DC-Build-Header: velvet 1.2.10+dfsg-1 / 2014-06-17 13:40:42 +0000 DC-Task: source:velvet version:1.2.10+dfsg-1 architecture:any chroot:unstable esttime:480 logfile:/tmp/velvet_1.2.10+dfsg-1_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 " velvet_1.2.10+dfsg-1' sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on ip-172-31-5-190.us-west-2.compute.internal ╔══════════════════════════════════════════════════════════════════════════════╗ ║ velvet 1.2.10+dfsg-1clang1 (amd64) 17 Jun 2014 13:40 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: velvet Version: 1.2.10+dfsg-1clang1 Source Version: 1.2.10+dfsg-1 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/velvet-VqiYlH/velvet-1.2.10+dfsg' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/velvet-VqiYlH' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/unstable-amd64-sbuild-4bb226fb-8f30-4595-afe4-609f3d98a151' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Get:1 http://localhost:9999 unstable InRelease [206 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 2014-06-16-2054.31.pdiff [15.4 kB] Get:6 http://localhost:9999 unstable/main 2014-06-17-0253.05.pdiff [7983 B] Get:7 http://localhost:9999 unstable/main 2014-06-17-0856.27.pdiff [7757 B] Get:8 http://localhost:9999 unstable/main amd64 2014-06-16-2054.31.pdiff [20.7 kB] Get:9 http://localhost:9999 unstable/main 2014-06-17-0856.27.pdiff [7757 B] Get:10 http://localhost:9999 unstable/main amd64 2014-06-17-0253.05.pdiff [38.6 kB] Get:11 http://localhost:9999 unstable/main amd64 2014-06-17-0856.27.pdiff [9018 B] Get:12 http://localhost:9999 unstable/main 2014-06-16-2054.31.pdiff [699 B] Get:13 http://localhost:9999 unstable/main 2014-06-17-0856.27.pdiff [442 B] Get:14 http://localhost:9999 unstable/main amd64 2014-06-17-0856.27.pdiff [9018 B] Get:15 http://localhost:9999 unstable/main 2014-06-17-0856.27.pdiff [442 B] Fetched 330 kB in 4s (69.9 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: libc-bin libc-dev-bin libc6 libc6-dev linux-libc-dev multiarch-support 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 9447 kB of archives. After this operation, 10.2 kB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main libc6-dev amd64 2.19-2 [2000 kB] Get:2 http://localhost:9999/debian/ unstable/main libc-dev-bin amd64 2.19-2 [235 kB] Get:3 http://localhost:9999/debian/ unstable/main linux-libc-dev amd64 3.14.7-1 [937 kB] Get:4 http://localhost:9999/debian/ unstable/main libc-bin amd64 2.19-2 [1288 kB] Get:5 http://localhost:9999/debian/ unstable/main libc6 amd64 2.19-2 [4816 kB] Get:6 http://localhost:9999/debian/ unstable/main multiarch-support amd64 2.19-2 [171 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 9447 kB in 0s (37.2 MB/s) (Reading database ... 14215 files and directories currently installed.) Preparing to unpack .../libc6-dev_2.19-2_amd64.deb ... Unpacking libc6-dev:amd64 (2.19-2) over (2.19-1) ... Preparing to unpack .../libc-dev-bin_2.19-2_amd64.deb ... Unpacking libc-dev-bin (2.19-2) over (2.19-1) ... Preparing to unpack .../linux-libc-dev_3.14.7-1_amd64.deb ... Unpacking linux-libc-dev:amd64 (3.14.7-1) over (3.14.5-1) ... Preparing to unpack .../libc-bin_2.19-2_amd64.deb ... Unpacking libc-bin (2.19-2) over (2.19-1) ... Preparing to unpack .../libc6_2.19-2_amd64.deb ... Unpacking libc6:amd64 (2.19-2) over (2.19-1) ... Setting up libc6:amd64 (2.19-2) ... Setting up libc-bin (2.19-2) ... (Reading database ... 14216 files and directories currently installed.) Preparing to unpack .../multiarch-support_2.19-2_amd64.deb ... Unpacking multiarch-support (2.19-2) over (2.19-1) ... Setting up multiarch-support (2.19-2) ... Setting up libc-dev-bin (2.19-2) ... Setting up linux-libc-dev:amd64 (3.14.7-1) ... Setting up libc6-dev:amd64 (2.19-2) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... NOTICE: 'velvet' packaging is maintained in the 'Svn' version control system at: svn://anonscm.debian.org/debian-med/trunk/packages/velvet/trunk/ Need to get 14.0 MB of source archives. Get:1 http://localhost:9999/debian/ unstable/main velvet 1.2.10+dfsg-1 (dsc) [1478 B] Get:2 http://localhost:9999/debian/ unstable/main velvet 1.2.10+dfsg-1 (tar) [14.0 MB] Get:3 http://localhost:9999/debian/ unstable/main velvet 1.2.10+dfsg-1 (diff) [9538 B] Fetched 14.0 MB in 2s (5175 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... + echo 'Install of clang-3.4' Install of clang-3.4 + apt-get update Hit http://localhost:9999 unstable InRelease Hit http://localhost:9999 unstable/main Sources/DiffIndex Hit http://localhost:9999 unstable/main amd64 Packages/DiffIndex Hit http://localhost:9999 unstable/main Translation-en/DiffIndex Reading package lists... + apt-get install --yes --no-install-recommends --force-yes clang-3.4 Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: libclang-common-3.4-dev libclang1-3.4 libffi6 libllvm3.4 libobjc-4.9-dev libobjc4 Suggested packages: gnustep gnustep-devel Recommended packages: llvm-3.4-dev python The following NEW packages will be installed: clang-3.4 libclang-common-3.4-dev libclang1-3.4 libffi6 libllvm3.4 libobjc-4.9-dev libobjc4 0 upgraded, 7 newly installed, 0 to remove and 0 not upgraded. Need to get 30.6 MB of archives. After this operation, 118 MB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main libffi6 amd64 3.1-2 [19.8 kB] Get:2 http://localhost:9999/debian/ unstable/main libllvm3.4 amd64 1:3.4.2-2 [6721 kB] Get:3 http://localhost:9999/debian/ unstable/main libobjc4 amd64 4.9.0-6 [112 kB] Get:4 http://localhost:9999/debian/ unstable/main libobjc-4.9-dev amd64 4.9.0-6 [372 kB] Get:5 http://localhost:9999/debian/ unstable/main libclang1-3.4 amd64 1:3.4.2-2 [3619 kB] Get:6 http://localhost:9999/debian/ unstable/main libclang-common-3.4-dev amd64 1:3.4.2-2 [543 kB] Get:7 http://localhost:9999/debian/ unstable/main clang-3.4 amd64 1:3.4.2-2 [19.2 MB] debconf: delaying package configuration, since apt-utils is not installed Fetched 30.6 MB in 0s (36.9 MB/s) Selecting previously unselected package libffi6:amd64. (Reading database ... 