DC-Build-Header: rdkit 201203-2 / Sat Jun 23 00:52:06 +0000 2012 DC-Task: logfile:/tmp/rdkit_201203-2_unstable_clang.log version:201203-2 chroot:unstable modes:binary-only:clang source:rdkit architecture:any esttime:3892 DC-Sbuild-call: su user -c 'sbuild -n --apt-update -d unstable -v --chroot-setup-commands=/tmp/switch-to-clang rdkit_201203-2' sbuild (Debian sbuild) 0.62.5 (13 Jul 2011) on ip-10-30-144-171.ec2.internal ╔══════════════════════════════════════════════════════════════════════════════╗ ║ rdkit 201203-2 (amd64) 23 Jun 2012 00:52 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: rdkit Version: 201203-2 Source Version: 201203-2 Distribution: unstable Architecture: amd64 I: NOTICE: Log filtering will replace 'build/rdkit-DNG93o/rdkit-201203' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/rdkit-DNG93o' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/unstable-amd64-sbuild-afdbb1ff-a4d7-4e67-ae2f-b21443d71e96' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Ign http://localhost unstable InRelease Get:1 http://localhost unstable Release.gpg [836 B] Get:2 http://localhost unstable Release [233 kB] Get:3 http://localhost unstable/main Sources/DiffIndex [7876 B] Get:4 http://localhost unstable/main amd64 Packages/DiffIndex [7876 B] Get:5 http://localhost unstable/main Translation-en/DiffIndex [7876 B] Get:6 http://localhost unstable/main 2012-06-22-1416.06.pdiff [15.9 kB] Get:7 http://localhost unstable/main amd64 2012-06-22-1416.06.pdiff [23.9 kB] Get:8 http://localhost unstable/main 2012-06-22-1416.06.pdiff [15.9 kB] Get:9 http://localhost unstable/main 2012-06-22-1416.06.pdiff [1537 B] Get:10 http://localhost unstable/main amd64 2012-06-22-1416.06.pdiff [23.9 kB] Get:11 http://localhost unstable/main 2012-06-22-2014.37.pdiff [14.8 kB] Get:12 http://localhost unstable/main 2012-06-22-1416.06.pdiff [1537 B] Get:13 http://localhost unstable/main amd64 2012-06-22-2014.37.pdiff [12.8 kB] Get:14 http://localhost unstable/main 2012-06-22-2014.37.pdiff [14.8 kB] Get:15 http://localhost unstable/main 2012-06-22-2014.37.pdiff [234 B] Get:16 http://localhost unstable/main amd64 2012-06-22-2014.37.pdiff [12.8 kB] Get:17 http://localhost unstable/main 2012-06-22-2014.37.pdiff [234 B] Fetched 327 kB in 5s (59.7 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... The following packages will be upgraded: base-passwd zlib1g 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 128 kB of archives. After this operation, 11.3 kB disk space will be freed. Get:1 http://localhost/debian/ unstable/main base-passwd amd64 3.5.25 [40.9 kB] Get:2 http://localhost/debian/ unstable/main zlib1g amd64 1:1.2.7.dfsg-13 [87.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 128 kB in 0s (8905 kB/s) (Reading database ... 11730 files and directories currently installed.) Preparing to replace base-passwd 3.5.24 (using .../base-passwd_3.5.25_amd64.deb) ... Unpacking replacement base-passwd ... Setting up base-passwd (3.5.25) ... (Reading database ... 