DC-Build-Header: librg-blast-parser-perl 0.03-2 / 2014-09-04 19:37:13 +0000 DC-Task: source:librg-blast-parser-perl version:0.03-2 architecture:any chroot:unstable esttime:142 logfile:/tmp/librg-blast-parser-perl_0.03-2_unstable_clang.log modes:binary-only:parallel:clang DC-Sbuild-call: su user -c 'sbuild -n --apt-update -d unstable -v --chroot-setup-commands=/tmp/switch-to-clang --append-to-version "clang1" --maintainer "Lucas Nussbaum " --uploader "Lucas Nussbaum " librg-blast-parser-perl_0.03-2' sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on ip-172-31-1-196.us-west-2.compute.internal ╔══════════════════════════════════════════════════════════════════════════════╗ ║ librg-blast-parser-perl 0.03-2clang1 (amd64) 04 Sep 2014 19:37 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: librg-blast-parser-perl Version: 0.03-2clang1 Source Version: 0.03-2 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/librg-blast-parser-perl-9INhbp/librg-blast-parser-perl-0.03' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/librg-blast-parser-perl-9INhbp' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/unstable-amd64-sbuild-ce7eeb13-f845-4c22-9a60-b3395ac37c24' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Get:1 http://localhost:9999 unstable InRelease [233 kB] Get:2 http://localhost:9999 unstable/main Sources/DiffIndex [7876 B] Get:3 http://localhost:9999 unstable/main amd64 Packages/DiffIndex [7876 B] Get:4 http://localhost:9999 unstable/main Translation-en/DiffIndex [7876 B] Get:5 http://localhost:9999 unstable/main 2014-09-03-1436.55.pdiff [24.7 kB] Get:6 http://localhost:9999 unstable/main 2014-09-03-2030.01.pdiff [10.5 kB] Get:7 http://localhost:9999 unstable/main 2014-09-04-0229.22.pdiff [7545 B] Get:8 http://localhost:9999 unstable/main 2014-09-04-0831.05.pdiff [14.0 kB] Get:9 http://localhost:9999 unstable/main amd64 2014-09-03-1436.55.pdiff [26.7 kB] Get:10 http://localhost:9999 unstable/main 2014-09-04-0831.05.pdiff [14.0 kB] Get:11 http://localhost:9999 unstable/main amd64 2014-09-03-2030.01.pdiff [12.4 kB] Get:12 http://localhost:9999 unstable/main amd64 2014-09-04-0229.22.pdiff [5892 B] Get:13 http://localhost:9999 unstable/main amd64 2014-09-04-0831.05.pdiff [18.1 kB] Get:14 http://localhost:9999 unstable/main 2014-09-03-1436.55.pdiff [3960 B] Get:15 http://localhost:9999 unstable/main 2014-09-03-2030.01.pdiff [1010 B] Get:16 http://localhost:9999 unstable/main 2014-09-04-0229.22.pdiff [648 B] Get:17 http://localhost:9999 unstable/main 2014-09-04-0831.05.pdiff [61 B] Get:18 http://localhost:9999 unstable/main amd64 2014-09-04-0831.05.pdiff [18.1 kB] Get:19 http://localhost:9999 unstable/main 2014-09-04-0831.05.pdiff [61 B] Fetched 382 kB in 5s (69.1 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: binutils 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 3310 kB of archives. After this operation, 50.2 kB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main binutils amd64 2.24.51.20140903-1 [3310 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 3310 kB in 0s (27.5 MB/s) (Reading database ... 