14216 files and directories currently installed.) Preparing to unpack .../libffi6_3.1-2_amd64.deb ... Unpacking libffi6:amd64 (3.1-2) ... Selecting previously unselected package libllvm3.4:amd64. Preparing to unpack .../libllvm3.4_1%3a3.4.2-2_amd64.deb ... Unpacking libllvm3.4:amd64 (1:3.4.2-2) ... Selecting previously unselected package libobjc4:amd64. Preparing to unpack .../libobjc4_4.9.0-6_amd64.deb ... Unpacking libobjc4:amd64 (4.9.0-6) ... Selecting previously unselected package libobjc-4.9-dev:amd64. Preparing to unpack .../libobjc-4.9-dev_4.9.0-6_amd64.deb ... Unpacking libobjc-4.9-dev:amd64 (4.9.0-6) ... Selecting previously unselected package libclang1-3.4:amd64. Preparing to unpack .../libclang1-3.4_1%3a3.4.2-2_amd64.deb ... Unpacking libclang1-3.4:amd64 (1:3.4.2-2) ... Selecting previously unselected package libclang-common-3.4-dev. Preparing to unpack .../libclang-common-3.4-dev_1%3a3.4.2-2_amd64.deb ... Unpacking libclang-common-3.4-dev (1:3.4.2-2) ... Selecting previously unselected package clang-3.4. Preparing to unpack .../clang-3.4_1%3a3.4.2-2_amd64.deb ... Unpacking clang-3.4 (1:3.4.2-2) ... Setting up libffi6:amd64 (3.1-2) ... Setting up libllvm3.4:amd64 (1:3.4.2-2) ... Setting up libobjc4:amd64 (4.9.0-6) ... Setting up libobjc-4.9-dev:amd64 (4.9.0-6) ... Setting up libclang1-3.4:amd64 (1:3.4.2-2) ... Setting up libclang-common-3.4-dev (1:3.4.2-2) ... Setting up clang-3.4 (1:3.4.2-2) ... Processing triggers for libc-bin (2.19-2) ... + 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 '$VERSIONS' + rm -f g++-4.6 gcc-4.6 cpp-4.6 + ln -s clang++ g++-4.6 + ln -s clang gcc-4.6 + ln -s clang cpp-4.6 + echo 'gcc-4.6 hold' + dpkg --set-selections + echo 'g++-4.6 hold' + dpkg --set-selections + for VERSION in '$VERSIONS' + rm -f g++-4.7 gcc-4.7 cpp-4.7 + ln -s clang++ g++-4.7 + ln -s clang gcc-4.7 + ln -s clang cpp-4.7 + echo 'gcc-4.7 hold' + dpkg --set-selections + echo 'g++-4.7 hold' + dpkg --set-selections + for VERSION in '$VERSIONS' + rm -f g++-4.8 gcc-4.8 cpp-4.8 + ln -s clang++ g++-4.8 + ln -s clang gcc-4.8 + ln -s clang cpp-4.8 + echo 'gcc-4.8 hold' + dpkg --set-selections dpkg: warning: package not in database at line 1: gcc-4.8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method + echo 'g++-4.8 hold' + dpkg --set-selections dpkg: warning: package not in database at line 1: g++-4.8 dpkg: warning: found unknown packages; this might mean the available database is outdated, and needs to be updated through a frontend method + for VERSION in '$VERSIONS' + rm -f g++-4.9 gcc-4.9 cpp-4.9 + ln -s clang++ g++-4.9 + ln -s clang gcc-4.9 + ln -s clang cpp-4.9 + 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-jHlkpD/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/816 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 ... 14431 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, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), zlib1g-dev, help2man, texlive-latex-base Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), zlib1g-dev, help2man, texlive-latex-base dpkg-deb: building package `sbuild-build-depends-velvet-dummy' in `/«BUILDDIR»/resolver-KWI6gM/apt_archive/sbuild-build-depends-velvet-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install velvet 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 fontconfig-config fonts-dejavu-core gettext gettext-base groff-base help2man intltool-debian libasprintf0c2 libavahi-client3 libavahi-common-data libavahi-common3 libcroco3 libcups2 libcupsfilters1 libcupsimage2 libdbus-1-3 libexpat1 libfontconfig1 libfreetype6 libglib2.0-0 libgnutls-deb0-28 libgraphite2-3 libgs9 libgs9-common libgssapi-krb5-2 libharfbuzz-icu0 libharfbuzz0b libhogweed2 libice6 libicu52 libidn11 libijs-0.35 libjasper1 libjbig0 libjbig2dec0 libjpeg8 libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-3 libkrb5support0 liblcms2-2 libmagic1 libnettle4 libopenjpeg5 libp11-kit0 libpaper-utils libpaper1 libpipeline1 libpixman-1-0 libpng12-0 libpoppler44 libpotrace0 libptexenc1 libsm6 libtasn1-6 libtiff5 libunistring0 libx11-6 libx11-data libxau6 libxaw7 libxcb1 libxdmcp6 libxext6 libxi6 libxml2 libxmu6 libxpm4 libxt6 libzzip-0-13 man-db po-debconf poppler-data tex-common texlive-base texlive-binaries texlive-latex-base x11-common xdg-utils zlib1g-dev Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff cups-common gnutls-bin krb5-doc krb5-user libjasper-runtime liblcms2-utils less www-browser libmail-box-perl poppler-utils ghostscript fonts-japanese-mincho fonts-ipafont-mincho fonts-japanese-gothic fonts-ipafont-gothic fonts-arphic-ukai fonts-arphic-uming fonts-nanum gv postscript-viewer perl-tk xpdf-reader pdf-viewer gvfs-bin Recommended packages: curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev dbus libglib2.0-data shared-mime-info fonts-droid krb5-locales xml-core libmail-sendmail-perl lmodern python ruby wish texlive-latex-base-doc libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: bsdmainutils debhelper file fontconfig-config fonts-dejavu-core gettext gettext-base groff-base help2man intltool-debian libasprintf0c2 libavahi-client3 libavahi-common-data libavahi-common3 libcroco3 libcups2 libcupsfilters1 