11730 files and directories currently installed.) Preparing to replace zlib1g:amd64 1:1.2.7.dfsg-12 (using .../zlib1g_1%3a1.2.7.dfsg-13_amd64.deb) ... Unpacking replacement zlib1g:amd64 ... Setting up zlib1g:amd64 (1:1.2.7.dfsg-13) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... NOTICE: 'rdkit' packaging is maintained in the 'Svn' version control system at: svn://svn.debian.org/svn/debichem/unstable/rdkit/ Need to get 11.2 MB of source archives. Get:1 http://localhost/debian/ unstable/main rdkit 201203-2 (dsc) [1582 B] Get:2 http://localhost/debian/ unstable/main rdkit 201203-2 (tar) [11.2 MB] Get:3 http://localhost/debian/ unstable/main rdkit 201203-2 (diff) [5346 B] Fetched 11.2 MB in 0s (14.5 MB/s) Download complete and in download only mode Check arch ────────── ┌──────────────────────────────────────────────────────────────────────────────┐ │ Chroot Setup Commands │ └──────────────────────────────────────────────────────────────────────────────┘ /tmp/switch-to-clang ──────────────────── + echo 'Entering customization script...' Entering customization script... + apt-get update Ign http://localhost unstable InRelease Hit http://localhost unstable Release.gpg Hit http://localhost unstable Release Hit http://localhost unstable/main Sources/DiffIndex Hit http://localhost unstable/main amd64 Packages/DiffIndex Hit http://localhost unstable/main Translation-en/DiffIndex Reading package lists... + echo 'Install of clang' Install of clang + apt-get update Ign http://localhost unstable InRelease Hit http://localhost unstable Release.gpg Hit http://localhost unstable Release Hit http://localhost unstable/main Sources/DiffIndex Hit http://localhost unstable/main amd64 Packages/DiffIndex Hit http://localhost unstable/main Translation-en/DiffIndex Reading package lists... + apt-get install --yes --no-install-recommends clang -t unstable Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: libclang-common-dev libffi5 libllvm3.1 Recommended packages: llvm-3.1-dev python The following NEW packages will be installed: clang libclang-common-dev libffi5 libllvm3.1 0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. Need to get 13.1 MB of archives. After this operation, 35.6 MB of additional disk space will be used. Get:1 http://localhost/debian/ unstable/main libffi5 amd64 3.0.10-3 [24.8 kB] Get:2 http://localhost/debian/ unstable/main libllvm3.1 amd64 3.1-1 [7276 kB] Get:3 http://localhost/debian/ unstable/main libclang-common-dev amd64 3.1-6 [84.0 kB] Get:4 http://localhost/debian/ unstable/main clang amd64 3.1-6 [5755 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 13.1 MB in 0s (41.2 MB/s) Selecting previously unselected package libffi5:amd64. (Reading database ... 11730 files and directories currently installed.) Unpacking libffi5:amd64 (from .../libffi5_3.0.10-3_amd64.deb) ... Selecting previously unselected package libllvm3.1:amd64. Unpacking libllvm3.1:amd64 (from .../libllvm3.1_3.1-1_amd64.deb) ... Selecting previously unselected package libclang-common-dev. Unpacking libclang-common-dev (from .../libclang-common-dev_3.1-6_amd64.deb) ... Selecting previously unselected package clang. Unpacking clang (from .../archives/clang_3.1-6_amd64.deb) ... Setting up libffi5:amd64 (3.0.10-3) ... Setting up libllvm3.1:amd64 (3.1-1) ... Setting up libclang-common-dev (3.1-6) ... Setting up clang (3.1-6) ... + echo 'Replace gcc, g++ & cpp by clang' Replace gcc, g++ & cpp by clang + VERSION=4.7 + cd /usr/bin + rm g++-4.7 gcc-4.7 cpp-4.7 + ln -s clang++ g++-4.7 + ln -s clang gcc-4.7 + ln -s clang cpp-4.7 + cd - /«BUILDDIR» + echo 'Block the installation of new gcc version' Block the installation of new gcc version + echo 'gcc-4.6 hold' + dpkg --set-selections + echo 'cpp-4.6 hold' + dpkg --set-selections + echo 'g++-4.6 hold' + dpkg --set-selections + echo 'gcc-4.7 hold' + dpkg --set-selections + echo 'cpp-4.7 hold' + dpkg --set-selections + echo 'g++-4.7 hold' + dpkg --set-selections + echo 'Check if gcc, g++ & cpp are actually clang' Check if gcc, g++ & cpp are actually clang + gcc --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-fEjXCs/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/708 B of archives. After this operation, 0 B of additional disk space will be used. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 11810 files and directories currently installed.) Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 7.0.50~), cmake, flex, bison, python-support, python-dev, python-numpy, libsqlite3-dev, libboost-dev, libboost-regex-dev, libboost-python-dev Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 7.0.50~), cmake, flex, bison, python-support, python-dev, python-numpy, libsqlite3-dev, libboost-dev, libboost-regex-dev, libboost-python-dev dpkg-deb: building package `sbuild-build-depends-rdkit-dummy' in `/«BUILDDIR»/resolver-UE1wHk/apt_archive/sbuild-build-depends-rdkit-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install rdkit build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bison bsdmainutils cmake cmake-data debhelper emacsen-common file flex gccxml gettext gettext-base groff-base html2text intltool-debian libarchive12 libasprintf0c2 libbison-dev libblas3 libblas3gf libboost-dev libboost-python-dev libboost-python1.49-dev libboost-python1.49.0 libboost-regex-dev libboost-regex1.49-dev libboost-regex1.49.0 libboost1.49-dev libcroco3 libcurl3 libcurl3-gnutls libexpat1 libexpat1-dev libgcrypt11 libgettextpo0 libgfortran3 libglib2.0-0 libgnutls26 libgpg-error0 libgssapi-krb5-2 libicu-dev libicu48 libidn11 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblapack3gf libldap-2.4-2 libmagic1 libncursesw5 libnettle4 libp11-kit0 libpcre3 libpipeline1 libprocps0 libpython2.7 librtmp0 libsasl2-2 libsqlite3-0 libsqlite3-dev libssh2-1 libssl-dev libssl1.0.0 libtasn1-3 libunistring0 libxml2 libxmlrpc-core-c3 m4 man-db mime-support po-debconf procps python python-dev python-minimal python-numpy python-support python2.7 python2.7-dev python2.7-minimal zlib1g-dev Suggested packages: bison-doc wamerican wordlist whois vacation dh-make gettext-doc groff libboost-doc libboost1.49-doc python3 libboost-chrono1.49-dev libboost-date-time1.49-dev libboost-filesystem1.49-dev libboost-graph-parallel1.49-dev libboost-graph1.49-dev libboost-iostreams1.49-dev libboost-locale1.49-dev libboost-math1.49-dev libboost-mpi1.49-dev libboost-program-options1.49-dev libboost-random1.49-dev libboost-serialization1.49-dev libboost-signals1.49-dev libboost-system1.49-dev libboost-test1.49-dev libboost-thread1.49-dev libboost-timer1.49-dev libboost-wave1.49-dev xsltproc doxygen docbook-xml docbook-xsl default-jdk fop rng-tools krb5-doc krb5-user icu-doc sqlite3-doc less www-browser libmail-box-perl python-doc python-tk python-numpy-doc python-numpy-dbg python-nose gfortran python2.7-doc binfmt-support Recommended packages: curl wget lynx-cur autopoint ca-certificates libglib2.0-data shared-mime-info krb5-locales libgpm2 libsasl2-modules libssl-doc xml-core libmail-sendmail-perl psmisc The following NEW packages will be installed: bison bsdmainutils cmake cmake-data debhelper emacsen-common file flex gccxml gettext gettext-base groff-base html2text intltool-debian libarchive12 libasprintf0c2 libbison-dev libblas3 libblas3gf libboost-dev libboost-python-dev libboost-python1.49-dev libboost-python1.49.0 libboost-regex-dev libboost-regex1.49-dev libboost-regex1.49.0 libboost1.49-dev libcroco3 libcurl3 libcurl3-gnutls libexpat1 