15135 files and directories currently installed.) Preparing to unpack .../binutils_2.24.51.20140903-1_amd64.deb ... Unpacking binutils (2.24.51.20140903-1) over (2.24.51.20140818-1) ... Setting up binutils (2.24.51.20140903-1) ... Processing triggers for libc-bin (2.19-10) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... NOTICE: 'librg-blast-parser-perl' packaging is maintained in the 'Svn' version control system at: svn://anonscm.debian.org/debian-med/trunk/packages/rostlab/librg-blast-parser-perl/trunk/ Need to get 18.7 kB of source archives. Get:1 http://localhost:9999/debian/ unstable/main librg-blast-parser-perl 0.03-2 (dsc) [2197 B] Get:2 http://localhost:9999/debian/ unstable/main librg-blast-parser-perl 0.03-2 (tar) [11.6 kB] Get:3 http://localhost:9999/debian/ unstable/main librg-blast-parser-perl 0.03-2 (diff) [4880 B] Fetched 18.7 kB in 1s (13.8 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... + CLANG_VERSION=3.5 + echo 'Install of clang-3.5' Install of clang-3.5 + apt-get update Hit http://localhost:9999 unstable InRelease Get:1 http://localhost:9999 unstable/main Sources/DiffIndex [7876 B] Get:2 http://localhost:9999 unstable/main amd64 Packages/DiffIndex [7876 B] Get:3 http://localhost:9999 unstable/main Translation-en/DiffIndex [7876 B] Fetched 23.6 kB in 1s (12.1 kB/s) Reading package lists... + apt-get install --yes --no-install-recommends --force-yes clang-3.5 Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: libbsd0 libclang-common-3.5-dev libclang1-3.5 libedit2 libffi6 libllvm3.5 libobjc-4.9-dev libobjc4 Suggested packages: gnustep gnustep-devel clang-3.5-doc Recommended packages: llvm-3.5-dev python The following NEW packages will be installed: clang-3.5 libbsd0 libclang-common-3.5-dev libclang1-3.5 libedit2 libffi6 libllvm3.5 libobjc-4.9-dev libobjc4 0 upgraded, 9 newly installed, 0 to remove and 0 not upgraded. Need to get 33.3 MB of archives. After this operation, 132 MB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main libbsd0 amd64 0.7.0-2 [67.9 kB] Get:2 http://localhost:9999/debian/ unstable/main libedit2 amd64 3.1-20140620-2 [85.1 kB] Get:3 http://localhost:9999/debian/ unstable/main libffi6 amd64 3.1-2 [19.8 kB] Get:4 http://localhost:9999/debian/ unstable/main libllvm3.5 amd64 1:3.5-1 [7609 kB] Get:5 http://localhost:9999/debian/ unstable/main libobjc4 amd64 4.9.1-12 [112 kB] Get:6 http://localhost:9999/debian/ unstable/main libobjc-4.9-dev amd64 4.9.1-12 [372 kB] Get:7 http://localhost:9999/debian/ unstable/main libclang1-3.5 amd64 1:3.5-1 [3628 kB] Get:8 http://localhost:9999/debian/ unstable/main libclang-common-3.5-dev amd64 1:3.5-1 [677 kB] Get:9 http://localhost:9999/debian/ unstable/main clang-3.5 amd64 1:3.5-1 [20.7 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 33.3 MB in 1s (30.7 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... 15135 files and directories currently installed.) Preparing to unpack .../libbsd0_0.7.0-2_amd64.deb ... Unpacking libbsd0:amd64 (0.7.0-2) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../libedit2_3.1-20140620-2_amd64.deb ... Unpacking libedit2:amd64 (3.1-20140620-2) ... Selecting previously unselected package libffi6:amd64. Preparing to unpack .../libffi6_3.1-2_amd64.deb ... Unpacking libffi6:amd64 (3.1-2) ... Selecting previously unselected package libllvm3.5:amd64. Preparing to unpack .../libllvm3.5_1%3a3.5-1_amd64.deb ... Unpacking libllvm3.5:amd64 (1:3.5-1) ... Selecting previously unselected package libobjc4:amd64. Preparing to unpack .../libobjc4_4.9.1-12_amd64.deb ... Unpacking libobjc4:amd64 (4.9.1-12) ... Selecting previously unselected package libobjc-4.9-dev:amd64. Preparing to unpack .../libobjc-4.9-dev_4.9.1-12_amd64.deb ... Unpacking libobjc-4.9-dev:amd64 (4.9.1-12) ... Selecting previously unselected package libclang1-3.5:amd64. Preparing to unpack .../libclang1-3.5_1%3a3.5-1_amd64.deb ... Unpacking libclang1-3.5:amd64 (1:3.5-1) ... Selecting previously unselected package libclang-common-3.5-dev. Preparing to unpack .../libclang-common-3.5-dev_1%3a3.5-1_amd64.deb ... Unpacking libclang-common-3.5-dev (1:3.5-1) ... Selecting previously unselected package clang-3.5. Preparing