libcupsimage2 libdbus-1-3 libexpat1 libfontconfig1 libfreetype6 libglib2.0-0 libgnutls-deb0-28 libgraphite2-3 libgs9 libgs9-common libgssapi-krb5-2 libharfbuzz-icu0 libharfbuzz0b libhogweed2 libice6 libicu52 libidn11 libijs-0.35 libjasper1 libjbig0 libjbig2dec0 libjpeg8 libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-3 libkrb5support0 liblcms2-2 libmagic1 libnettle4 libopenjpeg5 libp11-kit0 libpaper-utils libpaper1 libpipeline1 libpixman-1-0 libpng12-0 libpoppler44 libpotrace0 libptexenc1 libsm6 libtasn1-6 libtiff5 libunistring0 libx11-6 libx11-data libxau6 libxaw7 libxcb1 libxdmcp6 libxext6 libxi6 libxml2 libxmu6 libxpm4 libxt6 libzzip-0-13 man-db po-debconf poppler-data sbuild-build-depends-velvet-dummy tex-common texlive-base texlive-binaries texlive-latex-base x11-common xdg-utils zlib1g-dev 0 upgraded, 85 newly installed, 0 to remove and 0 not upgraded. Need to get 57.6 MB/57.6 MB of archives. After this operation, 198 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 1.22.2-5 [1043 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 0.18.3.2-2 [29.4 kB] Get:6 http://localhost:9999/debian/ unstable/main libnettle4 amd64 2.7.1-2+b1 [172 kB] Get:7 http://localhost:9999/debian/ unstable/main libhogweed2 amd64 2.7.1-2+b1 [125 kB] Get:8 http://localhost:9999/debian/ unstable/main libp11-kit0 amd64 0.20.2-5 [81.1 kB] Get:9 http://localhost:9999/debian/ unstable/main libtasn1-6 amd64 3.6-3 [50.2 kB] Get:10 http://localhost:9999/debian/ unstable/main libgnutls-deb0-28 amd64 3.2.15-2 [684 kB] Get:11 http://localhost:9999/debian/ unstable/main libkeyutils1 amd64 1.5.9-4 [11.6 kB] Get:12 http://localhost:9999/debian/ unstable/main libkrb5support0 amd64 1.12.1+dfsg-3 [56.9 kB] Get:13 http://localhost:9999/debian/ unstable/main libk5crypto3 amd64 1.12.1+dfsg-3 [111 kB] Get:14 http://localhost:9999/debian/ unstable/main libkrb5-3 amd64 1.12.1+dfsg-3 [297 kB] Get:15 http://localhost:9999/debian/ unstable/main libgssapi-krb5-2 amd64 1.12.1+dfsg-3 [147 kB] Get:16 http://localhost:9999/debian/ unstable/main libidn11 amd64 1.28-2 [158 kB] Get:17 http://localhost:9999/debian/ unstable/main libmagic1 amd64 1:5.19-1 [237 kB] Get:18 http://localhost:9999/debian/ unstable/main libxml2 amd64 2.9.1+dfsg1-3 [791 kB] Get:19 http://localhost:9999/debian/ unstable/main libavahi-common-data amd64 0.6.31-4 [98.3 kB] Get:20 http://localhost:9999/debian/ unstable/main libavahi-common3 amd64 0.6.31-4 [50.6 kB] Get:21 http://localhost:9999/debian/ unstable/main libdbus-1-3 amd64 1.8.4-1 [162 kB] Get:22 http://localhost:9999/debian/ unstable/main libavahi-client3 amd64 0.6.31-4 [53.8 kB] Get:23 http://localhost:9999/debian/ unstable/main libglib2.0-0 amd64 2.40.0-3 [2405 kB] Get:24 http://localhost:9999/debian/ unstable/main libcroco3 amd64 0.6.8-2 [133 kB] Get:25 http://localhost:9999/debian/ unstable/main libcups2 amd64 1.7.3-3 [278 kB] Get:26 http://localhost:9999/debian/ unstable/main libcupsimage2 amd64 1.7.3-3 [114 kB] Get:27 http://localhost:9999/debian/ unstable/main libjpeg8 amd64 8d-2 [120 kB] Get:28 http://localhost:9999/debian/ unstable/main libpng12-0 amd64 1.2.50-1 [189 kB] Get:29 http://localhost:9999/debian/ unstable/main libjbig0 amd64 2.0-2.1 [29.3 kB] Get:30 http://localhost:9999/debian/ unstable/main libtiff5 amd64 4.0.3-8 [209 kB] Get:31 http://localhost:9999/debian/ unstable/main libcupsfilters1 amd64 1.0.54-1 [99.8 kB] Get:32 http://localhost:9999/debian/ unstable/main libexpat1 amd64 2.1.0-6 [80.6 kB] Get:33 http://localhost:9999/debian/ unstable/main libfreetype6 amd64 2.5.2-1 [454 kB] Get:34 http://localhost:9999/debian/ unstable/main fonts-dejavu-core all 2.34-1 [1047 kB] Get:35 http://localhost:9999/debian/ unstable/main fontconfig-config all 2.11.0-5 [273 kB] Get:36 http://localhost:9999/debian/ unstable/main libfontconfig1 amd64 2.11.0-5 [327 kB] Get:37 http://localhost:9999/debian/ unstable/main libgraphite2-3 amd64 1.2.4-3 [57.4 kB] Get:38 http://localhost:9999/debian/ unstable/main libharfbuzz0b amd64 0.9.28-2 [454 kB] Get:39 http://localhost:9999/debian/ unstable/main libicu52 amd64 52.1-3 [6751 kB] Get:40 http://localhost:9999/debian/ unstable/main libharfbuzz-icu0 amd64 0.9.28-2 [332 kB] Get:41 http://localhost:9999/debian/ unstable/main x11-common all 1:7.7+7 [287 kB] Get:42 http://localhost:9999/debian/ unstable/main libice6 amd64 2:1.0.8-2 [63.1 kB] Get:43 http://localhost:9999/debian/ unstable/main libijs-0.35 amd64 0.35-10 [20.0 kB] Get:44 http://localhost:9999/debian/ unstable/main libjasper1 amd64 1.900.1-debian1-2 [132 kB] Get:45 http://localhost:9999/debian/ unstable/main liblcms2-2 amd64 2.6-3 [140 kB] Get:46 http://localhost:9999/debian/ unstable/main libpaper1 amd64 1.1.24+nmu3 [21.4 kB] Get:47 http://localhost:9999/debian/ unstable/main libpixman-1-0 amd64 0.32.4-1 [496 kB] Get:48 http://localhost:9999/debian/ unstable/main libopenjpeg5 amd64 1.5.2-2 [109 kB] Get:49 http://localhost:9999/debian/ unstable/main libpoppler44 amd64 0.24.5-4 [1130 kB] Get:50 http://localhost:9999/debian/ unstable/main libsm6 amd64 2:1.2.1-2 [34.2 kB] Get:51 http://localhost:9999/debian/ unstable/main libunistring0 amd64 0.9.3-5 [434 kB] Get:52 http://localhost:9999/debian/ unstable/main libxau6 amd64 1:1.0.8-1 [20.7 kB] Get:53 http://localhost:9999/debian/ unstable/main libxdmcp6 amd64 1:1.1.1-1 [26.3 kB] Get:54 http://localhost:9999/debian/ unstable/main libxcb1 amd64 1.10-3 [42.6 kB] Get:55 http://localhost:9999/debian/ unstable/main libx11-data all 2:1.6.2-2 [126 kB] Get:56 http://localhost:9999/debian/ unstable/main libx11-6 amd64 2:1.6.2-2 [718 kB] Get:57 http://localhost:9999/debian/ unstable/main