DC-Build-Header: dialign-t 1.0.2-2 / Sat Jun 23 16:44:15 +0000 2012 DC-Task: logfile:/tmp/dialign-t_1.0.2-2_unstable_clang.log version:1.0.2-2 chroot:unstable modes:binary-only:clang source:dialign-t architecture:any esttime:36 DC-Sbuild-call: su user -c 'sbuild -n --apt-update -d unstable -v --chroot-setup-commands=/tmp/switch-to-clang dialign-t_1.0.2-2' sbuild (Debian sbuild) 0.62.5 (13 Jul 2011) on ip-10-28-211-69.ec2.internal ╔══════════════════════════════════════════════════════════════════════════════╗ ║ dialign-t 1.0.2-2 (amd64) 23 Jun 2012 16:44 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: dialign-t Version: 1.0.2-2 Source Version: 1.0.2-2 Distribution: unstable Architecture: amd64 I: NOTICE: Log filtering will replace 'build/dialign-t-MYa2Bg/dialign-t-1.0.2' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/dialign-t-MYa2Bg' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/unstable-amd64-sbuild-76cd020e-006f-46e7-9f7a-d1966e05d2e9' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Ign http://localhost unstable InRelease Get:1 http://localhost unstable Release.gpg [836 B] Get:2 http://localhost unstable Release [233 kB] Get:3 http://localhost unstable/main Sources/DiffIndex [7876 B] Get:4 http://localhost unstable/main amd64 Packages/DiffIndex [7876 B] Get:5 http://localhost unstable/main Translation-en/DiffIndex [7876 B] Get:6 http://localhost unstable/main 2012-06-23-0814.36.pdiff [8967 B] Get:7 http://localhost unstable/main 2012-06-23-0814.36.pdiff [8967 B] Get:8 http://localhost unstable/main amd64 2012-06-23-0814.36.pdiff [6101 B] Get:9 http://localhost unstable/main 2012-06-23-0814.36.pdiff [1297 B] Get:10 http://localhost unstable/main amd64 2012-06-23-0814.36.pdiff [6101 B] Get:11 http://localhost unstable/main 2012-06-23-1414.42.pdiff [10.6 kB] Get:12 http://localhost unstable/main 2012-06-23-0814.36.pdiff [1297 B] Get:13 http://localhost unstable/main amd64 2012-06-23-1414.42.pdiff [11.3 kB] Get:14 http://localhost unstable/main 2012-06-23-1414.42.pdiff [10.6 kB] Get:15 http://localhost unstable/main 2012-06-23-1414.42.pdiff [696 B] Get:16 http://localhost unstable/main amd64 2012-06-23-1414.42.pdiff [11.3 kB] Get:17 http://localhost unstable/main 2012-06-23-1414.42.pdiff [696 B] Fetched 296 kB in 7s (41.3 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: base-passwd bsdutils libblkid1 libmount1 libuuid1 mount util-linux 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 1300 kB of archives. After this operation, 308 kB disk space will be freed. Get:1 http://localhost/debian/ unstable/main mount amd64 2.20.1-5.1 [213 kB] Get:2 http://localhost/debian/ unstable/main util-linux amd64 2.20.1-5.1 [659 kB] Get:3 http://localhost/debian/ unstable/main base-passwd amd64 3.5.26 [46.3 kB] Get:4 http://localhost/debian/ unstable/main bsdutils amd64 1:2.20.1-5.1 [85.3 kB] Get:5 http://localhost/debian/ unstable/main libuuid1 amd64 2.20.1-5.1 [56.9 kB] Get:6 http://localhost/debian/ unstable/main libblkid1 amd64 2.20.1-5.1 [120 kB] Get:7 http://localhost/debian/ unstable/main libmount1 amd64 2.20.1-5.1 [120 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 1300 kB in 0s (13.4 MB/s) (Reading database ... 11730 files and directories currently installed.) Preparing to replace mount 2.20.1-5 (using .../mount_2.20.1-5.1_amd64.deb) ... Unpacking replacement mount ... Setting up mount (2.20.1-5.1) ... (Reading database ... 