to unpack .../clang-3.5_1%3a3.5-1_amd64.deb ... Unpacking clang-3.5 (1:3.5-1) ... Setting up libbsd0:amd64 (0.7.0-2) ... Setting up libedit2:amd64 (3.1-20140620-2) ... Setting up libffi6:amd64 (3.1-2) ... Setting up libllvm3.5:amd64 (1:3.5-1) ... Setting up libobjc4:amd64 (4.9.1-12) ... Setting up libobjc-4.9-dev:amd64 (4.9.1-12) ... Setting up libclang1-3.5:amd64 (1:3.5-1) ... Setting up libclang-common-3.5-dev (1:3.5-1) ... Setting up clang-3.5 (1:3.5-1) ... Processing triggers for libc-bin (2.19-10) ... + echo 'Replace gcc, g++ & cpp by clang' Replace gcc, g++ & cpp by clang + VERSIONS='4.6 4.7 4.8 4.9' + cd /usr/bin + for VERSION in '$VERSIONS' + rm -f g++-4.6 gcc-4.6 cpp-4.6 gcc + ln -s clang++-3.5 g++-4.6 + ln -s clang-3.5 gcc-4.6 + ln -s clang-3.5 cpp-4.6 + ln -s clang-3.5 gcc + echo 'gcc-4.6 hold' + dpkg --set-selections + echo 'g++-4.6 hold' + dpkg --set-selections + for VERSION in '$VERSIONS' + rm -f g++-4.7 gcc-4.7 cpp-4.7 gcc + ln -s clang++-3.5 g++-4.7 + ln -s clang-3.5 gcc-4.7 + ln -s clang-3.5 cpp-4.7 + ln -s clang-3.5 gcc + echo 'gcc-4.7 hold' + dpkg --set-selections + echo 'g++-4.7 hold' + dpkg --set-selections + for VERSION in '$VERSIONS' + rm -f g++-4.8 gcc-4.8 cpp-4.8 gcc + ln -s clang++-3.5 g++-4.8 + ln -s clang-3.5 gcc-4.8 + ln -s clang-3.5 cpp-4.8 + ln -s clang-3.5 gcc + echo 'gcc-4.8 hold' + dpkg --set-selections dpkg: warning: package not in database at line 1: gcc-4.8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method + echo 'g++-4.8 hold' + dpkg --set-selections dpkg: warning: package not in database at line 1: g++-4.8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method + for VERSION in '$VERSIONS' + rm -f g++-4.9 gcc-4.9 cpp-4.9 gcc + ln -s clang++-3.5 g++-4.9 + ln -s clang-3.5 gcc-4.9 + ln -s clang-3.5 cpp-4.9 + ln -s clang-3.5 gcc + echo 'gcc-4.9 hold' + dpkg --set-selections + echo 'g++-4.9 hold' + dpkg --set-selections + cd - /«BUILDDIR» + echo 'Check if gcc, g++ & cpp are actually clang' Check if gcc, g++ & cpp are actually clang + gcc --version + grep clang + cpp --version + grep clang + g++ --version + grep clang 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-OJBHLj/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/818 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 ... 15338 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, init, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit-utils, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), libextutils-xspp-perl, librostlab-blast0-dev, librostlab3-dev Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, init, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), libextutils-xspp-perl, librostlab-blast0-dev, librostlab3-dev dpkg-deb: building package `sbuild-build-depends-librg-blast-parser-perl-dummy' in `/«BUILDDIR»/resolver-jp_aHj/apt_archive/sbuild-build-depends-librg-blast-parser-perl-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install librg-blast-parser-perl 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 debhelper file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libextutils-xspp-perl libglib2.0-0 libmagic1 libpipeline1 librostlab-blast0 librostlab-blast0-dev librostlab3 librostlab3-dev libunistring0 libxml2 man-db po-debconf Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff librostlab-blast-doc librostlab-doc less www-browser libmail-box-perl Recommended packages: curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: bsdmainutils debhelper file gettext gettext-base groff-base intltool-debian libasprintf0c2 libcroco3 libextutils-xspp-perl libglib2.0-0 libmagic1 libpipeline1 librostlab-blast0 