libxext6 amd64 2:1.3.2-1 [56.5 kB] Get:58 http://localhost:9999/debian/ unstable/main libxt6 amd64 1:1.1.4-1 [180 kB] Get:59 http://localhost:9999/debian/ unstable/main libxmu6 amd64 2:1.1.2-1 [58.6 kB] Get:60 http://localhost:9999/debian/ unstable/main libxpm4 amd64 1:3.5.10-1 [49.4 kB] Get:61 http://localhost:9999/debian/ unstable/main libxaw7 amd64 2:1.0.12-1 [192 kB] Get:62 http://localhost:9999/debian/ unstable/main libxi6 amd64 2:1.7.2-1 [77.0 kB] Get:63 http://localhost:9999/debian/ unstable/main libzzip-0-13 amd64 0.13.62-2 [55.2 kB] Get:64 http://localhost:9999/debian/ unstable/main poppler-data all 0.4.6-5 [1489 kB] Get:65 http://localhost:9999/debian/ unstable/main file amd64 1:5.19-1 [58.0 kB] Get:66 http://localhost:9999/debian/ unstable/main gettext-base amd64 0.18.3.2-2 [116 kB] Get:67 http://localhost:9999/debian/ unstable/main gettext amd64 0.18.3.2-2 [1202 kB] Get:68 http://localhost:9999/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:69 http://localhost:9999/debian/ unstable/main po-debconf all 1.0.16+nmu2 [224 kB] Get:70 http://localhost:9999/debian/ unstable/main debhelper all 9.20140613 [692 kB] Get:71 http://localhost:9999/debian/ unstable/main help2man amd64 1.45.1 [95.9 kB] Get:72 http://localhost:9999/debian/ unstable/main libjbig2dec0 amd64 0.11+20120125-1 [51.8 kB] Get:73 http://localhost:9999/debian/ unstable/main libgs9-common all 9.05~dfsg-8.1 [1981 kB] Get:74 http://localhost:9999/debian/ unstable/main libgs9 amd64 9.05~dfsg-8.1 [1852 kB] Get:75 http://localhost:9999/debian/ unstable/main libkpathsea6 amd64 2014.20140528.34243-2 [151 kB] Get:76 http://localhost:9999/debian/ unstable/main libpaper-utils amd64 1.1.24+nmu3 [17.1 kB] Get:77 http://localhost:9999/debian/ unstable/main libpotrace0 amd64 1.11-2 [24.4 kB] Get:78 http://localhost:9999/debian/ unstable/main libptexenc1 amd64 2014.20140528.34243-2 [53.1 kB] Get:79 http://localhost:9999/debian/ unstable/main tex-common all 5.02 [625 kB] Get:80 http://localhost:9999/debian/ unstable/main texlive-binaries amd64 2014.20140528.34243-2 [6702 kB] Get:81 http://localhost:9999/debian/ unstable/main xdg-utils all 1.1.0~rc1+git20111210-7.1 [64.6 kB] Get:82 http://localhost:9999/debian/ unstable/main texlive-base all 2014.20140528-3 [17.6 MB] Get:83 http://localhost:9999/debian/ unstable/main texlive-latex-base all 2014.20140528-3 [858 kB] Get:84 http://localhost:9999/debian/ unstable/main zlib1g-dev amd64 1:1.2.8.dfsg-1 [217 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 57.6 MB in 1s (31.7 MB/s) Selecting previously unselected package libpipeline1:amd64. 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Setting up groff-base (1.22.2-5) ... 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 (0.18.3.2-2) ... Setting up libnettle4:amd64 (2.7.1-2+b1) ... Setting up libhogweed2:amd64 (2.7.1-2+b1) ... Setting up libp11-kit0:amd64 (0.20.2-5) ... Setting up libtasn1-6:amd64 (3.6-3) ... Setting up libgnutls-deb0-28:amd64 (3.2.15-2) ... Setting up libkeyutils1:amd64 (1.5.9-4) ... Setting up libkrb5support0:amd64 (1.12.1+dfsg-3) ... Setting up libk5crypto3:amd64 (1.12.1+dfsg-3) ... Setting up libkrb5-3:amd64 (1.12.1+dfsg-3) ... Setting up libgssapi-krb5-2:amd64 (1.12.1+dfsg-3) ... Setting up libidn11:amd64 (1.28-2) ... Setting up libmagic1:amd64 (1:5.19-1) ... Setting up libxml2:amd64 (2.9.1+dfsg1-3) ... Setting up libavahi-common-data:amd64 (0.6.31-4) ... Setting up libavahi-common3:amd64 (0.6.31-4) ... Setting up libdbus-1-3:amd64 (1.8.4-1) ... Setting up libavahi-client3:amd64 (0.6.31-4) ... Setting up libglib2.0-0:amd64 (2.40.0-3) ... No schema files found: doing nothing. Setting up libcroco3:amd64 (0.6.8-2) ... Setting up libcups2:amd64 (1.7.3-3) ... Setting up libjpeg8:amd64 (8d-2) ... Setting up libpng12-0:amd64 (1.2.50-1) ... Setting up libjbig0:amd64 (2.0-2.1) ... Setting up libtiff5:amd64 (4.0.3-8) ... Setting up libexpat1:amd64 (2.1.0-6) ... Setting up libfreetype6:amd64 (2.5.2-1) ... Setting up fonts-dejavu-core (2.34-1) ... Setting up fontconfig-config (2.11.0-5) ... Setting up libfontconfig1:amd64 (2.11.0-5) ... Setting up libgraphite2-3:amd64 (1.2.4-3) ... Setting up libharfbuzz0b:amd64 (0.9.28-2) ... Setting up libicu52:amd64 (52.1-3) ... Setting up libharfbuzz-icu0:amd64 (0.9.28-2) ... Setting up x11-common (1:7.7+7) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults All runlevel operations denied by policy invoke-rc.d: policy-rc.d denied execution of start. Setting up libice6:amd64 (2:1.0.8-2) ... Setting up libijs-0.35:amd64 (0.35-10) ... Setting up libjasper1:amd64 (1.900.1-debian1-2) ... Setting up liblcms2-2:amd64 (2.6-3) ... Setting up libpaper1:amd64 (1.1.24+nmu3) ... Creating config file /etc/papersize with new version Setting up libpixman-1-0:amd64 (0.32.4-1) ... Setting up libopenjpeg5:amd64 (1.5.2-2) ... Setting up libpoppler44:amd64 (0.24.5-4) ... Setting up libsm6:amd64 (2:1.2.1-2) ... Setting up libunistring0:amd64 (0.9.3-5) ... Setting up libxau6:amd64 (1:1.0.8-1) ... Setting up libxdmcp6:amd64 (1:1.1.1-1) ... Setting up libxcb1:amd64 (1.10-3) ... Setting up libx11-data (2:1.6.2-2) ... Setting up libx11-6:amd64 (2:1.6.2-2) ... Setting up libxext6:amd64 (2:1.3.2-1) ... Setting up libxt6:amd64 (1:1.1.4-1) ... Setting up libxmu6:amd64 (2:1.1.2-1) ... Setting up libxpm4:amd64 (1:3.5.10-1) ... Setting up libxaw7:amd64 (2:1.0.12-1) ... Setting up libxi6:amd64 (2:1.7.2-1) ... Setting up libzzip-0-13:amd64 (0.13.62-2) ... Setting up poppler-data (0.4.6-5) ... Setting up file (1:5.19-1) ... Setting up gettext-base (0.18.3.2-2) ... Setting up gettext (0.18.3.2-2) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20140613) ... Setting up help2man (1.45.1) ... Setting up libjbig2dec0 (0.11+20120125-1) ... Setting up libgs9-common (9.05~dfsg-8.1) ... Setting up libkpathsea6 (2014.20140528.34243-2) ... Setting up libpaper-utils (1.1.24+nmu3) ... Setting up libpotrace0 (1.11-2) ... Setting up libptexenc1 (2014.20140528.34243-2) ... Setting up tex-common (5.02) ... Setting up xdg-utils (1.1.0~rc1+git20111210-7.1) ... Setting up zlib1g-dev:amd64 (1:1.2.8.dfsg-1) ... Setting up libcupsimage2:amd64 (1.7.3-3) ... Setting up libcupsfilters1:amd64 (1.0.54-1) ... Setting up libgs9 (9.05~dfsg-8.1) ... Setting up texlive-binaries (2014.20140528.34243-2) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Building format(s) --refresh. This may take some time... done. Setting up texlive-base (2014.20140528-3) ... /usr/bin/tl-paper: setting paper size for dvips to a4. /usr/bin/tl-paper: setting paper size for dvipdfmx to a4. /usr/bin/tl-paper: setting paper size for xdvi to a4. /usr/bin/tl-paper: setting paper size for pdftex to a4. Running mktexlsr. This may take some time... done. Building format(s) --all. This may take some time... done. Setting up texlive-latex-base (2014.20140528-3) ... Running mktexlsr. This may take some time... done. Building format(s) --all --cnffile /etc/texmf/fmt.d/10texlive-latex-base.cnf. This may take some time... done. Setting up sbuild-build-depends-velvet-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.19-2) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 2.6.32-5-xen-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.24.51.20140604-3 dpkg-dev_1.17.10 g++-4.6_4.6.4-7 g++-4.9_4.9.0-6 gcc-4.6_4.6.4-7 gcc-4.7_4.7.4-1 gcc-4.9_4.9.0-6 libc6-dev_2.19-2 libstdc++-4.9-dev_4.9.0-6 libstdc++6_4.9.0-6 libstdc++6-4.6-dev_4.6.4-7 linux-libc-dev_3.14.7-1 Package versions: apt_1.0.4 base-files_7.3 base-passwd_3.5.33 bash_4.3-7 binutils_2.24.51.20140604-3 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.8 build-essential_11.6 bzip2_1.0.6-5 clang-3.4_1:3.4.2-2 coreutils_8.21-1.2 cpp_4:4.9.0-3 cpp-4.6_4.6.4-7 cpp-4.7_4.7.4-1 cpp-4.9_4.9.0-6 dash_0.5.7-4 debconf_1.5.53 debconf-i18n_1.5.53 debfoster_2.7-1.2 debhelper_9.20140613 debian-archive-keyring_2012.4 debianutils_4.4 diffutils_1:3.3-1 dpkg_1.17.10 dpkg-dev_1.17.10 e2fslibs_1.42.10-1 e2fsprogs_1.42.10-1 fakeroot_1.20-3 file_1:5.19-1 findutils_4.4.2-8 fontconfig-config_2.11.0-5 fonts-dejavu-core_2.34-1 g++_4:4.9.0-3 g++-4.6_4.6.4-7 g++-4.9_4.9.0-6 gcc_4:4.9.0-3 gcc-4.4-base_4.4.7-8 gcc-4.5-base_4.5.4-1 gcc-4.6_4.6.4-7 gcc-4.6-base_4.6.4-7 gcc-4.7_4.7.4-1 gcc-4.7-base_4.7.4-1 gcc-4.8-base_4.8.3-3 gcc-4.9_4.9.0-6 gcc-4.9-base_4.9.0-6 gettext_0.18.3.2-2 gettext-base_0.18.3.2-2 gnupg_1.4.16-1.1 gpgv_1.4.16-1.1 grep_2.18-2 groff-base_1.22.2-5 gzip_1.6-3 help2man_1.45.1 hostname_3.15 initscripts_2.88dsf-53.2 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 libacl1_2.2.52-1 libapt-pkg4.12_1.0.4 libarchive-extract-perl_0.72-1 libasan1_4.9.0-6 libasprintf0c2_0.18.3.2-2 libatomic1_4.9.0-6 libattr1_1:2.4.47-1 libaudit-common_1:2.3.7-1 libaudit1_1:2.3.7-1 libavahi-client3_0.6.31-4 libavahi-common-data_0.6.31-4 libavahi-common3_0.6.31-4 libblkid1_2.20.1-5.8 libbz2-1.0_1.0.6-5 libc-bin_2.19-2 libc-dev-bin_2.19-2 libc6_2.19-2 libc6-dev_2.19-2 libcap2_1:2.22-1.2 libcilkrts5_4.9.0-6 libclang-common-3.4-dev_1:3.4.2-2 libclang1-3.4_1:3.4.2-2 libclass-isa-perl_0.36-5 libcloog-isl4_0.18.2-1 libcloog-ppl1_0.16.1-5 libcomerr2_1.42.10-1 libcroco3_0.6.8-2 libcups2_1.7.3-3 libcupsfilters1_1.0.54-1 libcupsimage2_1.7.3-3 libdb5.1_5.1.29-5 libdb5.3_5.3.28-3 libdbus-1-3_1.8.4-1 libdebconfclient0_0.191 libdpkg-perl_1.17.10 libexpat1_2.1.0-6 libfakeroot_1.20-3 libffi6_3.1-2 libfile-fcntllock-perl_0.20-1 libfontconfig1_2.11.0-5 libfreetype6_2.5.2-1 libgc1c2_1:7.2d-6 libgcc-4.7-dev_4.7.4-1 libgcc-4.9-dev_4.9.0-6 libgcc1_1:4.9.0-6 libgdbm3_1.8.3-12 libglib2.0-0_2.40.0-3 libgmp10_2:6.0.0+dfsg-4 libgmpxx4ldbl_2:6.0.0+dfsg-4 libgnutls-deb0-28_3.2.15-2 libgomp1_4.9.0-6 libgpm2_1.20.4-6.1 libgraphite2-3_1.2.4-3 libgs9_9.05~dfsg-8.1 libgs9-common_9.05~dfsg-8.1 libgssapi-krb5-2_1.12.1+dfsg-3 libharfbuzz-icu0_0.9.28-2 libharfbuzz0b_0.9.28-2 libhogweed2_2.7.1-2+b1 libice6_2:1.0.8-2 libicu52_52.1-3 libidn11_1.28-2 libijs-0.35_0.35-10 libisl10_0.12.2-1 libitm1_4.9.0-6 libjasper1_1.900.1-debian1-2 libjbig0_2.0-2.1 libjbig2dec0_0.11+20120125-1 libjpeg8_8d-2 libk5crypto3_1.12.1+dfsg-3 libkeyutils1_1.5.9-4 libkpathsea6_2014.20140528.34243-2 libkrb5-3_1.12.1+dfsg-3 libkrb5support0_1.12.1+dfsg-3 liblcms2-2_2.6-3 libllvm3.4_1:3.4.2-2 liblocale-gettext-perl_1.05-8 liblog-message-simple-perl_0.10-1 liblsan0_4.9.0-6 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.19-1 libmodule-pluggable-perl_5.1-1 libmount1_2.20.1-5.8 libmpc2_0.9-4 libmpc3_1.0.1-1 libmpfr4_3.1.2-1 libncurses5_5.9+20140118-1 libnettle4_2.7.1-2+b1 libobjc-4.9-dev_4.9.0-6 libobjc4_4.9.0-6 libopenjpeg5_1.5.2-2 libp11-kit0_0.20.2-5 libpam-modules_1.1.8-3 libpam-modules-bin_1.1.8-3 libpam-runtime_1.1.8-3 libpam0g_1.1.8-3 libpaper-utils_1.1.24+nmu3 libpaper1_1.1.24+nmu3 libpcre3_1:8.31-5 libpipeline1_1.3.0-1 libpixman-1-0_0.32.4-1 libpng12-0_1.2.50-1 libpod-latex-perl_0.61-1 libpoppler44_0.24.5-4 libpotrace0_1.11-2 libppl-c4_1:1.1-2+b1 libppl13_1:1.1-2+b1 libptexenc1_2014.20140528.34243-2 libquadmath0_4.9.0-6 libreadline6_6.3-6 libselinux1_2.3-1 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-1 libslang2_2.2.4-16 libsm6_2:1.2.1-2 libss2_1.42.10-1 libstdc++-4.9-dev_4.9.0-6 libstdc++6_4.9.0-6 libstdc++6-4.6-dev_4.6.4-7 libswitch-perl_2.17-1 libtasn1-6_3.6-3 libterm-ui-perl_0.42-1 