /usr/bin/sudo /usr/bin/apt-get --purge $CHROOT_OPTIONS -q -y install debhelper Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: apparmor-easyprof bsdmainutils dh-apparmor dh-python file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libexpat1 libglib2.0-0 libmagic1 libmpdec2 libpipeline1 libpython3-stdlib libpython3.4-minimal libpython3.4-stdlib libssl1.0.0 libunistring0 libxml2 man-db mime-support po-debconf python3 python3-minimal python3.4 python3.4-minimal Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser libmail-box-perl python3-doc python3-tk python3.4-doc binfmt-support Recommended packages: curl wget lynx-cur libasprintf-dev libgettextpo-dev libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: apparmor-easyprof bsdmainutils debhelper dh-apparmor dh-python file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libexpat1 libglib2.0-0 libmagic1 libmpdec2 libpipeline1 libpython3-stdlib libpython3.4-minimal libpython3.4-stdlib libssl1.0.0 libunistring0 libxml2 man-db mime-support po-debconf python3 python3-minimal python3.4 python3.4-minimal 0 upgraded, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 11.0 MB of archives. After this operation, 47.8 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu/ trusty/main libexpat1 ppc64el 2.1.0-4ubuntu1 [79.5 kB] Get:2 http://ftpmaster.internal/ubuntu/ trusty/main libmagic1 ppc64el 1:5.14-2ubuntu1 [194 kB] Get:3 http://ftpmaster.internal/ubuntu/ trusty/main libssl1.0.0 ppc64el 1.0.1f-1ubuntu1 [762 kB] Get:4 http://ftpmaster.internal/ubuntu/ trusty/main libasprintf0c2 ppc64el 0.18.3.1-1ubuntu2 [6748 B] Get:5 http://ftpmaster.internal/ubuntu/ trusty/main libglib2.0-0 ppc64el 2.39.4-0ubuntu1 [982 kB] Get:6 http://ftpmaster.internal/ubuntu/ trusty/main libpipeline1 ppc64el 1.2.6-2 [22.6 kB] Get:7 http://ftpmaster.internal/ubuntu/ trusty/main libxml2 ppc64el 2.9.1+dfsg1-3ubuntu3 [601 kB] Get:8 http://ftpmaster.internal/ubuntu/ trusty/main groff-base ppc64el 1.22.2-5 [1249 kB] Get:9 http://ftpmaster.internal/ubuntu/ trusty/main bsdmainutils ppc64el 9.0.5ubuntu1 [173 kB] Get:10 http://ftpmaster.internal/ubuntu/ trusty/main man-db ppc64el 2.6.6-1 [847 kB] Get:11 http://ftpmaster.internal/ubuntu/ trusty/main libcroco3 ppc64el 0.6.8-2ubuntu1 [75.4 kB] Get:12 http://ftpmaster.internal/ubuntu/ trusty/main libmpdec2 ppc64el 2.4.0-6 [83.9 kB] Get:13 http://ftpmaster.internal/ubuntu/ trusty/main libpython3.4-minimal ppc64el 3.4~rc1-1build1 [440 kB] Get:14 http://ftpmaster.internal/ubuntu/ trusty/main mime-support all 3.54ubuntu1 [31.7 kB] Get:15 http://ftpmaster.internal/ubuntu/ trusty/main libpython3.4-stdlib ppc64el 3.4~rc1-1build1 [1972 kB] Get:16 http://ftpmaster.internal/ubuntu/ trusty/main libunistring0 ppc64el 0.9.3-5ubuntu3 [262 kB] Get:17 http://ftpmaster.internal/ubuntu/ trusty/main python3.4-minimal ppc64el 3.4~rc1-1build1 [1147 kB] Get:18 http://ftpmaster.internal/ubuntu/ trusty/main python3.4 ppc64el 3.4~rc1-1build1 [159 kB] Get:19 http://ftpmaster.internal/ubuntu/ trusty/main python3-minimal ppc64el 3.4~rc1-1 [23.4 kB] Get:20 http://ftpmaster.internal/ubuntu/ trusty/main libpython3-stdlib ppc64el 3.4~rc1-1 [6976 B] Get:21 http://ftpmaster.internal/ubuntu/ trusty/main python3 ppc64el 3.4~rc1-1 [8654 B] Get:22 http://ftpmaster.internal/ubuntu/ trusty/main dh-python all 1.20140128-1ubuntu2 [51.0 kB] Get:23 http://ftpmaster.internal/ubuntu/ trusty/main file ppc64el 1:5.14-2ubuntu1 [19.2 kB] Get:24 http://ftpmaster.internal/ubuntu/ trusty/main gettext-base ppc64el 0.18.3.1-1ubuntu2 [47.2 kB] Get:25 http://ftpmaster.internal/ubuntu/ trusty/main gettext ppc64el 0.18.3.1-1ubuntu2 [840 kB] Get:26 http://ftpmaster.internal/ubuntu/ trusty/main intltool-debian all 0.35.0+20060710.1 [31.6 kB] Get:27 http://ftpmaster.internal/ubuntu/ trusty/main po-debconf all 1.0.16+nmu2ubuntu1 [210 kB] Get:28 http://ftpmaster.internal/ubuntu/ trusty/main apparmor-easyprof all 2.8.0-0ubuntu38 [20.1 kB] Get:29 http://ftpmaster.internal/ubuntu/ trusty/main dh-apparmor all 2.8.0-0ubuntu38 [7286 B] Get:30 http://ftpmaster.internal/ubuntu/ trusty/main debhelper all 9.20131127ubuntu2 [603 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 11.0 MB in 14s (752 kB/s) Selecting previously unselected package libexpat1:ppc64el. (Reading database ... 11450 files and directories currently installed.) Preparing to unpack .../libexpat1_2.1.0-4ubuntu1_ppc64el.deb ... Unpacking libexpat1:ppc64el (2.1.0-4ubuntu1) ... Selecting previously unselected package libmagic1:ppc64el. Preparing to unpack .../libmagic1_1%3a5.14-2ubuntu1_ppc64el.deb ... Unpacking libmagic1:ppc64el (1:5.14-2ubuntu1) ... Selecting previously unselected package libssl1.0.0:ppc64el. Preparing to unpack .../libssl1.0.0_1.0.1f-1ubuntu1_ppc64el.deb ... Unpacking libssl1.0.0:ppc64el (1.0.1f-1ubuntu1) ... Selecting previously unselected package libasprintf0c2:ppc64el. Preparing to unpack .../libasprintf0c2_0.18.3.1-1ubuntu2_ppc64el.deb ... Unpacking libasprintf0c2:ppc64el (0.18.3.1-1ubuntu2) ... Selecting previously unselected package libglib2.0-0:ppc64el. Preparing to unpack .../libglib2.0-0_2.39.4-0ubuntu1_ppc64el.deb ... Unpacking libglib2.0-0:ppc64el (2.39.4-0ubuntu1) ... Selecting previously unselected package libpipeline1:ppc64el. Preparing to unpack .../libpipeline1_1.2.6-2_ppc64el.deb ... Unpacking libpipeline1:ppc64el (1.2.6-2) ... Selecting previously unselected package libxml2:ppc64el. Preparing to unpack .../libxml2_2.9.1+dfsg1-3ubuntu3_ppc64el.deb ... Unpacking libxml2:ppc64el (2.9.1+dfsg1-3ubuntu3) ... Selecting previously unselected package groff-base. Preparing to unpack .../groff-base_1.22.2-5_ppc64el.deb ... Unpacking groff-base (1.22.2-5) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../bsdmainutils_9.0.5ubuntu1_ppc64el.deb ... Unpacking bsdmainutils (9.0.5ubuntu1) ... Selecting previously unselected package man-db. Preparing to unpack .../man-db_2.6.6-1_ppc64el.deb ... Unpacking man-db (2.6.6-1) ... Selecting previously unselected package libcroco3:ppc64el. Preparing to unpack .../libcroco3_0.6.8-2ubuntu1_ppc64el.deb ... Unpacking libcroco3:ppc64el (0.6.8-2ubuntu1) ... Selecting previously unselected package libmpdec2:ppc64el. Preparing to unpack .../libmpdec2_2.4.0-6_ppc64el.deb ... Unpacking libmpdec2:ppc64el (2.4.0-6) ... Selecting previously unselected package libpython3.4-minimal:ppc64el. Preparing to unpack .../libpython3.4-minimal_3.4~rc1-1build1_ppc64el.deb ... Unpacking libpython3.4-minimal:ppc64el (3.4~rc1-1build1) ... Selecting previously unselected package mime-support. Preparing to unpack .../mime-support_3.54ubuntu1_all.deb ... Unpacking mime-support (3.54ubuntu1) ... Selecting previously unselected package libpython3.4-stdlib:ppc64el. Preparing to unpack .../libpython3.4-stdlib_3.4~rc1-1build1_ppc64el.deb ... Unpacking libpython3.4-stdlib:ppc64el (3.4~rc1-1build1) ... Selecting previously unselected package libunistring0:ppc64el. Preparing to unpack .../libunistring0_0.9.3-5ubuntu3_ppc64el.deb ... Unpacking libunistring0:ppc64el (0.9.3-5ubuntu3) ... Selecting previously unselected package python3.4-minimal. Preparing to unpack .../python3.4-minimal_3.4~rc1-1build1_ppc64el.deb ... Unpacking python3.4-minimal (3.4~rc1-1build1) ... Selecting previously unselected package python3.4. Preparing to unpack .../python3.4_3.4~rc1-1build1_ppc64el.deb ... Unpacking python3.4 (3.4~rc1-1build1) ... Selecting previously unselected package python3-minimal. Preparing to unpack .../python3-minimal_3.4~rc1-1_ppc64el.deb ... Unpacking python3-minimal (3.4~rc1-1) ... Selecting previously unselected package libpython3-stdlib:ppc64el. Preparing to unpack .../libpython3-stdlib_3.4~rc1-1_ppc64el.deb ... Unpacking libpython3-stdlib:ppc64el (3.4~rc1-1) ... Selecting previously unselected package python3. Preparing to unpack .../python3_3.4~rc1-1_ppc64el.deb ... Unpacking python3 (3.4~rc1-1) ... Selecting previously unselected package dh-python. Preparing to unpack .../dh-python_1.20140128-1ubuntu2_all.deb ... Unpacking dh-python (1.20140128-1ubuntu2) ... Selecting previously unselected package file. Preparing to unpack .../file_1%3a5.14-2ubuntu1_ppc64el.deb ... Unpacking file (1:5.14-2ubuntu1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../gettext-base_0.18.3.1-1ubuntu2_ppc64el.deb ... Unpacking gettext-base (0.18.3.1-1ubuntu2) ... Selecting previously unselected package gettext. Preparing to unpack .../gettext_0.18.3.1-1ubuntu2_ppc64el.deb ... Unpacking gettext (0.18.3.1-1ubuntu2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../intltool-debian_0.35.0+20060710.1_all.deb ... Unpacking intltool-debian (0.35.0+20060710.1) ... Selecting previously unselected package po-debconf. Preparing to unpack .../po-debconf_1.0.16+nmu2ubuntu1_all.deb ... Unpacking po-debconf (1.0.16+nmu2ubuntu1) ... Selecting previously unselected package apparmor-easyprof. Preparing to unpack .../apparmor-easyprof_2.8.0-0ubuntu38_all.deb ... Unpacking apparmor-easyprof (2.8.0-0ubuntu38) ... Selecting previously unselected package dh-apparmor. Preparing to unpack .../dh-apparmor_2.8.0-0ubuntu38_all.deb ... Unpacking dh-apparmor (2.8.0-0ubuntu38) ... Selecting previously unselected package debhelper. Preparing to unpack .../debhelper_9.20131127ubuntu2_all.deb ... Unpacking debhelper (9.20131127ubuntu2) ... Setting up libexpat1:ppc64el (2.1.0-4ubuntu1) ... Setting up libmagic1:ppc64el (1:5.14-2ubuntu1) ... Setting up libssl1.0.0:ppc64el (1.0.1f-1ubuntu1) ... Setting up libasprintf0c2:ppc64el (0.18.3.1-1ubuntu2) ... Setting up libglib2.0-0:ppc64el (2.39.4-0ubuntu1) ... No schema files found: doing nothing. Setting up libpipeline1:ppc64el (1.2.6-2) ... Setting up libxml2:ppc64el (2.9.1+dfsg1-3ubuntu3) ... Setting up groff-base (1.22.2-5) ... Setting up bsdmainutils (9.0.5ubuntu1) ... 