librostlab-blast0-dev librostlab3 librostlab3-dev libunistring0 libxml2 man-db po-debconf sbuild-build-depends-librg-blast-parser-perl-dummy 0 upgraded, 22 newly installed, 0 to remove and 0 not upgraded. Need to get 9126 kB/9127 kB of archives. After this operation, 30.2 MB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main libpipeline1 amd64 1.3.0-1 [25.8 kB] Get:2 http://localhost:9999/debian/ unstable/main groff-base amd64 1.22.2-7 [1142 kB] Get:3 http://localhost:9999/debian/ unstable/main bsdmainutils amd64 9.0.5 [211 kB] Get:4 http://localhost:9999/debian/ unstable/main man-db amd64 2.6.7.1-1 [990 kB] Get:5 http://localhost:9999/debian/ unstable/main libasprintf0c2 amd64 0.19.2-2 [30.8 kB] Get:6 http://localhost:9999/debian/ unstable/main libmagic1 amd64 1:5.19-1 [237 kB] Get:7 http://localhost:9999/debian/ unstable/main libxml2 amd64 2.9.1+dfsg1-4 [797 kB] Get:8 http://localhost:9999/debian/ unstable/main libglib2.0-0 amd64 2.40.0-5 [2421 kB] Get:9 http://localhost:9999/debian/ unstable/main libcroco3 amd64 0.6.8-3 [135 kB] Get:10 http://localhost:9999/debian/ unstable/main libunistring0 amd64 0.9.3-5.2 [283 kB] Get:11 http://localhost:9999/debian/ unstable/main file amd64 1:5.19-1 [58.0 kB] Get:12 http://localhost:9999/debian/ unstable/main gettext-base amd64 0.19.2-2 [120 kB] Get:13 http://localhost:9999/debian/ unstable/main gettext amd64 0.19.2-2 [1237 kB] Get:14 http://localhost:9999/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:15 http://localhost:9999/debian/ unstable/main po-debconf all 1.0.16+nmu3 [220 kB] Get:16 http://localhost:9999/debian/ unstable/main debhelper all 9.20140817 [814 kB] Get:17 http://localhost:9999/debian/ unstable/main libextutils-xspp-perl all 0.1800-1 [191 kB] Get:18 http://localhost:9999/debian/ unstable/main librostlab-blast0 amd64 1.0.1-3 [76.9 kB] Get:19 http://localhost:9999/debian/ unstable/main librostlab-blast0-dev amd64 1.0.1-3 [88.2 kB] Get:20 http://localhost:9999/debian/ unstable/main librostlab3 amd64 1.0.20-4 [5862 B] Get:21 http://localhost:9999/debian/ unstable/main librostlab3-dev amd64 1.0.20-4 [12.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9126 kB in 2s (3353 kB/s) Selecting previously unselected package libpipeline1:amd64. (Reading database ... 15338 files and directories currently installed.) Preparing to unpack .../libpipeline1_1.3.0-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.3.0-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../groff-base_1.22.2-7_amd64.deb ... Unpacking groff-base (1.22.2-7) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../bsdmainutils_9.0.5_amd64.deb ... Unpacking bsdmainutils (9.0.5) ... Selecting previously unselected package man-db. Preparing to unpack .../man-db_2.6.7.1-1_amd64.deb ... Unpacking man-db (2.6.7.1-1) ... Selecting previously unselected package libasprintf0c2:amd64. Preparing to unpack .../libasprintf0c2_0.19.2-2_amd64.deb ... Unpacking libasprintf0c2:amd64 (0.19.2-2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../libmagic1_1%3a5.19-1_amd64.deb ... Unpacking libmagic1:amd64 (1:5.19-1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../libxml2_2.9.1+dfsg1-4_amd64.deb ... Unpacking libxml2:amd64 (2.9.1+dfsg1-4) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../libglib2.0-0_2.40.0-5_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.40.0-5) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../libcroco3_0.6.8-3_amd64.deb ... Unpacking libcroco3:amd64 (0.6.8-3) ... Selecting previously unselected package libunistring0:amd64. Preparing to unpack .../libunistring0_0.9.3-5.2_amd64.deb ... Unpacking libunistring0:amd64 (0.9.3-5.2) ... Selecting previously unselected package file. Preparing to unpack .../file_1%3a5.19-1_amd64.deb ... Unpacking file (1:5.19-1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../gettext-base_0.19.2-2_amd64.deb ... Unpacking gettext-base (0.19.2-2) ... Selecting previously unselected package gettext. Preparing to unpack .../gettext_0.19.2-2_amd64.deb ... Unpacking gettext (0.19.2-2) ... 