DC-Build-Header: librg-blast-parser-perl 0.03-4 / 2017-07-06 21:10:33 +0000 DC-Task: type:rebuild-binarch-only source:librg-blast-parser-perl version:0.03-4 chroot:unstable esttime:23 logfile:/tmp/librg-blast-parser-perl_0.03-4_unstable_clang3.9.log modes:clang:binarch-only DC-Sbuild-call: su user42 -c 'sbuild -n --arch-any --apt-update -d unstable -v --chroot-setup-commands=/tmp/clang librg-blast-parser-perl_0.03-4' sbuild (Debian sbuild) 0.73.0 (23 Dec 2016) on ip-172-31-42-111.eu-central-1.compute.internal +==============================================================================+ | librg-blast-parser-perl 0.03-4 (amd64) Thu, 06 Jul 2017 21:10:33 +0000 | +==============================================================================+ Package: librg-blast-parser-perl Version: 0.03-4 Source Version: 0.03-4 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-022d0092-ea62-4d1f-9c0a-36af10afc3bf' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /tmp/clang ---------- + echo 'Entering customization script...' Entering customization script... + CLANG_VERSION=3.9 + echo 'Install of clang-3.9' Install of clang-3.9 + apt-get update Hit:1 http://127.0.0.1:9999/debian unstable InRelease Get:2 http://127.0.0.1:9999/debian unstable/main Translation-en [5730 kB] Fetched 5730 kB in 1s (3830 kB/s) Reading package lists... + apt-get install --yes --no-install-recommends --force-yes clang-3.9 Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libbsd0 libclang-common-3.9-dev libclang1-3.9 libedit2 libjsoncpp1 libllvm3.9 libncurses5 libobjc-6-dev libobjc4 Suggested packages: gnustep gnustep-devel clang-3.9-doc Recommended packages: llvm-3.9-dev python libgpm2 The following NEW packages will be installed: clang-3.9 libbsd0 libclang-common-3.9-dev libclang1-3.9 libedit2 libjsoncpp1 libllvm3.9 libncurses5 libobjc-6-dev libobjc4 0 upgraded, 10 newly installed, 0 to remove and 0 not upgraded. Need to get 57.7 MB of archives. After this operation, 251 MB of additional disk space will be used. Get:1 http://127.0.0.1:9999/debian unstable/main amd64 libbsd0 amd64 0.8.5-1 [89.6 kB] Get:2 http://127.0.0.1:9999/debian unstable/main amd64 libncurses5 amd64 6.0+20161126-1 [93.4 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 libedit2 amd64 3.1-20170329-1 [85.2 kB] Get:4 http://127.0.0.1:9999/debian unstable/main amd64 libllvm3.9 amd64 1:3.9.1-10 [11.3 MB] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 libclang1-3.9 amd64 1:3.9.1-10 [5875 kB] Get:6 http://127.0.0.1:9999/debian unstable/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get:7 http://127.0.0.1:9999/debian unstable/main amd64 libobjc4 amd64 7.1.0-9 [51.0 kB] Get:8 http://127.0.0.1:9999/debian unstable/main amd64 libobjc-6-dev amd64 6.4.0-1 [197 kB] Get:9 http://127.0.0.1:9999/debian unstable/main amd64 libclang-common-3.9-dev amd64 1:3.9.1-10 [2573 kB] Get:10 http://127.0.0.1:9999/debian unstable/main amd64 clang-3.9 amd64 1:3.9.1-10 [37.4 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 57.7 MB in 0s (94.4 MB/s) Selecting previously unselected package libbsd0:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 9711 files and directories currently installed.) Preparing to unpack .../0-libbsd0_0.8.5-1_amd64.deb ... Unpacking libbsd0:amd64 (0.8.5-1) ... Selecting previously unselected package