11730 files and directories currently installed.) Preparing to replace util-linux 2.20.1-5 (using .../util-linux_2.20.1-5.1_amd64.deb) ... Unpacking replacement util-linux ... Setting up util-linux (2.20.1-5.1) ... (Reading database ... 11730 files and directories currently installed.) Preparing to replace base-passwd 3.5.25 (using .../base-passwd_3.5.26_amd64.deb) ... Unpacking replacement base-passwd ... Setting up base-passwd (3.5.26) ... (Reading database ... 11730 files and directories currently installed.) Preparing to replace bsdutils 1:2.20.1-5 (using .../bsdutils_1%3a2.20.1-5.1_amd64.deb) ... Unpacking replacement bsdutils ... Setting up bsdutils (1:2.20.1-5.1) ... (Reading database ... 11730 files and directories currently installed.) Preparing to replace libuuid1:amd64 2.20.1-5 (using .../libuuid1_2.20.1-5.1_amd64.deb) ... Unpacking replacement libuuid1:amd64 ... Setting up libuuid1:amd64 (2.20.1-5.1) ... (Reading database ... 11730 files and directories currently installed.) Preparing to replace libblkid1:amd64 2.20.1-5 (using .../libblkid1_2.20.1-5.1_amd64.deb) ... Unpacking replacement libblkid1:amd64 ... Setting up libblkid1:amd64 (2.20.1-5.1) ... (Reading database ... 11730 files and directories currently installed.) Preparing to replace libmount1 2.20.1-5 (using .../libmount1_2.20.1-5.1_amd64.deb) ... Unpacking replacement libmount1 ... Setting up libmount1 (2.20.1-5.1) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... NOTICE: 'dialign-t' packaging is maintained in the 'Svn' version control system at: svn://svn.debian.org/svn/debian-med/trunk/packages/dialign-t/trunk/ Need to get 1775 kB of source archives. Get:1 http://localhost/debian/ unstable/main dialign-t 1.0.2-2 (dsc) [1355 B] Get:2 http://localhost/debian/ unstable/main dialign-t 1.0.2-2 (tar) [1765 kB] Get:3 http://localhost/debian/ unstable/main dialign-t 1.0.2-2 (diff) [8133 B] Fetched 1775 kB in 0s (5351 kB/s) Download complete and in download only mode Check arch ────────── ┌──────────────────────────────────────────────────────────────────────────────┐ │ Chroot Setup Commands │ └──────────────────────────────────────────────────────────────────────────────┘ /tmp/switch-to-clang ──────────────────── + echo 'Entering customization script...' Entering customization script... + apt-get update Ign http://localhost unstable InRelease Hit http://localhost unstable Release.gpg Hit http://localhost unstable Release Hit http://localhost unstable/main Sources/DiffIndex Hit http://localhost unstable/main amd64 Packages/DiffIndex Hit http://localhost unstable/main Translation-en/DiffIndex Reading package lists... + echo 'Install of clang' Install of clang + apt-get update Ign http://localhost unstable InRelease Hit http://localhost unstable Release.gpg Hit http://localhost unstable Release Hit http://localhost unstable/main Sources/DiffIndex Hit http://localhost unstable/main amd64 Packages/DiffIndex Hit http://localhost unstable/main Translation-en/DiffIndex Reading package lists... + apt-get install --yes --no-install-recommends clang -t unstable Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: libclang-common-dev libffi5 libllvm3.1 Recommended packages: llvm-3.1-dev python The following NEW packages will be installed: clang libclang-common-dev libffi5 libllvm3.1 0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. Need to get 13.1 MB of archives. After this operation, 35.6 MB of additional disk space will be used. Get:1 http://localhost/debian/ unstable/main libffi5 amd64 3.0.10-3 [24.8 kB] Get:2 http://localhost/debian/ unstable/main libllvm3.1 amd64 3.1-1 [7276 kB] Get:3 http://localhost/debian/ unstable/main libclang-common-dev amd64 3.1-6 [84.0 kB] Get:4 http://localhost/debian/ unstable/main clang amd64 3.1-6 [5755 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 13.1 MB in 0s (30.0 MB/s) Selecting previously unselected package libffi5:amd64. (Reading database ... 