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 man-db (2.6.6-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libcroco3:ppc64el (0.6.8-2ubuntu1) ... Setting up libmpdec2:ppc64el (2.4.0-6) ... Setting up libpython3.4-minimal:ppc64el (3.4~rc1-1build1) ... Setting up mime-support (3.54ubuntu1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode Setting up libpython3.4-stdlib:ppc64el (3.4~rc1-1build1) ... Setting up libunistring0:ppc64el (0.9.3-5ubuntu3) ... Setting up python3.4-minimal (3.4~rc1-1build1) ... Setting up python3.4 (3.4~rc1-1build1) ... Setting up python3-minimal (3.4~rc1-1) ... Exception ignored in: > Traceback (most recent call last): File "/usr/lib/python3.4/subprocess.py", line 897, in __del__ TypeError: 'NoneType' object is not callable Setting up libpython3-stdlib:ppc64el (3.4~rc1-1) ... Setting up file (1:5.14-2ubuntu1) ... Setting up gettext-base (0.18.3.1-1ubuntu2) ... Setting up gettext (0.18.3.1-1ubuntu2) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2ubuntu1) ... Setting up dh-python (1.20140128-1ubuntu2) ... Setting up python3 (3.4~rc1-1) ... running python rtupdate hooks for python3.4... Exception ignored in: > Traceback (most recent call last): File "/usr/lib/python3.4/subprocess.py", line 897, in __del__ TypeError: 'NoneType' object is not callable running python post-rtupdate hooks for python3.4... Setting up apparmor-easyprof (2.8.0-0ubuntu38) ... Setting up dh-apparmor (2.8.0-0ubuntu38) ... Setting up debhelper (9.20131127ubuntu2) ... Processing triggers for libc-bin (2.18-0ubuntu7) ... Checking correctness of source dependencies... Toolchain package versions: libc6-dev_2.18-0ubuntu7 make_3.81-8.2ubuntu3 dpkg-dev_1.17.5ubuntu4 gcc-4.8_4.8.2-15ubuntu3 g++-4.8_4.8.2-15ubuntu3 binutils_2.24-2ubuntu3.1 libstdc++-4.8-dev_4.8.2-15ubuntu3 libstdc++6_4.8.2-15ubuntu3 ------------------------------------------------------------------------------ dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::Quilt gpgv: Signature made Wed May 2 08:25:19 2012 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./gff2aplot_2.0-7.dsc dpkg-source: info: extracting gff2aplot in gff2aplot-2.0 dpkg-source: info: unpacking gff2aplot_2.0.orig.tar.gz dpkg-source: info: unpacking gff2aplot_2.0-7.debian.tar.gz dpkg-source: info: applying 02-blat2gff.diff dpkg-source: info: applying 03-parseblast.diff dpkg-source: info: applying use-dpkg-buildflags.patch dpkg-buildpackage: source package gff2aplot dpkg-buildpackage: source version 2.0-7 dpkg-buildpackage: source distribution unstable dpkg-source --before-build gff2aplot-2.0 dpkg-buildpackage: host architecture ppc64el dpkg-source: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file /usr/bin/fakeroot debian/rules clean dh clean dh_testdir debian/rules override_dh_auto_clean make[1]: Entering directory `/build/buildd/gff2aplot-2.0' rm -f src/ali2gff/ali2gff bin/ali2gff make[1]: Leaving directory `/build/buildd/gff2aplot-2.0' dh_clean debian/rules build-arch dh build-arch dh_testdir -a dh_auto_configure -a dh_auto_build -a make[1]: Entering directory `/build/buildd/gff2aplot-2.0' ### ### RUNNING MAKEFILE ### ### Tue Feb 18 21:43:36 UTC 2014 -- buildd ### ### Finishing PERL script from "src/gff2aplot.pl" -> "bin/gff2aplot.pl" ### Finishing PERL script from "src/parseblast.pl" -> "bin/parseblast.pl" ### Finishing PERL script from "src/blat2gff.pl" -> "bin/blat2gff.pl" ### Finishing PERL script from "src/sim2gff.pl" -> "bin/sim2gff.pl" ### Making ALI2GFF... make[2]: Entering directory `/build/buildd/gff2aplot-2.0/src/ali2gff' ali2gff.c: In function 'main': ali2gff.c:88:8: warning: variable 'ptr' set but not used [-Wunused-but-set-variable] char *ptr; ^ ali2gff.c: In function 'processMumfile': ali2gff.c:523:6: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' [-Wformat=] if (DEBUG) fprintf(stderr,"gap data: length %d-20=%d\n%s\n%s\n%s\n",strlen(seq1),strlen(seq1)-20,seq1,seq2,err); ^ ali2gff.c:523:6: warning: format '%d' expects argument of type 'int', but argument 4 has type 'size_t' [-Wformat=] ali2gff.c:764:6: warning: format '%d' expects argument of type 'int', but argument 3 has type 'size_t' [-Wformat=] if (DEBUG) fprintf(stderr,"gap data: length %d-20=%d\n%s\n%s\n%s\n",strlen(seq1),strlen(seq1)-20,seq1,seq2,err); ^ ali2gff.c:764:6: warning: format '%d' expects argument of type 'int', but argument 4 has type 'size_t' [-Wformat=] ali2gff.c:837:18: warning: 'fyb' may be used uninitialized in this function [-Wmaybe-uninitialized] fye = fyb + flen - 1; ^ ali2gff.c:836:18: warning: 'fxb' may be used uninitialized in this function [-Wmaybe-uninitialized] fxe = fxb + flen - 1; ^ ali2gff.c:728:12: warning: 'score' may be used uninitialized in this function [-Wmaybe-uninitialized] score = (score - errCount)/score; // match percentage ^ ali2gff.c: In function 'processSimfile': ali2gff.c:1069:15: warning: 'yrev' may be used uninitialized in this function [-Wmaybe-uninitialized] ye = yrev-ye; ^ ali2gff.c:1060:41: warning: 'yseqLen_4' may be used uninitialized in this function [-Wmaybe-uninitialized] if (!opt_i || ((xe - xb < xseqLen_4) && (ye - yb < yseqLen_4))) { ^ ali2gff.c:1060:15: warning: 'xseqLen_4' may be used uninitialized in this function [-Wmaybe-uninitialized] if (!opt_i || ((xe - xb < xseqLen_4) && (ye - yb < yseqLen_4))) { ^ make[2]: Leaving directory `/build/buildd/gff2aplot-2.0/src/ali2gff' './src/ali2gff/ali2gff' -> './bin/ali2gff' mode of 'bin/gff2aplot.pl' changed from 0664 (rw-rw-r--) to 0755 (rwxr-xr-x) mode of 'bin/parseblast.pl' changed from 0664 (rw-rw-r--) to 0755 (rwxr-xr-x) mode of 'bin/blat2gff.pl' changed from 0664 (rw-rw-r--) to 0755 (rwxr-xr-x) mode of 'bin/sim2gff.pl' changed from 0664 (rw-rw-r--) to 0755 (rwxr-xr-x) ### ### MAKEFILE DONE... ### make[1]: Leaving directory `/build/buildd/gff2aplot-2.0' dh_auto_test -a make[1]: Entering directory `/build/buildd/gff2aplot-2.0' ### SORRY !!! Tests were not implemented yet... make[1]: Leaving directory `/build/buildd/gff2aplot-2.0' /usr/bin/fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_installdirs -a debian/rules override_dh_auto_install make[1]: Entering directory `/build/buildd/gff2aplot-2.0' for script in `find bin -name "*.pl"` ; do mv $script bin/`basename $script .pl` ; done make[1]: Leaving directory `/build/buildd/gff2aplot-2.0' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_perl -a dh_link -a dh_compress -a dh_fixperms -a dh_strip -a dh_strip debug symbol extraction: not enabling -a because /CurrentlyBuilding exists dh_strip debug symbol extraction: all non-arch-all packages for this build platform ppc64el: gff2aplot dh_strip debug symbol extraction: packages to act on: gff2aplot dh_strip debug symbol extraction: ignored packages: Using buildid for compat level >= 9 dpkg-gencontrol: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe /usr/bin/pkg_create_dbgsym: building ddeb package dpkg-deb: building package `gff2aplot-dbgsym' in `../gff2aplot-dbgsym_2.0-7_ppc64el.ddeb'. dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 119 pkgstriptranslations: processing gff2aplot (in debian/gff2aplot); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/gff2aplot/DEBIAN/control, package gff2aplot, directory debian/gff2aplot pkgstripfiles: PNG optimization for package gff2aplot took 0 s dpkg-deb: warning: 'debian/gff2aplot/DEBIAN/control' contains user-defined field 'Original-Maintainer' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `gff2aplot' in `../gff2aplot_2.0-7_ppc64el.deb'. dpkg-genchanges -B -mUbuntu Build Daemon >../gff2aplot_2.0-7_ppc64el.