libncurses5:amd64. Preparing to unpack .../1-libncurses5_6.0+20161126-1_amd64.deb ... Unpacking libncurses5:amd64 (6.0+20161126-1) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../2-libedit2_3.1-20170329-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20170329-1) ... Selecting previously unselected package libllvm3.9:amd64. Preparing to unpack .../3-libllvm3.9_1%3a3.9.1-10_amd64.deb ... Unpacking libllvm3.9:amd64 (1:3.9.1-10) ... Selecting previously unselected package libclang1-3.9:amd64. Preparing to unpack .../4-libclang1-3.9_1%3a3.9.1-10_amd64.deb ... Unpacking libclang1-3.9:amd64 (1:3.9.1-10) ... Selecting previously unselected package libjsoncpp1:amd64. Preparing to unpack .../5-libjsoncpp1_1.7.4-3_amd64.deb ... Unpacking libjsoncpp1:amd64 (1.7.4-3) ... Selecting previously unselected package libobjc4:amd64. Preparing to unpack .../6-libobjc4_7.1.0-9_amd64.deb ... Unpacking libobjc4:amd64 (7.1.0-9) ... Selecting previously unselected package libobjc-6-dev:amd64. Preparing to unpack .../7-libobjc-6-dev_6.4.0-1_amd64.deb ... Unpacking libobjc-6-dev:amd64 (6.4.0-1) ... Selecting previously unselected package libclang-common-3.9-dev. Preparing to unpack .../8-libclang-common-3.9-dev_1%3a3.9.1-10_amd64.deb ... Unpacking libclang-common-3.9-dev (1:3.9.1-10) ... Selecting previously unselected package clang-3.9. Preparing to unpack .../9-clang-3.9_1%3a3.9.1-10_amd64.deb ... Unpacking clang-3.9 (1:3.9.1-10) ... Setting up libncurses5:amd64 (6.0+20161126-1) ... Setting up libobjc4:amd64 (7.1.0-9) ... Setting up libbsd0:amd64 (0.8.5-1) ... Processing triggers for libc-bin (2.24-12) ... Setting up libobjc-6-dev:amd64 (6.4.0-1) ... Setting up libjsoncpp1:amd64 (1.7.4-3) ... Setting up libedit2:amd64 (3.1-20170329-1) ... Setting up libllvm3.9:amd64 (1:3.9.1-10) ... Setting up libclang-common-3.9-dev (1:3.9.1-10) ... Setting up libclang1-3.9:amd64 (1:3.9.1-10) ... Setting up clang-3.9 (1:3.9.1-10) ... Processing triggers for libc-bin (2.24-12) ... W: --force-yes is deprecated, use one of the options starting with --allow instead. + echo 'Replace gcc, g++ & cpp by clang' Replace gcc, g++ & cpp by clang + VERSIONS='4.6 4.7 4.8 4.9 5 6 7' + cd /usr/bin + for VERSION in $VERSIONS + rm -f g++-4.6 gcc-4.6 cpp-4.6 gcc + ln -s clang++-3.9 g++-4.6 + ln -s clang-3.9 gcc-4.6 + ln -s clang-3.9 cpp-4.6 + ln -s clang-3.9 gcc + echo 'gcc-4.6 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.6 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.6 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.6 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-4.7 gcc-4.7 cpp-4.7 gcc + ln -s clang++-3.9 g++-4.7 + ln -s clang-3.9 gcc-4.7 + ln -s clang-3.9 cpp-4.7 + ln -s clang-3.9 gcc + echo 'gcc-4.7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-4.8 gcc-4.8 cpp-4.8 gcc + ln -s clang++-3.9 g++-4.8 + ln -s clang-3.9 gcc-4.8 + ln -s clang-3.9 cpp-4.8 + ln -s clang-3.9 gcc + echo 'gcc-4.8 hold' + dpkg --set-selections dpkg: warning: package not in status nor available 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; please see the FAQ + echo 'g++-4.8 hold' + dpkg --set-selections dpkg: warning: package not in status nor available 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; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-4.9 gcc-4.9 cpp-4.9 gcc + ln -s