libexpat1-dev libgcrypt11 libgettextpo0 libgfortran3 libglib2.0-0 libgnutls26 libgpg-error0 libgssapi-krb5-2 libicu-dev libicu48 libidn11 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblapack3gf libldap-2.4-2 libmagic1 libncursesw5 libnettle4 libp11-kit0 libpcre3 libpipeline1 libprocps0 libpython2.7 librtmp0 libsasl2-2 libsqlite3-0 libsqlite3-dev libssh2-1 libssl-dev libssl1.0.0 libtasn1-3 libunistring0 libxml2 libxmlrpc-core-c3 m4 man-db mime-support po-debconf procps python python-dev python-minimal python-numpy python-support python2.7 python2.7-dev python2.7-minimal sbuild-build-depends-rdkit-dummy zlib1g-dev 0 upgraded, 83 newly installed, 0 to remove and 0 not upgraded. Need to get 96.4 MB/96.4 MB of archives. After this operation, 305 MB of additional disk space will be used. Get:1 http://localhost/debian/ unstable/main libncursesw5 amd64 5.9-9 [141 kB] Get:2 http://localhost/debian/ unstable/main libpipeline1 amd64 1.2.1-1 [39.2 kB] Get:3 http://localhost/debian/ unstable/main libprocps0 amd64 1:3.3.3-2 [58.1 kB] Get:4 http://localhost/debian/ unstable/main libssl1.0.0 amd64 1.0.1c-3 [1211 kB] Get:5 http://localhost/debian/ unstable/main libasprintf0c2 amd64 0.18.1.1-9 [26.8 kB] Get:6 http://localhost/debian/ unstable/main libgpg-error0 amd64 1.10-3 [66.8 kB] Get:7 http://localhost/debian/ unstable/main libgcrypt11 amd64 1.5.0-3 [298 kB] Get:8 http://localhost/debian/ unstable/main libp11-kit0 amd64 0.12-3 [52.8 kB] Get:9 http://localhost/debian/ unstable/main libtasn1-3 amd64 2.13-2 [67.7 kB] Get:10 http://localhost/debian/ unstable/main libgnutls26 amd64 2.12.20-1 [616 kB] Get:11 http://localhost/debian/ unstable/main libkeyutils1 amd64 1.5.5-2 [9300 B] Get:12 http://localhost/debian/ unstable/main libkrb5support0 amd64 1.10.1+dfsg-1 [49.0 kB] Get:13 http://localhost/debian/ unstable/main libk5crypto3 amd64 1.10.1+dfsg-1 [112 kB] Get:14 http://localhost/debian/ unstable/main libkrb5-3 amd64 1.10.1+dfsg-1 [393 kB] Get:15 http://localhost/debian/ unstable/main libgssapi-krb5-2 amd64 1.10.1+dfsg-1 [147 kB] Get:16 http://localhost/debian/ unstable/main libidn11 amd64 1.25-2 [178 kB] Get:17 http://localhost/debian/ unstable/main libsasl2-2 amd64 2.1.25.dfsg1-4+b1 [120 kB] Get:18 http://localhost/debian/ unstable/main libldap-2.4-2 amd64 2.4.28-1.3 [240 kB] Get:19 http://localhost/debian/ unstable/main libmagic1 amd64 5.11-1 [250 kB] Get:20 http://localhost/debian/ unstable/main libpcre3 amd64 1:8.30-5 [242 kB] Get:21 http://localhost/debian/ unstable/main libsqlite3-0 amd64 3.7.13-1 [455 kB] Get:22 http://localhost/debian/ unstable/main libxml2 amd64 2.8.0+dfsg1-4 [903 kB] Get:23 http://localhost/debian/ unstable/main m4 amd64 1.4.16-3 [260 kB] Get:24 http://localhost/debian/ unstable/main flex amd64 2.5.35-10 [332 kB] Get:25 http://localhost/debian/ unstable/main libnettle4 amd64 2.4-1 [149 kB] Get:26 http://localhost/debian/ unstable/main libarchive12 amd64 3.0.4-2 [303 kB] Get:27 http://localhost/debian/ unstable/main libglib2.0-0 amd64 2.32.3-1 [2081 kB] Get:28 http://localhost/debian/ unstable/main libcroco3 amd64 0.6.5-1 [151 kB] Get:29 http://localhost/debian/ unstable/main librtmp0 amd64 2.4+20111222.git4e06e21-1 [62.3 kB] Get:30 http://localhost/debian/ unstable/main libssh2-1 amd64 1.4.2-1 [79.0 kB] Get:31 http://localhost/debian/ unstable/main libcurl3 amd64 7.26.0-1 [330 kB] Get:32 http://localhost/debian/ unstable/main libcurl3-gnutls amd64 7.26.0-1 [321 kB] Get:33 http://localhost/debian/ unstable/main