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+nmu3_all.deb ... Unpacking po-debconf (1.0.16+nmu3) ... Selecting previously unselected package debhelper. Preparing to unpack .../debhelper_9.20140817_all.deb ... Unpacking debhelper (9.20140817) ... Selecting previously unselected package libextutils-xspp-perl. Preparing to unpack .../libextutils-xspp-perl_0.1800-1_all.deb ... Unpacking libextutils-xspp-perl (0.1800-1) ... Selecting previously unselected package librostlab-blast0. Preparing to unpack .../librostlab-blast0_1.0.1-3_amd64.deb ... Unpacking librostlab-blast0 (1.0.1-3) ... Selecting previously unselected package librostlab-blast0-dev. Preparing to unpack .../librostlab-blast0-dev_1.0.1-3_amd64.deb ... Unpacking librostlab-blast0-dev (1.0.1-3) ... Selecting previously unselected package librostlab3. Preparing to unpack .../librostlab3_1.0.20-4_amd64.deb ... Unpacking librostlab3 (1.0.20-4) ... Selecting previously unselected package librostlab3-dev. Preparing to unpack .../librostlab3-dev_1.0.20-4_amd64.deb ... Unpacking librostlab3-dev (1.0.20-4) ... Selecting previously unselected package sbuild-build-depends-librg-blast-parser-perl-dummy. Preparing to unpack .../sbuild-build-depends-librg-blast-parser-perl-dummy.deb ... Unpacking sbuild-build-depends-librg-blast-parser-perl-dummy (0.invalid.0) ... Setting up libpipeline1:amd64 (1.3.0-1) ... Setting up groff-base (1.22.2-7) ... Setting up bsdmainutils (9.0.5) ... 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 (2.6.7.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libasprintf0c2:amd64 (0.19.2-2) ... Setting up libmagic1:amd64 (1:5.19-1) ... Setting up libxml2:amd64 (2.9.1+dfsg1-4) ... Setting up libglib2.0-0:amd64 (2.40.0-5) ... No schema files found: doing nothing. Setting up libcroco3:amd64 (0.6.8-3) ... Setting up libunistring0:amd64 (0.9.3-5.2) ... Setting up file (1:5.19-1) ... Setting up gettext-base (0.19.2-2) ... Setting up gettext (0.19.2-2) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu3) ... Setting up debhelper (9.20140817) ... Setting up libextutils-xspp-perl (0.1800-1) ... Setting up librostlab-blast0 (1.0.1-3) ... Setting up librostlab-blast0-dev (1.0.1-3) ... Setting up librostlab3 (1.0.20-4) ... Setting up librostlab3-dev (1.0.20-4) ... Setting up sbuild-build-depends-librg-blast-parser-perl-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.19-10) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 2.6.32-5-xen-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.24.51.20140903-1 dpkg-dev_1.17.13 g++-4.6_4.6.4-7 g++-4.9_4.9.1-12 gcc-4.6_4.6.4-7 gcc-4.7_4.7.4-3 gcc-4.9_4.9.1-12 libc6-dev_2.19-10 libstdc++-4.9-dev_4.9.1-12 libstdc++6_4.9.1-12 libstdc++6-4.6-dev_4.6.4-7 linux-libc-dev_3.14.15-2 Package versions: acl_2.2.52-1.1 adduser_3.113+nmu3 apt_1.0.7 base-files_7.5 base-passwd_3.5.35 bash_4.3-9 binutils_2.24.51.20140903-1 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.8 build-essential_11.7 bzip2_1.0.6-7 clang-3.5_1:3.5-1 coreutils_8.23-2 cpp_4:4.9.1-3 cpp-4.6_4.6.4-7 cpp-4.7_4.7.4-3 cpp-4.9_4.9.1-12 dash_0.5.7-4 dbus_1.8.6-2 debconf_1.5.53 debconf-i18n_1.5.53 debfoster_2.7-2 debhelper_9.20140817 debian-archive-keyring_2014.1 