clang++-3.9 g++-4.9 + ln -s clang-3.9 gcc-4.9 + ln -s clang-3.9 cpp-4.9 + ln -s clang-3.9 gcc + echo 'gcc-4.9 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-4.9 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-4.9 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-4.9 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + for VERSION in $VERSIONS + rm -f g++-5 gcc-5 cpp-5 gcc + ln -s clang++-3.9 g++-5 + ln -s clang-3.9 gcc-5 + ln -s clang-3.9 cpp-5 + ln -s clang-3.9 gcc + echo 'gcc-5 hold' + dpkg --set-selections + echo 'g++-5 hold' + dpkg --set-selections + for VERSION in $VERSIONS + rm -f g++-6 gcc-6 cpp-6 gcc + ln -s clang++-3.9 g++-6 + ln -s clang-3.9 gcc-6 + ln -s clang-3.9 cpp-6 + ln -s clang-3.9 gcc + echo 'gcc-6 hold' + dpkg --set-selections + echo 'g++-6 hold' + dpkg --set-selections + for VERSION in $VERSIONS + rm -f g++-7 gcc-7 cpp-7 gcc + ln -s clang++-3.9 g++-7 + ln -s clang-3.9 gcc-7 + ln -s clang-3.9 cpp-7 + ln -s clang-3.9 gcc + echo 'gcc-7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: gcc-7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + echo 'g++-7 hold' + dpkg --set-selections dpkg: warning: package not in status nor available database at line 1: g++-7 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method; please see the FAQ + cd - /build/librg-blast-parser-perl-mGyAcy + 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/clang'. Finished processing commands. -------------------------------------------------------------------------------- +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Hit:1 http://127.0.0.1:9999/debian unstable InRelease Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... 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 19.3 kB of source archives. Get:1 http://127.0.0.1:9999/debian unstable/main librg-blast-parser-perl 0.03-4 (dsc) [2226 B] Get:2 http://127.0.0.1:9999/debian unstable/main librg-blast-parser-perl 0.03-4 (tar) [11.6 kB] Get:3 http://127.0.0.1:9999/debian unstable/main librg-blast-parser-perl 0.03-4 (diff) [5428 B] Fetched 19.3 kB in 0s (164 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/librg-blast-parser-perl-mGyAcy/librg-blast-parser-perl-0.03' with '<>' I: NOTICE: Log filtering will replace 'build/librg-blast-parser-perl-mGyAcy' with '<>' +------------------------------------------------------------------------------+ | Install build-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-EAZJAc/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-EAZJAc/apt_archive ./ InRelease Get:2 copy:/<>/resolver-EAZJAc/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-EAZJAc/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-EAZJAc/apt_archive ./ Sources [349 B] Get:5 copy:/<>/resolver-EAZJAc/apt_archive ./ Packages [432 B] Fetched 1738 B in 0s (0 B/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 784 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-EAZJAc/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [784 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 784 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 10178 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper (>= 9), libextutils-xspp-perl, librostlab-blast0-dev, librostlab3-dev Filtered Build-Depends: debhelper (>= 9), libextutils-xspp-perl, librostlab-blast0-dev, librostlab3-dev