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build gff2aplot-2.0 dpkg-source: warning: unknown information field 'Dm-Upload-Allowed' in input data in general section of control info file dpkg-buildpackage: binary only upload (no source included) ****************************************************************************** Build finished at 20140218-1643 Publishing debug debs. chroot-autobuild/build/buildd/gff2aplot_2.0-7_ppc64el.deb: new debian package, version 2.0. size 308364 bytes: control archive=3331 bytes. 2856 bytes, 48 lines control 5009 bytes, 58 lines md5sums Package: gff2aplot Version: 2.0-7 Architecture: ppc64el Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 629 Depends: libc6 (>= 2.17), perl Suggests: postscript-viewer, gff2ps Section: science Priority: optional Homepage: http://genome.imim.es/software/gfftools/GFF2APLOT.html Description: pair-wise alignment-plots for genomic sequences in PostScript A program to visualize the alignment of two genomic sequences together with their annotations. From GFF-format input files it produces PostScript figures for that alignment. The following menu lists many features of gff2aplot: * Comprehensive alignment plots for any GFF-feature. Attributes are defined separately so you can modify only whatsoever attributes for a given file or share same customization across different data-sets. * All parameters are set by default within the program, but it can be also fully configured via gff2ps-like flexible customization files. Program can handle several of such files, summarizing all the settings before producing the corresponding figure. Moreover, all customization parameters can be set via command-line switches, which allows users to play with those parameters before adding any to a customization file. * Source order is taken from input files, if you swap file order you can visualize alignment and its annotation with the new input arrangement. * All alignment scores can be visualized in a PiP box below gff2aplot area, using grey-color scale, user-defined color scale or score-dependent gradients. * Scalable fonts, which can also be chosen among the basic PostScript default fonts. Feature and group labels can be rotated to improve readability in both annotation axes. * The program is still defined as a Unix filter so it can handle data from files, redirections and pipes, writing output to standard-output and warnings to standard error. * gff2aplot is able to manage many physical page formats (from A0 to A10, and more -see available page sizes in its manual-), including user-defined ones. This allows, for instance, the generation of poster size genomic maps, or the use of a continuous-paper supporting plotting device, either in portrait or landscape. * You can draw different alignments on same alignment plot and distinguish them by using different colors for each. * Shape dictionary has been expanded, so that further feature shapes are now available (see manual). * Annotation projections through alignment plots (so called ribbons) emulate transparencies via complementary color fill patterns. This feature allows to show color