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libisl10_0.12.2-2 libitm1_4.9.1-12 libkmod2_18-1 libllvm3.5_1:3.5-1 liblocale-gettext-perl_1.05-8+b1 liblog-message-perl_0.8-1 liblog-message-simple-perl_0.10-2 liblsan0_4.9.1-12 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.19-1 libmodule-build-perl_0.420800-1 libmodule-pluggable-perl_5.1-1 libmodule-signature-perl_0.73-1 libmount1_2.20.1-5.8 libmpc2_0.9-4 libmpc3_1.0.2-1 libmpfr4_3.1.2-1 libmro-compat-perl_0.12-1 libncurses5_5.9+20140712-2 libncursesw5_5.9+20140712-2 libobjc-4.9-dev_4.9.1-12 libobjc4_4.9.1-12 libpackage-constants-perl_0.04-1 libpam-cap_1:2.24-4 libpam-modules_1.1.8-3.1 libpam-modules-bin_1.1.8-3.1 libpam-runtime_1.1.8-3.1 libpam-systemd_208-8 libpam0g_1.1.8-3.1 libparams-util-perl_1.07-2+b1 libpcre3_1:8.35-3 libpipeline1_1.3.0-1 libpod-latex-perl_0.61-1 libpod-readme-perl_0.11-1 libppl-c4_1:1.1-3 libppl13_1:1.1-3 libprocps3_1:3.3.9-7 libquadmath0_4.9.1-12 libreadline6_6.3-8 libregexp-common-perl_2013031301-1 librostlab-blast0_1.0.1-3 librostlab-blast0-dev_1.0.1-3 librostlab3_1.0.20-4 librostlab3-dev_1.0.20-4 libselinux1_2.3-2 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-2 libslang2_2.2.4-17 libsoftware-license-perl_0.103010-1 libss2_1.42.12-1 libstdc++-4.9-dev_4.9.1-12 libstdc++6_4.9.1-12 libstdc++6-4.6-dev_4.6.4-7 libsub-exporter-perl_0.986-1 libsub-install-perl_0.928-1 libswitch-perl_2.17-1 libsystemd-daemon0_208-8 libsystemd-journal0_208-8 libsystemd-login0_208-8 libterm-ui-perl_0.42-1 libtext-charwidth-perl_0.04-7+b3 libtext-iconv-perl_1.7-5+b2 libtext-soundex-perl_3.4-1+b2 libtext-template-perl_1.46-1 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_2.3000-2 libtinfo5_5.9+20140712-2 libtsan0_4.9.1-12 libubsan0_4.9.1-12 libudev1_208-8 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-24 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.8 libwrap0_7.6.q-25 libxml2_2.9.1+dfsg1-4 linux-libc-dev_3.14.15-2 login_1:4.2-2+b1 lsb-base_4.1+Debian13 make_4.0-8 man-db_2.6.7.1-1 mawk_1.3.3-17 mount_2.20.1-5.8 multiarch-support_2.19-10 ncurses-base_5.9+20140712-2 ncurses-bin_5.9+20140712-2 passwd_1:4.2-2+b1 patch_2.7.1-6 perl_5.20.0-6 perl-base_5.20.0-6 perl-modules_5.20.0-6 po-debconf_1.0.16+nmu3 procps_1:3.3.9-7 psmisc_22.21-2 readline-common_6.3-8 rename_0.20-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-librg-blast-parser-perl-dummy_0.invalid.0 sed_4.2.2-4 sensible-utils_0.0.9 startpar_0.59-3 sudo_1.8.9p5-1 systemd_208-8 systemd-sysv_208-8 sysv-rc_2.88dsf-53.4 sysvinit_2.88dsf-53.4 sysvinit-utils_2.88dsf-53.4 tar_1.27.1-2 tcpd_7.6.q-25 tzdata_2014g-1 ucf_3.0030 udev_208-8 util-linux_2.20.1-5.8 vim_2:7.4.430-1 vim-common_2:7.4.430-1 vim-runtime_2:7.4.430-1 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-2 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Sun Apr 27 15:43:13 2014 UTC using RSA key ID D1C646D1 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./librg-blast-parser-perl_0.03-2.dsc dpkg-source: info: extracting librg-blast-parser-perl in librg-blast-parser-perl-0.03 dpkg-source: info: unpacking librg-blast-parser-perl_0.03.orig.tar.gz dpkg-source: info: unpacking librg-blast-parser-perl_0.03-2.debian.tar.xz Check disc space ──────────────── Sufficient free space for build Hack binNMU version ─────────────────── Created changelog entry for binNMU version 0.03-2clang1 User Environment ──────────────── DEB_BUILD_OPTIONS=parallel=10 HOME=/sbuild-nonexistent LOGNAME=user PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1000 SCHROOT_GROUP=user SCHROOT_SESSION_ID=unstable-amd64-sbuild-ce7eeb13-f845-4c22-9a60-b3395ac37c24 SCHROOT_UID=1000 SCHROOT_USER=user SHELL=/bin/sh