dpkg-deb: building package 'sbuild-build-depends-librg-blast-parser-perl-dummy' in '/<>/resolver-EAZJAc/apt_archive/sbuild-build-depends-librg-blast-parser-perl-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-librg-blast-parser-perl-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-EAZJAc/apt_archive ./ InRelease Get:2 copy:/<>/resolver-EAZJAc/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-EAZJAc/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-EAZJAc/apt_archive ./ Sources [530 B] Get:5 copy:/<>/resolver-EAZJAc/apt_archive ./ Packages [610 B] Fetched 2103 B in 0s (0 B/s) Reading package lists... 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 additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libcroco3 libextutils-xspp-perl libfile-stripnondeterminism-perl libglib2.0-0 libicu57 libmagic-mgc libmagic1 libpipeline1 librostlab-blast0-dev librostlab-blast0v5 librostlab3 librostlab3-dev libsigsegv2 libtimedate-perl libtool libxml2 m4 man-db po-debconf Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff librostlab-blast-doc librostlab-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc less www-browser libmail-box-perl Recommended packages: curl | wget | lynx-cur libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev xml-core libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libcroco3 libextutils-xspp-perl libfile-stripnondeterminism-perl libglib2.0-0 libicu57 libmagic-mgc libmagic1 libpipeline1 librostlab-blast0-dev librostlab-blast0v5 librostlab3 librostlab3-dev libsigsegv2 libtimedate-perl libtool libxml2 m4 man-db po-debconf sbuild-build-depends-librg-blast-parser-perl-dummy 0 upgraded, 34 newly installed, 0 to remove and 0 not upgraded. Need to get 19.7 MB of archives. After this operation, 69.0 MB of additional disk space will be used. Get:1 copy:/<>/resolver-EAZJAc/apt_archive ./ sbuild-build-depends-librg-blast-parser-perl-dummy 0.invalid.0 [826 B] Get:2 http://127.0.0.1:9999/debian unstable/main amd64 groff-base amd64 1.22.3-9 [1160 kB] Get:3 http://127.0.0.1:9999/debian unstable/main amd64 bsdmainutils amd64 9.0.12+nmu1 [186 kB] Get:4 http://127.0.0.1:9999/debian unstable/main amd64 libpipeline1 amd64 1.4.1-2 [27.6 kB] Get:5 http://127.0.0.1:9999/debian unstable/main amd64 man-db amd64 2.7.6.1-2 [1044 kB] Get:6 http://127.0.0.1:9999/debian unstable/main amd64 libmagic-mgc amd64 1:5.30-1 [222 kB] Get:7 http://127.0.0.1:9999/debian unstable/main amd64 libmagic1 amd64 1:5.30-1 [111 kB] Get:8 http://127.0.0.1:9999/debian unstable/main amd64 file amd64 1:5.30-1 [63.9 kB] Get:9 http://127.0.0.1:9999/debian unstable/main amd64 gettext-base amd64 0.19.8.1-2+b1 [122 kB] Get:10 http://127.0.0.1:9999/debian unstable/main amd64 libicu57 amd64 57.1-6 [7701 kB] Get:11 http://127.0.0.1:9999/debian unstable/main amd64 libxml2 amd64 2.9.4+dfsg1-3 [715 kB] Get:12 http://127.0.0.1:9999/debian unstable/main amd64 libsigsegv2 amd64 2.11-1 [29.9 kB] Get:13 http://127.0.0.1:9999/debian unstable/main amd64 m4 amd64 1.4.18-1 [202 kB] Get:14 http://127.0.0.1:9999/debian unstable/main amd64 autoconf all 2.69-10 [338 kB] Get:15 http://127.0.0.1:9999/debian unstable/main amd64 autotools-dev all 20161112.1 [73.4 kB] Get:16 http://127.0.0.1:9999/debian unstable/main amd64 automake all 1:1.15.1-2 [736 kB] Get:17 