libexpat1 amd64 2.1.0-1 [141 kB] Get:34 http://localhost/debian/ unstable/main libunistring0 amd64 0.9.3-5 [434 kB] Get:35 http://localhost/debian/ unstable/main libgettextpo0 amd64 0.18.1.1-9 [145 kB] Get:36 http://localhost/debian/ unstable/main libgfortran3 amd64 4.7.1-1 [352 kB] Get:37 http://localhost/debian/ unstable/main libicu48 amd64 4.8.1.1-8 [8138 kB] Get:38 http://localhost/debian/ unstable/main bsdmainutils amd64 9.0.3 [209 kB] Get:39 http://localhost/debian/ unstable/main groff-base amd64 1.21-8 [1152 kB] Get:40 http://localhost/debian/ unstable/main man-db amd64 2.6.2-1 [1061 kB] Get:41 http://localhost/debian/ unstable/main procps amd64 1:3.3.3-2 [252 kB] Get:42 http://localhost/debian/ unstable/main file amd64 5.11-1 [53.2 kB] Get:43 http://localhost/debian/ unstable/main gettext-base amd64 0.18.1.1-9 [154 kB] Get:44 http://localhost/debian/ unstable/main mime-support all 3.52-1 [35.5 kB] Get:45 http://localhost/debian/ unstable/main python2.7-minimal amd64 2.7.3-1 [1770 kB] Get:46 http://localhost/debian/ unstable/main python2.7 amd64 2.7.3-1 [2726 kB] Get:47 http://localhost/debian/ unstable/main python-minimal all 2.7.3~rc2-1 [40.4 kB] Get:48 http://localhost/debian/ unstable/main python all 2.7.3~rc2-1 [179 kB] Get:49 http://localhost/debian/ unstable/main python-support all 1.0.14 [33.5 kB] Get:50 http://localhost/debian/ unstable/main libbison-dev amd64 1:2.5.dfsg-2.1 [289 kB] Get:51 http://localhost/debian/ unstable/main bison amd64 1:2.5.dfsg-2.1 [689 kB] Get:52 http://localhost/debian/ unstable/main libxmlrpc-core-c3 amd64 1.16.33-3.1 [181 kB] Get:53 http://localhost/debian/ unstable/main emacsen-common all 2.0.3 [20.3 kB] Get:54 http://localhost/debian/ unstable/main cmake-data all 2.8.8-3 [1343 kB] Get:55 http://localhost/debian/ unstable/main cmake amd64 2.8.8-3 [4688 kB] Get:56 http://localhost/debian/ unstable/main html2text amd64 1.3.2a-15 [103 kB] Get:57 http://localhost/debian/ unstable/main gettext amd64 0.18.1.1-9 [1975 kB] Get:58 http://localhost/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:59 http://localhost/debian/ unstable/main po-debconf all 1.0.16+nmu2 [224 kB] Get:60 http://localhost/debian/ unstable/main debhelper all 9.20120608 [700 kB] Get:61 http://localhost/debian/ unstable/main gccxml amd64 0.9.0+cvs20120420-3 [4324 kB] Get:62 http://localhost/debian/ unstable/main libblas3 amd64 1.2.20110419-3 [293 kB] Get:63 http://localhost/debian/ unstable/main libblas3gf amd64 1.2.20110419-3 [7804 B] Get:64 http://localhost/debian/ unstable/main libboost1.49-dev amd64 1.49.0-3 [9266 kB] Get:65 http://localhost/debian/ unstable/main libboost-dev amd64 1.49.0.1 [3022 B] Get:66 http://localhost/debian/ unstable/main libboost-python1.49.0 amd64 1.49.0-3 [359 kB] Get:67 http://localhost/debian/ unstable/main libpython2.7 amd64 2.7.3-1 [1212 kB] Get:68 http://localhost/debian/ unstable/main libexpat1-dev amd64 2.1.0-1 [229 kB] Get:69 http://localhost/debian/ unstable/main zlib1g-dev amd64 1:1.2.7.dfsg-13 [215 kB] Get:70 http://localhost/debian/ unstable/main libssl-dev amd64 1.0.1c-3 [1696 kB] Get:71 http://localhost/debian/ unstable/main python2.7-dev amd64 2.7.3-1 [22.3 MB] Get:72 http://localhost/debian/ unstable/main python-dev all 2.7.3~rc2-1 [912 B] Get:73 http://localhost/debian/ unstable/main libboost-python1.49-dev amd64 1.49.0-3 [506 kB] Get:74 http://localhost/debian/ unstable/main libboost-python-dev amd64 1.49.0.1 [3108 B] Get:75 http://localhost/debian/ unstable/main