USER=user dpkg-buildpackage ───────────────── dpkg-buildpackage: source package librg-blast-parser-perl dpkg-buildpackage: source version 0.03-2clang1 dpkg-buildpackage: source distribution unstable dpkg-source --before-build librg-blast-parser-perl-0.03 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean dh clean --parallel dh_testdir -O--parallel dh_auto_clean -O--parallel dh_clean -O--parallel debian/rules build-arch dh build-arch --parallel dh_testdir -a -O--parallel debian/rules override_dh_auto_configure make[1]: Entering directory '/«PKGBUILDDIR»' dh_auto_configure -- OPTIMIZE="-D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security" LD="'cc' -Wl,-z,relro" Checking if your kit is complete... Warning: the following files are missing in your kit: Parser.bs Parser.c Parser.o t/RG-Blast-Parser.t Please inform the author. Generating a Unix-style Makefile Writing Makefile for RG::Blast::Parser Writing MYMETA.yml and MYMETA.json make[1]: Leaving directory '/«PKGBUILDDIR»' dh_auto_build -a -O--parallel make[1]: Entering directory '/«PKGBUILDDIR»' /usr/bin/perl /usr/share/perl/5.20/ExtUtils/xsubpp -C++ -hiertype -noprototypes -typemap /usr/share/perl/5.20/ExtUtils/typemap -typemap perlobject.map -typemap typemap Parser.xs > Parser.xsc && mv Parser.xsc Parser.c Running Mkbootstrap for RG::Blast::Parser () cp lib/RG/Blast/Parser.pm blib/lib/RG/Blast/Parser.pm AutoSplitting blib/lib/RG/Blast/Parser.pm (blib/lib/auto/RG/Blast/Parser) chmod 644 Parser.bs g++ -c -I. -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DVERSION=\"0.03\" -DXS_VERSION=\"0.03\" -fPIC "-I/usr/lib/x86_64-linux-gnu/perl/5.20/CORE" Parser.c clang: warning: treating 'c' input as 'c++' when in C++ mode, this behavior is deprecated In file included from Parser.xs:15: /usr/include/rostlab/blast-parser-driver.h:61:12: error: 'token_type' (aka 'rostlab::blast::parser::token::yytokentype') is not a class, namespace, or scoped enumeration friend YY_DECL_FRIEND; ^ /usr/include/rostlab/blast-parser-driver.h:39:27: note: expanded from macro 'YY_DECL_FRIEND' rostlab::blast::parser::token_type \ ^ Parser.c:617:1: warning: duplicate 'extern' declaration specifier [-Wduplicate-decl-specifier] XS_EXTERNAL(boot_RG__Blast__Parser); /* prototype to pass -Wmissing-prototypes */ ^ /usr/lib/x86_64-linux-gnu/perl/5.20/CORE/XSUB.h:145:33: note: expanded from macro 'XS_EXTERNAL' # define XS_EXTERNAL(name) extern "C" XSPROTO(name) ^ In file included from Parser.xs:15: In file included from /usr/include/rostlab/blast-parser-driver.h:26: In file included from blast-parser-parser.ypp:26: In file included from /usr/include/rostlab/blast-result.h:25: /usr/include/rostlab/aux_functions.h:186:43: error: call to function 'operator<<' that is neither visible in the template definition nor found by argument-dependent lookup { if( v_i != v.begin() ) os << ", "; os << *v_i; } ^ /usr/include/rostlab/blast-result.h:237:90: note: in instantiation of function template specialization 'rostlab::operator<< >' requested here __os << "n = " << __r.name << " d = " << __r.desc << " Length = " << __r.length << " " << __r.hsps; ^ /usr/include/rostlab/blast-result.h:224:19: note: 'operator<<' should be declared prior to the call site or in namespace 'rostlab::blast' std::ostream& operator<<( std::ostream& __os, const rostlab::blast::hsp& __r ) ^ In file included from Parser.xs:15: In file included from /usr/include/rostlab/blast-parser-driver.h:26: In file included from blast-parser-parser.ypp:26: In file included from /usr/include/rostlab/blast-result.h:25: /usr/include/rostlab/aux_functions.h:186:43: error: call to function 'operator<<' that