http://127.0.0.1:9999/debian unstable/main amd64 autopoint all 0.19.8.1-2 [433 kB] Get:18 http://127.0.0.1:9999/debian unstable/main amd64 libtool all 2.4.6-2 [545 kB] Get:19 http://127.0.0.1:9999/debian unstable/main amd64 dh-autoreconf all 14 [15.9 kB] Get:20 http://127.0.0.1:9999/debian unstable/main amd64 libarchive-zip-perl all 1.59-1 [95.5 kB] Get:21 http://127.0.0.1:9999/debian unstable/main amd64 libfile-stripnondeterminism-perl all 0.035-2 [17.0 kB] Get:22 http://127.0.0.1:9999/debian unstable/main amd64 libtimedate-perl all 2.3000-2 [42.2 kB] Get:23 http://127.0.0.1:9999/debian unstable/main amd64 dh-strip-nondeterminism all 0.035-2 [10.7 kB] Get:24 http://127.0.0.1:9999/debian unstable/main amd64 libglib2.0-0 amd64 2.52.3-1 [2742 kB] Get:25 http://127.0.0.1:9999/debian unstable/main amd64 libcroco3 amd64 0.6.12-1 [144 kB] Get:26 http://127.0.0.1:9999/debian unstable/main amd64 gettext amd64 0.19.8.1-2+b1 [1301 kB] Get:27 http://127.0.0.1:9999/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.4 [26.3 kB] Get:28 http://127.0.0.1:9999/debian unstable/main amd64 po-debconf all 1.0.20 [247 kB] Get:29 http://127.0.0.1:9999/debian unstable/main amd64 debhelper all 10.6.2 [968 kB] Get:30 http://127.0.0.1:9999/debian unstable/main amd64 libextutils-xspp-perl all 0.1800-2 [191 kB] Get:31 http://127.0.0.1:9999/debian unstable/main amd64 librostlab-blast0v5 amd64 1.0.1-8 [78.3 kB] Get:32 http://127.0.0.1:9999/debian unstable/main amd64 librostlab3 amd64 1.0.20-7 [6008 B] Get:33 http://127.0.0.1:9999/debian unstable/main amd64 librostlab3-dev amd64 1.0.20-7 [13.9 kB] Get:34 http://127.0.0.1:9999/debian unstable/main amd64 librostlab-blast0-dev amd64 1.0.1-8 [91.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 19.7 MB in 0s (50.5 MB/s) Selecting previously unselected package groff-base. 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Setting up sbuild-build-depends-librg-blast-parser-perl-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.9.0-2-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.28-6 dpkg-dev_1.18.24 g++-6_6.4.0-1 gcc-6_6.4.0-1 libc6-dev_2.24-12 libstdc++-6-dev_6.4.0-1 libstdc++6_7.1.0-9 linux-libc-dev_4.11.6-1 Package versions: adduser_3.115 apt_1.5~beta1 autoconf_2.69-10 automake_1:1.15.1-2 autopoint_0.19.8.1-2 autotools-dev_20161112.1 base-files_10 base-passwd_3.5.43 bash_4.4-5 binutils_2.28-6 bsdmainutils_9.0.12+nmu1 bsdutils_1:2.29.2-1 build-essential_12.3 bzip2_1.0.6-8.1 clang-3.9_1:3.9.1-10 coreutils_8.26-3 cpp_4:6.3.0-4d1 cpp-6_6.4.0-1 dash_0.5.8-2.4 debconf_1.5.62 debfoster_2.7-2.1+b1 debhelper_10.6.2 debian-archive-keyring_2017.5 debianutils_4.8.1.1 dh-autoreconf_14 dh-strip-nondeterminism_0.035-2 diffutils_1:3.5-3 dpkg_1.18.24 dpkg-dev_1.18.24 e2fslibs_1.43.4-2 e2fsprogs_1.43.4-2 eatmydata_105-5 fakeroot_1.21-3.1 file_1:5.30-1 findutils_4.6.0+git+20170606-2 g++_4:6.3.0-4d1 g++-6_6.4.0-1 gcc_4:6.3.0-4d1 gcc-6_6.4.0-1 gcc-6-base_6.4.0-1 gcc-7-base_7.1.0-9 gettext_0.19.8.1-2+b1 gettext-base_0.19.8.1-2+b1 gpgv_2.1.18-8 grep_2.27-2 groff-base_1.22.3-9 gzip_1.6-5+b1 hostname_3.18+b1 init-system-helpers_1.48 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3+b1 libapt-pkg5.0_1.5~beta1 libarchive-zip-perl_1.59-1 libasan3_6.4.0-1 libatomic1_7.1.0-9 libattr1_1:2.4.47-2+b2 libaudit-common_1:2.7.7-1 libaudit1_1:2.7.7-1+b1 