libboost-regex1.49.0 amd64 1.49.0-3 [433 kB] Get:76 http://localhost/debian/ unstable/main libicu-dev amd64 4.8.1.1-8 [9835 kB] Get:77 http://localhost/debian/ unstable/main libboost-regex1.49-dev amd64 1.49.0-3 [617 kB] Get:78 http://localhost/debian/ unstable/main libboost-regex-dev amd64 1.49.0.1 [2970 B] Get:79 http://localhost/debian/ unstable/main liblapack3 amd64 3.4.1-3 [5035 kB] Get:80 http://localhost/debian/ unstable/main liblapack3gf amd64 3.4.1-3 [10.5 kB] Get:81 http://localhost/debian/ unstable/main libsqlite3-dev amd64 3.7.13-1 [578 kB] Get:82 http://localhost/debian/ unstable/main python-numpy amd64 1:1.6.2-1 [2631 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 96.4 MB in 2s (33.3 MB/s) Selecting previously unselected package libncursesw5:amd64. (Reading database ... 11810 files and directories currently installed.) Unpacking libncursesw5:amd64 (from .../libncursesw5_5.9-9_amd64.deb) ... Selecting previously unselected package libpipeline1:amd64. Unpacking libpipeline1:amd64 (from .../libpipeline1_1.2.1-1_amd64.deb) ... Selecting previously unselected package libprocps0:amd64. Unpacking libprocps0:amd64 (from .../libprocps0_1%3a3.3.3-2_amd64.deb) ... Selecting previously unselected package libssl1.0.0:amd64. Unpacking libssl1.0.0:amd64 (from .../libssl1.0.0_1.0.1c-3_amd64.deb) ... Selecting previously unselected package libasprintf0c2:amd64. Unpacking libasprintf0c2:amd64 (from .../libasprintf0c2_0.18.1.1-9_amd64.deb) ... Selecting previously unselected package libgpg-error0:amd64. Unpacking libgpg-error0:amd64 (from .../libgpg-error0_1.10-3_amd64.deb) ... Selecting previously unselected package libgcrypt11:amd64. Unpacking libgcrypt11:amd64 (from .../libgcrypt11_1.5.0-3_amd64.deb) ... 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Unpacking sbuild-build-depends-rdkit-dummy (from .../sbuild-build-depends-rdkit-dummy.deb) ... Setting up libncursesw5:amd64 (5.9-9) ... Setting up libpipeline1:amd64 (1.2.1-1) ... Setting up libprocps0:amd64 (1:3.3.3-2) ... Setting up libssl1.0.0:amd64 (1.0.1c-3) ... Setting up libasprintf0c2:amd64 (0.18.1.1-9) ... Setting up libgpg-error0:amd64 (1.10-3) ... Setting up libgcrypt11:amd64 (1.5.0-3) ... Setting up libp11-kit0:amd64 (0.12-3) ... Setting up libtasn1-3:amd64 (2.13-2) ... Setting up libgnutls26:amd64 (2.12.20-1) ... Setting up libkeyutils1:amd64 (1.5.5-2) ... Setting up libkrb5support0:amd64 (1.10.1+dfsg-1) ... Setting up libk5crypto3:amd64 (1.10.1+dfsg-1) ... Setting up libkrb5-3:amd64 (1.10.1+dfsg-1) ... Setting up libgssapi-krb5-2:amd64 (1.10.1+dfsg-1) ... Setting up libidn11:amd64 (1.25-2) ... Setting up libsasl2-2:amd64 (2.1.25.dfsg1-4+b1) ... Setting up libldap-2.4-2:amd64 (2.4.28-1.3) ... Setting up libmagic1:amd64 (5.11-1) ... 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Setting up bsdmainutils (9.0.3) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode. update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode. Setting up groff-base (1.21-8) ... Setting up man-db (2.6.2-1) ... Building database of manual pages ... Setting up procps (1:3.3.3-2) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode. All runlevel operations denied by policy invoke-rc.d: policy-rc.d denied execution of start. Setting up file (5.11-1) ... Setting up gettext-base (0.18.1.1-9) ... Setting up mime-support (3.52-1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode. Setting up python2.7-minimal (2.7.3-1) ... Setting up python2.7 (2.7.3-1) ... Setting up python-minimal (2.7.3~rc2-1) ... Setting up python (2.7.3~rc2-1) ... Setting up python-support (1.0.14) ... Setting up libbison-dev:amd64 (1:2.5.dfsg-2.1) ... Setting up bison (1:2.5.dfsg-2.1) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode. Setting up libxmlrpc-core-c3 (1.16.33-3.1) ... Setting up emacsen-common (2.0.3) ... Setting up cmake-data (2.8.8-3) ... Install emacsen-common for emacs Install cmake-data for emacs Setting up cmake (2.8.8-3) ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-9) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20120608) ... Setting up gccxml (0.9.0+cvs20120420-3) ... Setting up libblas3 (1.2.20110419-3) ... update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode. Setting up libblas3gf (1.2.20110419-3) ... Setting up libboost1.49-dev (1.49.0-3) ... Setting up libboost-dev (1.49.0.1) ... Setting up libboost-python1.49.0 (1.49.0-3) ... Setting up libpython2.7 (2.7.3-1) ... 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Processing triggers for python-support ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 2.6.32-5-xen-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.22-6.1 dpkg-dev_1.16.4.3 g++-4.6_4.6.3-7 g++-4.7_4.7.1-1 gcc-4.6_4.6.3-7 gcc-4.7_4.7.1-1 libc6-dev_2.13-33 libstdc++6_4.7.1-1 libstdc++6-4.6-dev_4.6.3-7 libstdc++6-4.7-dev_4.7.1-1 linux-libc-dev_3.2.20-1 Package versions: apt_0.9.7 base-files_6.11 base-passwd_3.5.25 bash_4.2-2 binutils_2.22-6.1 bison_1:2.5.dfsg-2.1 bsdmainutils_9.0.3 bsdutils_1:2.20.1-5 build-essential_11.5 bzip2_1.0.6-3 clang_3.1-6 cmake_2.8.8-3 cmake-data_2.8.8-3 coreutils_8.13-3.2 cpp_4:4.7.0-6 cpp-4.6_4.6.3-7 cpp-4.7_4.7.1-1 dash_0.5.7-3 debconf_1.5.44 debconf-i18n_1.5.44 debfoster_2.7-1.1 debhelper_9.20120608 debian-archive-keyring_2012.4 debianutils_4.3.1 diffutils_1:3.2-6 dpkg_1.16.4.3 dpkg-dev_1.16.4.3 e2fslibs_1.42.4-3 e2fsprogs_1.42.4-3 emacsen-common_2.0.3 fakeroot_1.18.4-2 file_5.11-1 findutils_4.4.2-4 flex_2.5.35-10 g++_4:4.7.0-6 g++-4.6_4.6.3-7 g++-4.7_4.7.1-1 gcc_4:4.7.0-6 gcc-4.4-base_4.4.7-1 gcc-4.5-base_4.5.3-12 gcc-4.6_4.6.3-7 gcc-4.6-base_4.6.3-7 gcc-4.7_4.7.1-1 gcc-4.7-base_4.7.1-1 gccxml_0.9.0+cvs20120420-3 gettext_0.18.1.1-9 gettext-base_0.18.1.1-9 gnupg_1.4.12-4 gpgv_1.4.12-4 grep_2.12-2 groff-base_1.21-8 gzip_1.5-1.1 hostname_3.11 html2text_1.3.2a-15 initscripts_2.88dsf-27 insserv_1.14.0-3 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-8 libapt-pkg4.12_0.9.7 libarchive12_3.0.4-2 libasprintf0c2_0.18.1.1-9 libattr1_1:2.4.46-8 libbison-dev_1:2.5.dfsg-2.1 libblas3_1.2.20110419-3 libblas3gf_1.2.20110419-3 libblkid1_2.20.1-5 libboost-dev_1.49.0.1 libboost-python-dev_1.49.0.1 libboost-python1.49-dev_1.49.0-3 libboost-python1.49.0_1.49.0-3 libboost-regex-dev_1.49.0.1 libboost-regex1.49-dev_1.49.0-3 libboost-regex1.49.0_1.49.0-3 libboost1.49-dev_1.49.0-3 libbz2-1.0_1.0.6-3 libc-bin_2.13-33 libc-dev-bin_2.13-33 libc6_2.13-33 libc6-dev_2.13-33 libclang-common-dev_3.1-6 libclass-isa-perl_0.36-3 libcomerr2_1.42.4-3 libcroco3_0.6.5-1 libcurl3_7.26.0-1 libcurl3-gnutls_7.26.0-1 libdb5.1_5.1.29-4 libdpkg-perl_1.16.4.3 libexpat1_2.1.0-1 libexpat1-dev_2.1.0-1 libffi5_3.0.10-3 libfile-fcntllock-perl_0.14-2 libgc1c2_1:7.1-8 libgcc1_1:4.7.1-1 libgcrypt11_1.5.0-3 libgdbm3_1.8.3-11 libgettextpo0_0.18.1.1-9 libgfortran3_4.7.1-1 libglib2.0-0_2.32.3-1 libgmp10_2:5.0.5+dfsg-2 libgnutls26_2.12.20-1 libgomp1_4.7.1-1 libgpg-error0_1.10-3 libgssapi-krb5-2_1.10.1+dfsg-1 libicu-dev_4.8.1.1-8 libicu48_4.8.1.1-8 libidn11_1.25-2 libitm1_4.7.1-1 