11730 files and directories currently installed.) Unpacking libffi5:amd64 (from .../libffi5_3.0.10-3_amd64.deb) ... Selecting previously unselected package libllvm3.1:amd64. Unpacking libllvm3.1:amd64 (from .../libllvm3.1_3.1-1_amd64.deb) ... Selecting previously unselected package libclang-common-dev. Unpacking libclang-common-dev (from .../libclang-common-dev_3.1-6_amd64.deb) ... Selecting previously unselected package clang. Unpacking clang (from .../archives/clang_3.1-6_amd64.deb) ... Setting up libffi5:amd64 (3.0.10-3) ... Setting up libllvm3.1:amd64 (3.1-1) ... Setting up libclang-common-dev (3.1-6) ... Setting up clang (3.1-6) ... + echo 'Replace gcc, g++ & cpp by clang' Replace gcc, g++ & cpp by clang + VERSION=4.7 + cd /usr/bin + rm g++-4.7 gcc-4.7 cpp-4.7 + ln -s clang++ g++-4.7 + ln -s clang gcc-4.7 + ln -s clang cpp-4.7 + cd - /«BUILDDIR» + echo 'Block the installation of new gcc version' Block the installation of new gcc version + dpkg --set-selections + echo 'gcc-4.6 hold' + dpkg --set-selections + echo 'cpp-4.6 hold' + dpkg --set-selections + echo 'g++-4.6 hold' + dpkg --set-selections + echo 'gcc-4.7 hold' + dpkg --set-selections + echo 'cpp-4.7 hold' + dpkg --set-selections + echo 'g++-4.7 hold' + echo 'Check if gcc, g++ & cpp are actually clang' Check if gcc, g++ & cpp are actually clang + grep clang + gcc --version I: Finished running '/tmp/switch-to-clang'. Finished processing commands. ──────────────────────────────────────────────────────────────────────────────── Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-_0Oryv/apt_archive/sbuild-build-depends-core-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install core build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/706 B of archives. After this operation, 0 B of additional disk space will be used. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 11810 files and directories currently installed.) Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 7), cdbs Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 7), cdbs dpkg-deb: building package `sbuild-build-depends-dialign-t-dummy' in `/«BUILDDIR»/resolver-n_xLv1/apt_archive/sbuild-build-depends-dialign-t-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install dialign-t build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils cdbs debhelper file gettext gettext-base groff-base html2text intltool-debian libasprintf0c2 libcroco3 libgettextpo0 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf Suggested packages: wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less www-browser libmail-box-perl Recommended packages: autotools-dev curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: bsdmainutils cdbs debhelper file gettext gettext-base groff-base html2text intltool-debian libasprintf0c2 libcroco3 libgettextpo0 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db po-debconf sbuild-build-depends-dialign-t-dummy 0 upgraded, 21 newly installed, 0 to remove and 0 not upgraded. Need to get 10.0 MB/10.0 MB of archives. After this operation, 25.7 MB of additional disk space will be used. Get:1 http://localhost/debian/ unstable/main libpipeline1 amd64 1.2.1-1 [39.2 kB] Get:2 http://localhost/debian/ unstable/main libasprintf0c2 amd64 