libblkid1_2.29.2-1 libbsd0_0.8.5-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.24-12 libc-dev-bin_2.24-12 libc6_2.24-12 libc6-dev_2.24-12 libcap-ng0_0.7.7-3+b1 libcc1-0_7.1.0-9 libcilkrts5_7.1.0-9 libclang-common-3.9-dev_1:3.9.1-10 libclang1-3.9_1:3.9.1-10 libcomerr2_1.43.4-2 libcroco3_0.6.12-1 libdb5.3_5.3.28-12+b1 libdebconfclient0_0.229 libdpkg-perl_1.18.24 libeatmydata1_105-5 libedit2_3.1-20170329-1 libextutils-xspp-perl_0.1800-2 libfakeroot_1.21-3.1 libfdisk1_2.29.2-1 libffi6_3.2.1-6 libfile-stripnondeterminism-perl_0.035-2 libgc1c2_1:7.4.2-8 libgcc-6-dev_6.4.0-1 libgcc1_1:7.1.0-9 libgcrypt20_1.7.8-1 libgdbm3_1.8.3-14 libglib2.0-0_2.52.3-1 libgmp10_2:6.1.2+dfsg-1 libgnutls30_3.5.13-2 libgomp1_7.1.0-9 libgpg-error0_1.27-3 libhogweed4_3.3-1+b1 libicu57_57.1-6 libidn2-0_0.16-1+b1 libisl15_0.18-1 libitm1_7.1.0-9 libjsoncpp1_1.7.4-3 libllvm3.9_1:3.9.1-10 liblsan0_7.1.0-9 liblz4-1_0.0~r131-2+b1 liblzma5_5.2.2-1.2+b1 libmagic-mgc_1:5.30-1 libmagic1_1:5.30-1 libmount1_2.29.2-1 libmpc3_1.0.3-1+b2 libmpfr4_3.1.5-1 libmpx2_7.1.0-9 libncurses5_6.0+20161126-1 libncursesw5_6.0+20161126-1 libnettle6_3.3-1+b1 libobjc-6-dev_6.4.0-1 libobjc4_7.1.0-9 libp11-kit0_0.23.7-2 libpam-modules_1.1.8-3.6 libpam-modules-bin_1.1.8-3.6 libpam-runtime_1.1.8-3.6 libpam0g_1.1.8-3.6 libpcre3_2:8.39-3 libperl5.24_5.24.1-6 libpipeline1_1.4.1-2 libquadmath0_7.1.0-9 librostlab-blast0-dev_1.0.1-8 librostlab-blast0v5_1.0.1-8 librostlab3_1.0.20-7 librostlab3-dev_1.0.20-7 libselinux1_2.6-3+b2 libsemanage-common_2.6-2 libsemanage1_2.6-2+b1 libsepol1_2.6-2 libsigsegv2_2.11-1 libsmartcols1_2.29.2-1 libss2_1.43.4-2 libstdc++-6-dev_6.4.0-1 libstdc++6_7.1.0-9 libsystemd0_233-10 libtasn1-6_4.12-2 libtimedate-perl_2.3000-2 libtinfo5_6.0+20161126-1 libtool_2.4.6-2 libtsan0_7.1.0-9 libubsan0_7.1.0-9 libudev1_233-10 libunistring2_0.9.7-2 libustr-1.0-1_1.0.4-6 libuuid1_2.29.2-1 libxml2_2.9.4+dfsg1-3 linux-libc-dev_4.11.6-1 login_1:4.4-4.1 m4_1.4.18-1 make_4.1-9.1 man-db_2.7.6.1-2 mawk_1.3.3-17+b3 mount_2.29.2-1 multiarch-support_2.24-12 ncurses-base_6.0+20161126-1 ncurses-bin_6.0+20161126-1 passwd_1:4.4-4.1 patch_2.7.5-1+b2 perl_5.24.1-6 perl-base_5.24.1-6 perl-modules-5.24_5.24.1-6 po-debconf_1.0.20 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-librg-blast-parser-perl-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.9 sysvinit-utils_2.88dsf-59.9 tar_1.29b-1.1 util-linux_2.29.2-1 xz-utils_5.2.2-1.2+b1 zlib1g_1:1.2.8.dfsg-5 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sat Jul 23 06:05:30 2016 UTC gpgv: using RSA key 578A0494D1C646D1 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./librg-blast-parser-perl_0.03-4.dsc dpkg-source: info: extracting librg-blast-parser-perl in /<> dpkg-source: info: unpacking librg-blast-parser-perl_0.03.orig.tar.gz dpkg-source: info: unpacking librg-blast-parser-perl_0.03-4.debian.tar.xz Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=POSIX LOGNAME=user42 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=1001 SCHROOT_GROUP=user42 SCHROOT_SESSION_ID=unstable-amd64-sbuild-022d0092-ea62-4d1f-9c0a-36af10afc3bf SCHROOT_UID=1001 SCHROOT_USER=user42 SHELL=/bin/sh USER=user42 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package librg-blast-parser-perl dpkg-buildpackage: info: source version 0.03-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Gert