libtext-charwidth-perl_0.04-7+b2 libtext-iconv-perl_1.7-5+b1 libtext-soundex-perl_3.4-1+b1 libtext-wrapi18n-perl_0.06-7 libtiff5_4.0.3-8 libtimedate-perl_2.3000-2 libtinfo5_5.9+20140118-1 libtsan0_4.9.0-6 libubsan0_4.9.0-6 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23.3 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.8 libvtv0_4.9.0-6 libx11-6_2:1.6.2-2 libx11-data_2:1.6.2-2 libxau6_1:1.0.8-1 libxaw7_2:1.0.12-1 libxcb1_1.10-3 libxdmcp6_1:1.1.1-1 libxext6_2:1.3.2-1 libxi6_2:1.7.2-1 libxml2_2.9.1+dfsg1-3 libxmu6_2:1.1.2-1 libxpm4_1:3.5.10-1 libxt6_1:1.1.4-1 libzzip-0-13_0.13.62-2 linux-libc-dev_3.14.7-1 login_1:4.2-2 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_2.19-2 ncurses-base_5.9+20140118-1 ncurses-bin_5.9+20140118-1 passwd_1:4.2-2 patch_2.7.1-5 perl_5.18.2-4 perl-base_5.18.2-4 perl-modules_5.18.2-4 po-debconf_1.0.16+nmu2 poppler-data_0.4.6-5 readline-common_6.3-6 rename_0.20-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-velvet-dummy_0.invalid.0 sed_4.2.2-4 sensible-utils_0.0.9 startpar_0.59-3 sudo_1.8.9p5-1 sysv-rc_2.88dsf-53.2 sysvinit_2.88dsf-53.2 sysvinit-core_2.88dsf-53.2 sysvinit-utils_2.88dsf-53.2 tar_1.27.1-2 tex-common_5.02 texlive-base_2014.20140528-3 texlive-binaries_2014.20140528.34243-2 texlive-latex-base_2014.20140528-3 tzdata_2014e-1 ucf_3.0030 util-linux_2.20.1-5.8 vim_2:7.4.273-2+b1 vim-common_2:7.4.273-2+b1 vim-runtime_2:7.4.273-2 x11-common_1:7.7+7 xdg-utils_1.1.0~rc1+git20111210-7.1 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-1 zlib1g-dev_1:1.2.8.dfsg-1 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Fri Aug 2 08:27:01 2013 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./velvet_1.2.10+dfsg-1.dsc dpkg-source: info: extracting velvet in velvet-1.2.10+dfsg dpkg-source: info: unpacking velvet_1.2.10+dfsg.orig.tar.xz dpkg-source: info: unpacking velvet_1.2.10+dfsg-1.debian.tar.gz dpkg-source: info: applying include_debians_zlib.patch dpkg-source: info: applying shuffleSequences_fasta.patch dpkg-source: info: applying fix-perl-path.patch Check disc space ──────────────── Sufficient free space for build Hack binNMU version ─────────────────── Created changelog entry for binNMU version 1.2.10+dfsg-1clang1 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-4bb226fb-8f30-4595-afe4-609f3d98a151 SCHROOT_UID=1000 SCHROOT_USER=user SHELL=/bin/sh USER=user dpkg-buildpackage ───────────────── dpkg-buildpackage: source package velvet dpkg-buildpackage: source version 1.2.10+dfsg-1clang1 dpkg-buildpackage: source distribution unstable dpkg-source --before-build velvet-1.2.10+dfsg dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean dh clean dh_testdir debian/rules override_dh_auto_clean make[1]: Entering directory '/«BUILDDIR»/velvet-1.2.10+dfsg' dh_auto_clean make[2]: Entering directory '/«BUILDDIR»/velvet-1.2.10+dfsg' rm obj/*.o obj/dbg/*.o ./velvet* rm: cannot remove 'obj/*.o': No such file or directory rm: cannot remove 'obj/dbg/*.o': No such file or directory rm: cannot remove './velvet*': No such file or directory make[2]: [clean] Error 1 (ignored) Makefile:45: recipe for target 'clean' failed rm -f doc/manual_src/Manual.toc doc/manual_src/Manual.aux doc/manual_src/Manual.out doc/manual_src/Manual.log rm -f doc/manual_src/Columbus_manual.aux doc/manual_src/Columbus_manual.out doc/manual_src/Columbus_manual.log make[2]: Leaving directory '/«BUILDDIR»/velvet-1.2.10+dfsg' rm -rf zlib make[1]: Leaving directory '/«BUILDDIR»/velvet-1.2.10+dfsg' dh_clean debian/rules build-arch dh build-arch dh_testdir -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/«BUILDDIR»/velvet-1.2.10+dfsg' touch zlib # prevents the zlib in the ‘third-party’ folder to be built. dh_auto_build -- OPENMP=1 CPPFLAGS="-D_FORTIFY_SOURCE=2" CFLAGS="-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security" LDFLAGS="-Wl,-z,relro" make[2]: Entering directory '/«BUILDDIR»/velvet-1.2.10+dfsg' rm obj/*.o obj/dbg/*.o rm: cannot remove 'obj/*.o': No such file or directory rm: cannot remove 'obj/dbg/*.o': No such file or directory Makefile:50: recipe for target 'cleanobj' failed make[2]: [cleanobj] Error 1 (ignored) mkdir -p obj gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/tightString.c -o obj/tightString.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/run.c -o obj/run.o clang: warning: argument unused during compilation: '-fopenmp' In file included from src/run.c:31: In file included from src/run.h:35: src/scaffold.h:21:9: warning: '_SSCAFFOLD_H_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _SSCAFFOLD_H_ ^~~~~~~~~~~~~ src/scaffold.h:22:9: note: '_SCAFFOLD_H_' is defined here; did you mean '_SSCAFFOLD_H_'? #define _SCAFFOLD_H_ ^~~~~~~~~~~~ _SSCAFFOLD_H_ In file included from src/run.c:31: In file included from src/run.h:30: src/readSet.h:64:16: warning: inline function 'isCreateBinary' is not defined [-Wundefined-inline] inline boolean isCreateBinary(); ^ src/run.c:245:7: note: used here if (isCreateBinary()) { ^ 2 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/splay.c -o obj/splay.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/splayTable.c -o obj/splayTable.o clang: warning: argument unused during compilation: '-fopenmp' In file included from src/splayTable.c:32: src/readSet.h:64:16: warning: inline function 'isCreateBinary' is not defined [-Wundefined-inline] inline boolean isCreateBinary(); ^ src/splayTable.c:982:6: note: used here if (isCreateBinary()) { ^ 1 warning generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/graph.c -o obj/graph.