0.18.1.1-9 [26.8 kB] Get:3 http://localhost/debian/ unstable/main libmagic1 amd64 5.11-1 [250 kB] Get:4 http://localhost/debian/ unstable/main libpcre3 amd64 1:8.30-5 [242 kB] Get:5 http://localhost/debian/ unstable/main libxml2 amd64 2.8.0+dfsg1-4 [903 kB] Get:6 http://localhost/debian/ unstable/main libglib2.0-0 amd64 2.32.3-1 [2081 kB] Get:7 http://localhost/debian/ unstable/main libcroco3 amd64 0.6.5-1 [151 kB] Get:8 http://localhost/debian/ unstable/main libunistring0 amd64 0.9.3-5 [434 kB] Get:9 http://localhost/debian/ unstable/main libgettextpo0 amd64 0.18.1.1-9 [145 kB] Get:10 http://localhost/debian/ unstable/main bsdmainutils amd64 9.0.3 [209 kB] Get:11 http://localhost/debian/ unstable/main groff-base amd64 1.21-8 [1152 kB] Get:12 http://localhost/debian/ unstable/main man-db amd64 2.6.2-1 [1061 kB] Get:13 http://localhost/debian/ unstable/main file amd64 5.11-1 [53.2 kB] Get:14 http://localhost/debian/ unstable/main gettext-base amd64 0.18.1.1-9 [154 kB] Get:15 http://localhost/debian/ unstable/main cdbs all 0.4.115 [80.2 kB] Get:16 http://localhost/debian/ unstable/main html2text amd64 1.3.2a-15 [103 kB] Get:17 http://localhost/debian/ unstable/main gettext amd64 0.18.1.1-9 [1975 kB] Get:18 http://localhost/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:19 http://localhost/debian/ unstable/main po-debconf all 1.0.16+nmu2 [224 kB] Get:20 http://localhost/debian/ unstable/main debhelper all 9.20120608 [700 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 10.0 MB in 0s (23.4 MB/s) Selecting previously unselected package libpipeline1:amd64. (Reading database ... 11810 files and directories currently installed.) Unpacking libpipeline1:amd64 (from .../libpipeline1_1.2.1-1_amd64.deb) ... Selecting previously unselected package libasprintf0c2:amd64. Unpacking libasprintf0c2:amd64 (from .../libasprintf0c2_0.18.1.1-9_amd64.deb) ... Selecting previously unselected package libmagic1:amd64. Unpacking libmagic1:amd64 (from .../libmagic1_5.11-1_amd64.deb) ... Selecting previously unselected package libpcre3:amd64. Unpacking libpcre3:amd64 (from .../libpcre3_1%3a8.30-5_amd64.deb) ... Selecting previously unselected package libxml2:amd64. Unpacking libxml2:amd64 (from .../libxml2_2.8.0+dfsg1-4_amd64.deb) ... Selecting previously unselected package libglib2.0-0:amd64. Unpacking libglib2.0-0:amd64 (from .../libglib2.0-0_2.32.3-1_amd64.deb) ... Selecting previously unselected package libcroco3:amd64. Unpacking libcroco3:amd64 (from .../libcroco3_0.6.5-1_amd64.deb) ... Selecting previously unselected package libunistring0:amd64. Unpacking libunistring0:amd64 (from .../libunistring0_0.9.3-5_amd64.deb) ... Selecting previously unselected package libgettextpo0:amd64. Unpacking libgettextpo0:amd64 (from .../libgettextpo0_0.18.1.1-9_amd64.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_9.0.3_amd64.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.21-8_amd64.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.2-1_amd64.deb) ... Selecting previously unselected package file. Unpacking file (from .../archives/file_5.11-1_amd64.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-9_amd64.deb) ... Selecting previously unselected package cdbs. Unpacking cdbs (from .../archives/cdbs_0.4.115_all.deb) ... Selecting previously unselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.1.1-9_amd64.deb) ... Selecting previously unselected package intltool-debian. Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ... Selecting previously unselected package po-debconf. Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2_all.deb) ... Selecting previously unselected package debhelper. Unpacking debhelper (from .../debhelper_9.20120608_all.deb) ... Selecting previously unselected package sbuild-build-depends-dialign-t-dummy. Unpacking sbuild-build-depends-dialign-t-dummy (from .../sbuild-build-depends-dialign-t-dummy.deb) ... Setting up libpipeline1:amd64 (1.2.1-1) ... Setting up libasprintf0c2:amd64 (0.18.1.1-9) ... Setting up libmagic1:amd64 (5.11-1) ... Setting up libpcre3:amd64 (1:8.30-5) ... Setting up libxml2:amd64 (2.8.0+dfsg1-4) ... Setting up libglib2.0-0:amd64 (2.32.3-1) ... No schema files found: doing nothing. Setting up libcroco3:amd64 (0.6.5-1) ... Setting up libunistring0:amd64 (0.9.3-5) ... Setting up libgettextpo0:amd64 (0.18.1.1-9) ... Setting up bsdmainutils (9.0.3) ... 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 groff-base (1.21-8) ... Setting up man-db (2.6.2-1) ... Building database of manual pages ... Setting up file (5.11-1) ... Setting up gettext-base (0.18.1.1-9) ... Setting up cdbs (0.4.115) ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-9) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20120608) ... Setting up sbuild-build-depends-dialign-t-dummy (0.invalid.0) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 2.6.32-5-xen-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.22-6.1 dpkg-dev_1.16.4.3 g++-4.6_4.6.3-7 g++-4.7_4.7.1-1 gcc-4.6_4.6.3-7 gcc-4.7_4.7.1-1 libc6-dev_2.13-33 libstdc++6_4.7.1-1 libstdc++6-4.6-dev_4.6.3-7 libstdc++6-4.7-dev_4.7.1-1 linux-libc-dev_3.2.20-1 Package versions: apt_0.9.7 base-files_6.11 base-passwd_3.5.26 bash_4.2-2 binutils_2.22-6.1 bsdmainutils_9.0.3 bsdutils_1:2.20.1-5.1 build-essential_11.5 bzip2_1.0.6-3 cdbs_0.4.115 clang_3.1-6 coreutils_8.13-3.2 cpp_4:4.7.0-6 cpp-4.6_4.6.3-7 cpp-4.7_4.7.1-1 dash_0.5.7-3 debconf_1.5.44 debconf-i18n_1.5.44 debfoster_2.7-1.1 debhelper_9.20120608 debian-archive-keyring_2012.4 debianutils_4.3.1 diffutils_1:3.2-6 dpkg_1.16.4.3 dpkg-dev_1.16.4.3 e2fslibs_1.42.4-3 e2fsprogs_1.42.4-3 fakeroot_1.18.4-2 file_5.11-1 findutils_4.4.2-4 g++_4:4.7.0-6 g++-4.6_4.6.3-7 g++-4.7_4.7.1-1 gcc_4:4.7.0-6 gcc-4.4-base_4.4.7-1 gcc-4.5-base_4.5.3-12 gcc-4.6_4.6.3-7 gcc-4.6-base_4.6.3-7 gcc-4.7_4.7.1-1 gcc-4.7-base_4.7.1-1 gettext_0.18.1.1-9 gettext-base_0.18.1.1-9 gnupg_1.4.12-4 gpgv_1.4.12-4 grep_2.12-2 groff-base_1.21-8 gzip_1.5-1.1 hostname_3.11 html2text_1.3.2a-15 initscripts_2.88dsf-27 insserv_1.14.0-3 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-8 libapt-pkg4.12_0.9.7 libasprintf0c2_0.18.1.1-9 libattr1_1:2.4.46-8 libblkid1_2.20.1-5.1 libbz2-1.0_1.0.6-3 libc-bin_2.13-33 libc-dev-bin_2.13-33 libc6_2.13-33 libc6-dev_2.13-33 libclang-common-dev_3.1-6 libclass-isa-perl_0.36-3 libcomerr2_1.42.4-3 libcroco3_0.6.5-1 libdb5.1_5.1.29-4 libdpkg-perl_1.16.4.3 libffi5_3.0.10-3 libfile-fcntllock-perl_0.14-2 libgc1c2_1:7.1-8 libgcc1_1:4.7.1-1 libgdbm3_1.8.3-11 libgettextpo0_0.18.1.1-9 libglib2.0-0_2.32.3-1 libgmp10_2:5.0.5+dfsg-2 libgomp1_4.7.1-1 libitm1_4.7.1-1 libllvm3.1_3.1-1 liblocale-gettext-perl_1.05-7+b1 liblzma5_5.1.1alpha+20120614-1 libmagic1_5.11-1 libmount1_2.20.1-5.1 libmpc2_0.9-4 libmpfr4_3.1.0-5 libncurses5_5.9-9 libpam-modules_1.1.3-7.1 libpam-modules-bin_1.1.3-7.1 libpam-runtime_1.1.3-7.1 libpam0g_1.1.3-7.1 libpcre3_1:8.30-5 libpipeline1_1.2.1-1 libquadmath0_4.7.1-1 libreadline6_6.2-8 libselinux1_2.1.9-5 libsemanage-common_2.1.6-6 libsemanage1_2.1.6-6 libsepol1_2.1.4-3 libslang2_2.2.4-13 libss2_1.42.4-3 libstdc++6_4.7.1-1 