pseudo-blending when horizontal and vertical ribbons overlap. chroot-autobuild/build/buildd/gff2aplot_2.0-7_ppc64el.deb: drwxr-xr-x root/root 0 2014-02-18 16:43 ./ drwxr-xr-x root/root 0 2014-02-18 16:43 ./usr/ drwxr-xr-x root/root 0 2014-02-18 16:43 ./usr/bin/ -rwxr-xr-x root/root 36734 2014-02-18 16:43 ./usr/bin/parseblast -rwxr-xr-x root/root 28664 2014-02-18 16:43 ./usr/bin/ali2gff -rwxr-xr-x root/root 10232 2014-02-18 16:43 ./usr/bin/sim2gff -rwxr-xr-x root/root 201809 2014-02-18 16:43 ./usr/bin/gff2aplot -rwxr-xr-x root/root 5381 2014-02-18 16:43 ./usr/bin/blat2gff drwxr-xr-x root/root 0 2014-02-18 16:43 ./usr/share/ drwxr-xr-x root/root 0 2014-02-18 16:43 ./usr/share/man/ drwxr-xr-x root/root 0 2014-02-18 16:43 ./usr/share/man/man1/ -rw-r--r-- root/root 674 2014-02-18 16:43 ./usr/share/man/man1/sim2gff.1.gz -rw-r--r-- root/root 559 2014-02-18 16:43 ./usr/share/man/man1/ali2gff.1.gz -rw-r--r-- root/root 344 2014-02-18 16:43 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./usr/share/doc/gff2aplot/examples/wublast/taf6.hs.gene.gff -rw-r--r-- root/root 1986 2003-06-05 11:45 ./usr/share/doc/gff2aplot/examples/wublast/README.gz -rw-r--r-- root/root 2845 2003-06-05 11:45 ./usr/share/doc/gff2aplot/examples/wublast/taf6.mmhs.genomic.tblastx.gff.gz -rw-r--r-- root/root 24928 2003-06-05 11:45 ./usr/share/doc/gff2aplot/examples/wublast/index.html -rw-r--r-- root/root 750 2003-06-05 11:45 ./usr/share/doc/gff2aplot/examples/wublast/taf6.mmhs.genomic.blastn.full.gff.gz -rw-r--r-- root/root 2211 2003-06-05 11:45 ./usr/share/doc/gff2aplot/README.gz -rw-r--r-- root/root 1020 2012-05-02 04:24 ./usr/share/doc/gff2aplot/changelog.Debian.gz gff2aplot_2.0-7_ppc64el.changes: Format: 1.8 Date: Tue, 01 May 2012 22:37:01 +0200 Source: gff2aplot Binary: gff2aplot Architecture: ppc64el Version: 2.0-7 Distribution: trusty Urgency: low Maintainer: Ubuntu Build Daemon Changed-By: Andreas Tille Description: gff2aplot - pair-wise alignment-plots for genomic sequences in PostScript Changes: gff2aplot (2.0-7) unstable; urgency=low . * debian/upstream: Added citation information * debian/control: - Standards-Version: 3.9.3 (no changes needed) - Fixed Vcs-Svn - Removed cdbs+quilt from Build-Depends * debian/copyright: Rewritten to DEP5 * debian/patches/use-dpkg-buildflags.patch: Use build flags from environment to enable hardening * debhelper 9 (control+compat) Checksums-Sha1: 66c43ab725674e0ab418e9a348926f8a9aec97f1 308364 gff2aplot_2.0-7_ppc64el.deb Checksums-Sha256: f050baf5defe5a47502d25ce2704cc7cc6c2f26573ad76adbcb4b38cc0a95800 308364 gff2aplot_2.0-7_ppc64el.deb Files: ce521c5bb1beef09625ec8237324f885 308364 science optional gff2aplot_2.0-7_ppc64el.deb ****************************************************************************** Built successfully ****************************************************************************** Finished at 20140218-1643 Build needed 00:00:07, 3368k disk space RUN: /usr/share/launchpad-buildd/slavebin/scan-for-processes ['scan-for-processes', 'PACKAGEBUILD-5598679'] Scanning for processes to kill in build /home/buildd/build-PACKAGEBUILD-5598679/chroot-autobuild... RUN: /usr/share/launchpad-buildd/slavebin/umount-chroot ['umount-chroot', 'PACKAGEBUILD-5598679'] Unmounting chroot for build PACKAGEBUILD-5598679... RUN: /usr/share/launchpad-buildd/slavebin/remove-build ['remove-build', 'PACKAGEBUILD-5598679'] Removing build PACKAGEBUILD-5598679