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/run2.c -o obj/run2.o clang: warning: argument unused during compilation: '-fopenmp' In file included from src/run2.c:26: In file included from src/run.h:35: src/scaffold.h:21:9: warning: '_SSCAFFOLD_H_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _SSCAFFOLD_H_ ^~~~~~~~~~~~~ src/scaffold.h:22:9: note: '_SCAFFOLD_H_' is defined here; did you mean '_SSCAFFOLD_H_'? #define _SCAFFOLD_H_ ^~~~~~~~~~~~ _SSCAFFOLD_H_ 1 warning generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/fibHeap.c -o obj/fibHeap.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/fib.c -o obj/fib.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/concatenatedGraph.c -o obj/concatenatedGraph.o clang: warning: argument unused during compilation: '-fopenmp' In file included from src/concatenatedGraph.c:25: src/graph.h:173:26: warning: inline function 'getShortReadMarkerPosition' is not defined [-Wundefined-inline] extern inline Coordinate getShortReadMarkerPosition(ShortReadMarker * marker); ^ src/concatenatedGraph.c:56:14: note: used here position = getShortReadMarkerPosition(marker); ^ In file included from src/concatenatedGraph.c:25: src/graph.h:174:20: warning: inline function 'setShortReadMarkerPosition' is not defined [-Wundefined-inline] extern inline void setShortReadMarkerPosition(ShortReadMarker * marker, ^ src/concatenatedGraph.c:59:4: note: used here setShortReadMarkerPosition(marker, position); ^ 2 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/passageMarker.c -o obj/passageMarker.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/graphStats.c -o obj/graphStats.o clang: warning: argument unused during compilation: '-fopenmp' In file included from src/graphStats.c:28: src/graph.h:173:26: warning: inline function 'getShortReadMarkerPosition' is not defined [-Wundefined-inline] extern inline Coordinate getShortReadMarkerPosition(ShortReadMarker * marker); ^ src/graphStats.c:848:19: note: used here starts[index] = getShortReadMarkerPosition(marker); ^ In file included from src/graphStats.c:28: src/graph.h:177:27: warning: inline function 'getShortReadMarkerOffset' is not defined [-Wundefined-inline] extern inline ShortLength getShortReadMarkerOffset(ShortReadMarker * marker); ^ src/graphStats.c:849:34: note: used here stops[index] = starts[index] - getShortReadMarkerOffset(marker) + readLengths[getShortReadMarkerID(marker) - 1] - 1; ^ 2 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/correctedGraph.c -o obj/correctedGraph.o clang: warning: argument unused during compilation: '-fopenmp' In file included from src/correctedGraph.c:26: src/graph.h:173:26: warning: inline function 'getShortReadMarkerPosition' is not defined [-Wundefined-inline] extern inline Coordinate getShortReadMarkerPosition(ShortReadMarker * marker); ^ src/correctedGraph.c:776:15: note: used here position = getShortReadMarkerPosition(shortMarker); ^ In file included from src/correctedGraph.c:26: src/graph.h:174:20: warning: inline function 'setShortReadMarkerPosition' is not defined [-Wundefined-inline] extern inline void setShortReadMarkerPosition(ShortReadMarker * marker, ^ src/correctedGraph.c:799:4: note: used here setShortReadMarkerPosition(shortMarker, position); ^ 2 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/dfib.c -o obj/dfib.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/dfibHeap.c -o obj/dfibHeap.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/recycleBin.c -o obj/recycleBin.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/readSet.c -o obj/readSet.o clang: warning: argument unused during compilation: '-fopenmp' src/readSet.c:641:21: warning: incompatible pointer types assigning to 'gzFile' (aka 'struct gzFile_s *') from 'AutoFile *' [-Wincompatible-pointer-types] file.gzFile = file.autoFile = NULL; ^ ~~~~~~~~~~~~~~~~~~~~ src/readSet.c:680:22: warning: incompatible pointer types assigning to 'gzFile' (aka 'struct gzFile_s *') from 'AutoFile *' [-Wincompatible-pointer-types] file1.gzFile = file1.autoFile = NULL; ^ ~~~~~~~~~~~~~~~~~~~~~ src/readSet.c:681:22: warning: incompatible pointer types assigning to 'gzFile' (aka 'struct gzFile_s *') from 'AutoFile *' [-Wincompatible-pointer-types] file2.gzFile = file2.autoFile = NULL; ^ ~~~~~~~~~~~~~~~~~~~~~ 3 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/binarySequences.c -o obj/binarySequences.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/shortReadPairs.c -o obj/shortReadPairs.o clang: warning: argument unused during compilation: '-fopenmp' In file included from src/shortReadPairs.c:34: src/scaffold.h:21:9: warning: '_SSCAFFOLD_H_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _SSCAFFOLD_H_ ^~~~~~~~~~~~~ src/scaffold.h:22:9: note: '_SCAFFOLD_H_' is defined here; did you mean '_SSCAFFOLD_H_'? #define _SCAFFOLD_H_ ^~~~~~~~~~~~ _SSCAFFOLD_H_ In file included from src/shortReadPairs.c:27: src/graph.h:173:26: warning: inline function 'getShortReadMarkerPosition' is not defined [-Wundefined-inline] extern inline Coordinate getShortReadMarkerPosition(ShortReadMarker * marker); ^ src/shortReadPairs.c:590:14: note: used here position = getShortReadMarkerPosition(marker); ^ In file included from src/shortReadPairs.c:27: src/graph.h:174:20: warning: inline function 'setShortReadMarkerPosition' is not defined [-Wundefined-inline] extern inline void setShortReadMarkerPosition(ShortReadMarker * marker, ^ src/shortReadPairs.c:593:4: note: used here setShortReadMarkerPosition(marker, position); ^ 3 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/locallyCorrectedGraph.c -o obj/locallyCorrectedGraph.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/graphReConstruction.c -o obj/graphReConstruction.