Wollny dpkg-source --before-build librg-blast-parser-perl-0.03 dpkg-buildpackage: info: 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 dh_update_autotools_config -a -O--parallel debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- LD="'x86_64-linux-gnu-gcc' -Wl,-z,relro -Wl,-z,now" OPTIMIZE="-Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03" perl -I. Makefile.PL INSTALLDIRS=vendor "OPTIMIZE=-g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "LD=x86_64-linux-gnu-gcc -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now" "LD='x86_64-linux-gnu-gcc' -Wl,-z,relro -Wl,-z,now" "OPTIMIZE=-Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03" 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 '/<>' dh_auto_build -a -O--parallel make -j16 make[1]: Entering directory '/<>' "/usr/bin/perl" "/usr/share/perl/5.24/ExtUtils/xsubpp" -C++ -hiertype -noprototypes -typemap "/usr/share/perl/5.24/ExtUtils/typemap" -typemap "perlobject.map" -typemap "typemap" Parser.xs > Parser.xsc && mv Parser.xsc Parser.c Running Mkbootstrap for RG::Blast::Parser () chmod 644 "Parser.bs" 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) 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 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -std=c++03 -DVERSION=\"0.03\" -DXS_VERSION=\"0.03\" -fPIC "-I/usr/lib/x86_64-linux-gnu/perl/5.24/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: C++ requires a type specifier for all declarations friend YY_DECL_FRIEND; ~~~~~~ ^ /usr/include/rostlab/blast-parser-driver.h:40:5: note: expanded from macro 'YY_DECL_FRIEND' ::yylex( rostlab::blast::parser::semantic_type* __yylval, \ ^ /usr/include/rostlab/blast-parser-driver.h:61:12: error: no function named 'yylex' with type 'int (rostlab::blast::parser::semantic_type *, rostlab::blast::parser::location_type *, rostlab::blast::parser_driver &, void *)' (aka 'int (rostlab::blast::parser::semantic_type *, rostlab::blast::location *, rostlab::blast::parser_driver &, void *)') was found in the specified scope /usr/include/rostlab/blast-parser-driver.h:40:5: note: expanded from macro 'YY_DECL_FRIEND' ::yylex( rostlab::blast::parser::semantic_type* __yylval, \ ^ Parser.c:631:1: 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/5.24/CORE/XSUB.h:146:33: 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 6 errors generated. Makefile:346: recipe for target 'Parser.o' failed make[1]: *** [Parser.o] Error 1 make[1]: Leaving directory '/<>' dh_auto_build: make -j16 returned exit code 2 debian/rules:18: recipe for target 'build-arch' failed make: *** [build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 -------------------------------------------------------------------------------- Build finished at 2017-07-06T21:10:56Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: any Build-Space: 360 Build-Time: 3 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 6 Job: librg-blast-parser-perl_0.03-4 Machine Architecture: amd64 Package: librg-blast-parser-perl Package-Time: 23 Source-Version: 0.03-4 Space: 360 Status: attempted Version: 0.03-4 -------------------------------------------------------------------------------- Finished at 2017-07-06T21:10:56Z Build needed 00:00:23, 360k disk space E: Build failure (dpkg-buildpackage died) DC-Status: Failed 23.849937382s