libstdc++6-4.6-dev_4.6.3-7 libstdc++6-4.7-dev_4.7.1-1 libswitch-perl_2.16-2 libtext-charwidth-perl_0.04-7+b1 libtext-iconv-perl_1.7-5 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libtinfo5_5.9-9 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.1 libxml2_2.8.0+dfsg1-4 linux-libc-dev_3.2.20-1 login_1:4.1.5.1-1 lsb-base_4.1+Debian7 make_3.81-8.2 man-db_2.6.2-1 mawk_1.3.3-17 mount_2.20.1-5.1 multiarch-support_2.13-33 ncurses-base_5.9-9 ncurses-bin_5.9-9 passwd_1:4.1.5.1-1 patch_2.6.1-3 perl_5.14.2-12 perl-base_5.14.2-12 perl-modules_5.14.2-12 po-debconf_1.0.16+nmu2 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-dialign-t-dummy_0.invalid.0 sed_4.2.1-10 sensible-utils_0.0.7 sysv-rc_2.88dsf-27 sysvinit_2.88dsf-27 sysvinit-utils_2.88dsf-27 tar_1.26-4 tzdata_2012c-1 ucf_3.0025+nmu3 util-linux_2.20.1-5.1 xz-utils_5.1.1alpha+20120614-1 zlib1g_1:1.2.7.dfsg-13 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Fri Jan 14 15:09:14 2011 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./dialign-t_1.0.2-2.dsc dpkg-source: info: extracting dialign-t in dialign-t-1.0.2 dpkg-source: info: unpacking dialign-t_1.0.2.orig.tar.gz dpkg-source: info: unpacking dialign-t_1.0.2-2.debian.tar.gz Check disc space ──────────────── Sufficient free space for build User Environment ──────────────── HOME=/sbuild-nonexistent LOGNAME=root PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/bin/X11 SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=0 SCHROOT_GROUP=root SCHROOT_SESSION_ID=unstable-amd64-sbuild-76cd020e-006f-46e7-9f7a-d1966e05d2e9 SCHROOT_UID=0 SCHROOT_USER=root SHELL=/bin/sh USER=root dpkg-buildpackage ───────────────── dpkg-buildpackage: warning: using a gain-root-command while being root dpkg-buildpackage: source package dialign-t dpkg-buildpackage: source version 1.0.2-2 dpkg-buildpackage: source changed by Andreas Tille dpkg-source --before-build dialign-t-1.0.2 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean test -x debian/rules dh_testroot rm -f debian/stamp-makefile-build debian/stamp-makefile-install /usr/bin/make -C /«PKGBUILDDIR»/source CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CPPFLAGS="-D_FORTIFY_SOURCE=2" LDFLAGS="-Wl,-z,relro" -k clean make[1]: Entering directory `/«PKGBUILDDIR»/source' rm -rf *.o *rtl *jump *addre* *cfg *life *reg *reload *flow* *stack museq dialign-tx make[1]: Leaving directory `/«PKGBUILDDIR»/source' dh_clean debian/rules build-arch test -x debian/rules mkdir -p "/«PKGBUILDDIR»/source" /usr/bin/make -C /«PKGBUILDDIR»/source CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CXXFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall" CPPFLAGS="-D_FORTIFY_SOURCE=2" LDFLAGS="-Wl,-z,relro" make[1]: Entering directory `/«PKGBUILDDIR»/source' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -c -o museq.o museq.c clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' museq.c:168:2: warning: implicit declaration of function 'free_diag' is invalid in C99 [-Wimplicit-function-declaration] free_diag(adcol.diags[i]); ^ museq.c:278:27: warning: implicit declaration of function 'free_alignment' is invalid in C99 [-Wimplicit-function-declaration] if(! para->FAST_MODE) free_alignment(algn); ^ 2 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -c -o parameters.o parameters.c clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -c -o io.o io.c clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' io.c:270:3: warning: ignoring return value of function declared with warn_unused_result attribute [-Wunused-result] fscanf( fp, "%i", &is); ^~~~~~ ~~~~~~~~~~~~~ io.c:282:5: warning: ignoring return value of function declared with warn_unused_result attribute [-Wunused-result] fscanf(fp, "%s\n", rline); ^~~~~~ ~~~~~~~~~~~~~~~~~ io.c:371:7: warning: ignoring return value of function declared with warn_unused_result attribute [-Wunused-result] fscanf( fp, "%li %li %Le\n", &ti,&tscr,&weight ); ^~~~~~ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ io.c:535:23: warning: format specifies type 'long *' but the argument has type 'int *' [-Wformat] while( fscanf(fp,"%li %li %li %li %li %le\n",&s1,&s2,&sp1,&sp2,&len,&score ) == 6) { ~~^ ~~~ %i io.c:535:27: warning: format specifies type 'long *' but the argument has type 'int *' [-Wformat] while( fscanf(fp,"%li %li %li %li %li %le\n",&s1,&s2,&sp1,&sp2,&len,&score ) == 6) { ~~^ ~~~ %i io.c:535:31: warning: format specifies type 'long *' but the argument has type 'int *' [-Wformat] while( fscanf(fp,"%li %li %li %li %li %le\n",&s1,&s2,&sp1,&sp2,&len,&score ) == 6) { ~~^ ~~~~ %i io.c:535:35: warning: format specifies type 'long *' but the argument has type 'int *' [-Wformat] while( fscanf(fp,"%li %li %li %li %li %le\n",&s1,&s2,&sp1,&sp2,&len,&score ) == 6) { ~~^ ~~~~ %i io.c:535:39: warning: format specifies type 'long *' but the argument has type 'int *' [-Wformat] while( fscanf(fp,"%li %li %li %li %li %le\n",&s1,&s2,&sp1,&sp2,&len,&score ) == 6) { ~~^ ~~~~ %i 8 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -c -o diag.o diag.c clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' diag.c:739:9: warning: equality comparison result unused [-Wunused-comparison] sdg == NULL; ~~~~^~~~~~~ diag.c:739:9: note: use '=' to turn this equality comparison into an assignment sdg == NULL; ^~ = diag.c:513:8: warning: unused variable 'hasAli' [-Wunused-variable] char hasAli = (algn!=NULL); ^ diag.c:517:18: warning: unused variable 'cons_maxd' [-Wunused-variable] int maxd,maxd2,cons_maxd; ^ diag.c:518:7: warning: unused variable 'score1' [-Wunused-variable] int score1=0,score2 = 0; ^ diag.c:535:8: warning: unused variable 'mstatus' [-Wunused-variable] char mstatus; ^ 5 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -c -o alig.o alig.c clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' alig.c:144:20: warning: unused variable 'o_apos' [-Wunused-variable] struct algn_pos *o_apos; ^ alig.c:145:20: warning: unused variable 'tpos' [-Wunused-variable] struct algn_pos *tpos; ^ alig.c:584:10: warning: unused variable 'a2' [-Wunused-variable] int a1,a2; ^ alig.c:585:7: warning: unused variable 'score1' [-Wunused-variable] int score1; ^ alig.c:579:8: warning: unused variable 'c2n' [-Wunused-variable] int *c2n = smatrix->char2num; ^ alig.c:583:7: warning: unused variable 'smatrixlen' [-Wunused-variable] int smatrixlen = smatrix->length; ^ alig.c:584:7: warning: unused variable 'a1' [-Wunused-variable] int a1,a2; ^ alig.c:593:21: warning: unused variable 'dgc' [-Wunused-variable] struct diag_cont *dgc, *dgc_next; ^ alig.c:593:27: warning: unused variable 'dgc_next' [-Wunused-variable] struct diag_cont *dgc, *dgc_next; ^ alig.c:582:9: warning: unused variable 'data2' [-Wunused-variable] char *data2 = dg->seq_p2.sq->data; ^ alig.c:594:10: warning: unused variable 'ttim' [-Wunused-variable] double ttim; ^ alig.c:580:8: warning: unused variable 'sdata' [-Wunused-variable] int *sdata = smatrix ->data; ^ alig.c:581:9: warning: unused variable 'data1' [-Wunused-variable] char *data1 = dg->seq_p1.sq->data; ^ 13 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -c -o assemble.o assemble.c clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' assemble.c:106:7: warning: unused variable 'ep1' [-Wunused-variable] int ep1 = sp1+dg->length-1; ^ assemble.c:866:8: warning: unused variable 'changed' [-Wunused-variable] char changed; ^ assemble.c:854:25: warning: unused variable 'l2' [-Wunused-variable] int i,j,si,sj,k,l, l1,l2; ^ assemble.c:854:19: warning: unused variable 'l' [-Wunused-variable] int i,j,si,sj,k,l, l1,l2; ^ assemble.c:912:7: warning: unused variable 'survive' [-Wunused-variable] int survive; ^ assemble.c:854:22: warning: unused variable 'l1' [-Wunused-variable] int i,j,si,sj,k,l, l1,l2; ^ assemble.c:1327:16: warning: unused variable 'dg' [-Wunused-variable] struct diag *dg, *tdg; ^ assemble.c:1327:21: warning: unused variable 'tdg' [-Wunused-variable] struct diag *dg, *tdg; ^ 8 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -c -o prob.o prob.c clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' prob.c:158:18: warning: variable 'sq2' is uninitialized when used here [-Wuninitialized] dg.seq_p2.sq = sq2; ^~~ prob.c:126:24: note: initialize the variable 'sq2' to silence this warning struct seq *sq1, *sq2; ^ = NULL prob.c:157:18: warning: variable 'sq1' is uninitialized when used here [-Wuninitialized] dg.seq_p1.sq = sq1; ^~~ prob.c:126:18: note: initialize the variable 'sq1' to silence this warning struct seq *sq1, *sq2; ^ = NULL 2 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -c -o orf.o orf.c clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -D_FORTIFY_SOURCE=2 -c -o translate.o translate.c clang: warning: argument unused during compilation: '--param ssp-buffer-size=4' translate.c:453:1: warning: control may reach end of non-void function [-Wreturn-type] } ^ translate.c:464:1: warning: control may reach end of non-void function [-Wreturn-type] } ^ translate.c:599:1: warning: control may reach end of non-void function [-Wreturn-type] } ^ 3 warnings generated. rm -f ./museq gcc -o ./museq \ ./museq.o ./parameters.o ./io.o ./diag.o ./alig.o ./assemble.o ./prob.o ./orf.o ./translate.o \ -pipe -Wall -lm ./diag.o: In function `find_all_diags': /«PKGBUILDDIR»/diag.c:1845: undefined reference to `find_diags_dialign' /«PKGBUILDDIR»/diag.c:1913: undefined reference to `calc_ov_weight' ./diag.o: In function `old_find_all_diags': /«PKGBUILDDIR»/diag.c:1997: undefined reference to `find_diags_dialign' /«PKGBUILDDIR»/diag.c:2100: undefined reference to `calc_ov_weight' ./assemble.o: In function `simple_aligner': /«PKGBUILDDIR»/assemble.c:532: undefined reference to `align_diag' /«PKGBUILDDIR»/assemble.c:459: undefined reference to `calc_weight' /«PKGBUILDDIR»/assemble.c:476: undefined reference to `calc_weight' ./assemble.o: In function `guided_aligner_rec': /«PKGBUILDDIR»/assemble.c:1128: undefined reference to `confl_diag' clang: error: linker command failed with exit code 1 (use -v to see invocation) make[1]: *** [museq] Error 1 make[1]: Leaving directory `/«PKGBUILDDIR»/source' make: *** [debian/stamp-makefile-build] Error 2 dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120623-1644 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: amd64 Build-Space: 6356 Build-Time: 6 Distribution: unstable Fail-Stage: build Install-Time: 8 Job: dialign-t_1.0.2-2 Package: dialign-t Package-Time: 40 Source-Version: 1.0.2-2 Space: 6356 Status: attempted Version: 1.0.2-2 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120623-1644 Build needed 00:00:40, 6356k disc space DC-Status: Failed 41.008167s