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/roadMap.c -o obj/roadMap.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/preGraph.c -o obj/preGraph.o clang: warning: argument unused during compilation: '-fopenmp' In file included from src/preGraph.c:35: In file included from src/run.h:35: src/scaffold.h:21:9: warning: '_SSCAFFOLD_H_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _SSCAFFOLD_H_ ^~~~~~~~~~~~~ src/scaffold.h:22:9: note: '_SCAFFOLD_H_' is defined here; did you mean '_SSCAFFOLD_H_'? #define _SCAFFOLD_H_ ^~~~~~~~~~~~ _SSCAFFOLD_H_ 1 warning generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/preGraphConstruction.c -o obj/preGraphConstruction.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/concatenatedPreGraph.c -o obj/concatenatedPreGraph.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/readCoherentGraph.c -o obj/readCoherentGraph.o clang: warning: argument unused during compilation: '-fopenmp' In file included from src/readCoherentGraph.c:25: src/graph.h:173:26: warning: inline function 'getShortReadMarkerPosition' is not defined [-Wundefined-inline] extern inline Coordinate getShortReadMarkerPosition(ShortReadMarker * marker); ^ src/readCoherentGraph.c:367:14: note: used here position = getShortReadMarkerPosition(marker); ^ In file included from src/readCoherentGraph.c:25: src/graph.h:174:20: warning: inline function 'setShortReadMarkerPosition' is not defined [-Wundefined-inline] extern inline void setShortReadMarkerPosition(ShortReadMarker * marker, ^ src/readCoherentGraph.c:369:3: note: used here setShortReadMarkerPosition(marker, position); ^ 2 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/utility.c -o obj/utility.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/kmer.c -o obj/kmer.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/scaffold.c -o obj/scaffold.o clang: warning: argument unused during compilation: '-fopenmp' In file included from src/scaffold.c:39: src/scaffold.h:21:9: warning: '_SSCAFFOLD_H_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _SSCAFFOLD_H_ ^~~~~~~~~~~~~ src/scaffold.h:22:9: note: '_SCAFFOLD_H_' is defined here; did you mean '_SSCAFFOLD_H_'? #define _SCAFFOLD_H_ ^~~~~~~~~~~~ _SSCAFFOLD_H_ In file included from src/scaffold.c:32: src/graph.h:173:26: warning: inline function 'getShortReadMarkerPosition' is not defined [-Wundefined-inline] extern inline Coordinate getShortReadMarkerPosition(ShortReadMarker * marker); ^ src/scaffold.c:455:7: note: used here getShortReadMarkerPosition(shortMarker); ^ In file included from src/scaffold.c:32: src/graph.h:177:27: warning: inline function 'getShortReadMarkerOffset' is not defined [-Wundefined-inline] extern inline ShortLength getShortReadMarkerOffset(ShortReadMarker * marker); ^ src/scaffold.c:457:7: note: used here getShortReadMarkerOffset(shortMarker); ^ 3 warnings generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/kmerOccurenceTable.c -o obj/kmerOccurenceTable.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/allocArray.c -o obj/allocArray.o clang: warning: argument unused during compilation: '-fopenmp' gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -D MAXKMERLENGTH=31 -D CATEGORIES=2 -c src/autoOpen.c -o obj/autoOpen.o clang: warning: argument unused during compilation: '-fopenmp' src/autoOpen.c:56:19: warning: duplicate 'const' declaration specifier [-Wduplicate-decl-specifier] static const char const* decompressors[] = {"","pigz", "gunzip", "pbunzip2", "bunzip2", NULL}; ^ 1 warning generated. gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fopenmp -O3 -Wl,-z,relro -o velveth obj/tightString.o obj/run.o obj/recycleBin.o obj/splay.o obj/splayTable.o obj/readSet.o obj/binarySequences.o obj/utility.o obj/kmer.o obj/kmerOccurenceTable.o obj/autoOpen.o -lz -lm obj/run.o: In function `main': /«BUILDDIR»/velvet-1.2.10+dfsg/src/run.c:245: undefined reference to `isCreateBinary' /«BUILDDIR»/velvet-1.2.10+dfsg/src/run.c:291: undefined reference to `isCreateBinary' obj/splayTable.o: In function `inputSequenceArrayIntoSplayTableAndArchive': /«BUILDDIR»/velvet-1.2.10+dfsg/src/splayTable.c:982: undefined reference to `isCreateBinary' clang: error: linker command failed with exit code 1 (use -v to see invocation) make[2]: *** [velveth] Error 1 Makefile:70: recipe for target 'velveth' failed make[2]: Leaving directory '/«BUILDDIR»/velvet-1.2.10+dfsg' dh_auto_build: make -j1 OPENMP=1 CPPFLAGS=-D_FORTIFY_SOURCE=2 CFLAGS=-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security LDFLAGS=-Wl,-z,relro returned exit code 2 make[1]: *** [override_dh_auto_build] Error 2 debian/rules:16: recipe for target 'override_dh_auto_build' failed make[1]: Leaving directory '/«BUILDDIR»/velvet-1.2.10+dfsg' make: *** [build-arch] Error 2 debian/rules:7: recipe for target 'build-arch' failed dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 ──────────────────────────────────────────────────────────────────────────────── Build finished at 20140617-1341 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Build Architecture: amd64 Build-Space: 61136 Build-Time: 9 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 27 Job: velvet_1.2.10+dfsg-1 Machine Architecture: amd64 Package: velvet Package-Time: 68 Source-Version: 1.2.10+dfsg-1 Space: 61136 Status: attempted Version: 1.2.10+dfsg-1clang1 ──────────────────────────────────────────────────────────────────────────────── Finished at 20140617-1341 Build needed 00:01:08, 61136k disc space DC-Status: Failed 68.639012652s DC-Time-Estimation: 68.639012652 versus expected 480 (r/m: 5.993107584947373 ; m: 68.639012652)