is neither visible in the template definition nor found by argument-dependent lookup { if( v_i != v.begin() ) os << ", "; os << *v_i; } ^ /usr/include/rostlab/blast-result.h:245:87: note: in instantiation of function template specialization 'rostlab::operator<< >' requested here __os << __r.blast_version << "\n\nreferences: " << __r.references << "\n\nrounds: " << __r.rounds << "\n\nn = " << __r.q_name << " d = " << __r.q_desc << " (" << __r.q_length << ^ /usr/include/rostlab/blast-result.h:208:19: note: 'operator<<' should be declared prior to the call site or in namespace 'rostlab::blast' std::ostream& operator<<( std::ostream& __os, const rostlab::blast::round& __r ) ^ In file included from Parser.xs:15: In file included from /usr/include/rostlab/blast-parser-driver.h:26: In file included from blast-parser-parser.ypp:26: In file included from /usr/include/rostlab/blast-result.h:25: /usr/include/rostlab/aux_functions.h:186:43: error: call to function 'operator<<' that is neither visible in the template definition nor found by argument-dependent lookup { if( v_i != v.begin() ) os << ", "; os << *v_i; } ^ /usr/include/rostlab/blast-result.h:246:143: note: in instantiation of function template specialization 'rostlab::operator<< >' requested here " letters)\n\nDatabase: " << __r.db_name << " " << __r.db_nseq << " sequences; " << __r.db_nletter << " total letters\n\none-line desc: " << __r.onelines << "\n\n" << ^ /usr/include/rostlab/blast-result.h:216:19: note: 'operator<<' should be declared prior to the call site or in namespace 'rostlab::blast' std::ostream& operator<<( std::ostream& __os, const rostlab::blast::oneline& __r ) ^ In file included from Parser.xs:15: In file included from /usr/include/rostlab/blast-parser-driver.h:26: In file included from blast-parser-parser.ypp:26: In file included from /usr/include/rostlab/blast-result.h:25: /usr/include/rostlab/aux_functions.h:186:43: error: call to function 'operator<<' that is neither visible in the template definition nor found by argument-dependent lookup { if( v_i != v.begin() ) os << ", "; os << *v_i; } ^ /usr/include/rostlab/blast-result.h:247:59: note: in instantiation of function template specialization 'rostlab::operator<< >' requested here ( __r.converged ? "CONVERGED!\n\n" : "" ) << "hits: " << __r.hits << "\n\n" << __r.tail; ^ /usr/include/rostlab/blast-result.h:235:19: note: 'operator<<' should be declared prior to the call site or in namespace 'rostlab::blast' std::ostream& operator<<( std::ostream& __os, const rostlab::blast::hit& __r ) ^ 1 warning and 5 errors generated. make[1]: *** [Parser.o] Error 1 Makefile:343: recipe for target 'Parser.o' failed make[1]: Leaving directory '/«PKGBUILDDIR»' dh_auto_build: make -j10 returned exit code 2 make: *** [build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 debian/rules:16: recipe for target 'build-arch' failed ──────────────────────────────────────────────────────────────────────────────── Build finished at 20140904-1938 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Build Architecture: amd64 Build-Space: 236 Build-Time: 6 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 11 Job: librg-blast-parser-perl_0.03-2 Machine Architecture: amd64 Package: librg-blast-parser-perl Package-Time: 49 Source-Version: 0.03-2 Space: 236 Status: attempted Version: 0.03-2clang1 ──────────────────────────────────────────────────────────────────────────────── Finished at 20140904-1938 Build needed 00:00:49, 236k disc space DC-Status: Failed 50.297975604s DC-Time-Estimation: 50.297975604 versus expected 142 (r/m: 1.8231752529759329 ; m: 50.297975604)