libk5crypto3_1.10.1+dfsg-1 libkeyutils1_1.5.5-2 libkrb5-3_1.10.1+dfsg-1 libkrb5support0_1.10.1+dfsg-1 liblapack3_3.4.1-3 liblapack3gf_3.4.1-3 libldap-2.4-2_2.4.28-1.3 libllvm3.1_3.1-1 liblocale-gettext-perl_1.05-7+b1 liblzma5_5.1.1alpha+20120614-1 libmagic1_5.11-1 libmount1_2.20.1-5 libmpc2_0.9-4 libmpfr4_3.1.0-5 libncurses5_5.9-9 libncursesw5_5.9-9 libnettle4_2.4-1 libp11-kit0_0.12-3 libpam-modules_1.1.3-7.1 libpam-modules-bin_1.1.3-7.1 libpam-runtime_1.1.3-7.1 libpam0g_1.1.3-7.1 libpcre3_1:8.30-5 libpipeline1_1.2.1-1 libprocps0_1:3.3.3-2 libpython2.7_2.7.3-1 libquadmath0_4.7.1-1 libreadline6_6.2-8 librtmp0_2.4+20111222.git4e06e21-1 libsasl2-2_2.1.25.dfsg1-4+b1 libselinux1_2.1.9-5 libsemanage-common_2.1.6-6 libsemanage1_2.1.6-6 libsepol1_2.1.4-3 libslang2_2.2.4-13 libsqlite3-0_3.7.13-1 libsqlite3-dev_3.7.13-1 libss2_1.42.4-3 libssh2-1_1.4.2-1 libssl-dev_1.0.1c-3 libssl1.0.0_1.0.1c-3 libstdc++6_4.7.1-1 libstdc++6-4.6-dev_4.6.3-7 libstdc++6-4.7-dev_4.7.1-1 libswitch-perl_2.16-2 libtasn1-3_2.13-2 libtext-charwidth-perl_0.04-7+b1 libtext-iconv-perl_1.7-5 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libtinfo5_5.9-9 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5 libxml2_2.8.0+dfsg1-4 libxmlrpc-core-c3_1.16.33-3.1 linux-libc-dev_3.2.20-1 login_1:4.1.5.1-1 lsb-base_4.1+Debian7 m4_1.4.16-3 make_3.81-8.2 man-db_2.6.2-1 mawk_1.3.3-17 mime-support_3.52-1 mount_2.20.1-5 multiarch-support_2.13-33 ncurses-base_5.9-9 ncurses-bin_5.9-9 passwd_1:4.1.5.1-1 patch_2.6.1-3 perl_5.14.2-12 perl-base_5.14.2-12 perl-modules_5.14.2-12 po-debconf_1.0.16+nmu2 procps_1:3.3.3-2 python_2.7.3~rc2-1 python-dev_2.7.3~rc2-1 python-minimal_2.7.3~rc2-1 python-numpy_1:1.6.2-1 python-support_1.0.14 python2.7_2.7.3-1 python2.7-dev_2.7.3-1 python2.7-minimal_2.7.3-1 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-rdkit-dummy_0.invalid.0 sed_4.2.1-10 sensible-utils_0.0.7 sysv-rc_2.88dsf-27 sysvinit_2.88dsf-27 sysvinit-utils_2.88dsf-27 tar_1.26-4 tzdata_2012c-1 ucf_3.0025+nmu3 util-linux_2.20.1-5 xz-utils_5.1.1alpha+20120614-1 zlib1g_1:1.2.7.dfsg-13 zlib1g-dev_1:1.2.7.dfsg-13 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Tue Jun 12 13:51:58 2012 UTC using DSA key ID 9ED101BF gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./rdkit_201203-2.dsc dpkg-source: info: extracting rdkit in rdkit-201203 dpkg-source: info: unpacking rdkit_201203.orig.tar.gz dpkg-source: info: unpacking rdkit_201203-2.debian.tar.gz Check disc space ──────────────── Sufficient free space for build User Environment ──────────────── HOME=/sbuild-nonexistent LOGNAME=root PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/bin/X11 SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=0 SCHROOT_GROUP=root SCHROOT_SESSION_ID=unstable-amd64-sbuild-afdbb1ff-a4d7-4e67-ae2f-b21443d71e96 SCHROOT_UID=0 SCHROOT_USER=root SHELL=/bin/sh USER=root dpkg-buildpackage ───────────────── dpkg-buildpackage: warning: using a gain-root-command while being root dpkg-buildpackage: source package rdkit dpkg-buildpackage: source version 201203-2 dpkg-buildpackage: source changed by Michael Banck dpkg-source --before-build rdkit-201203 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean dh clean --buildsystem=cmake dh_testdir -O--buildsystem=cmake debian/rules override_dh_auto_clean make[1]: Entering directory `/«PKGBUILDDIR»' find /«PKGBUILDDIR» -name "*.pyc" | xargs rm -f rm -rf /«PKGBUILDDIR»/Projects/DbCLI/testData/bzr/ dh_auto_clean make[1]: Leaving directory `/«PKGBUILDDIR»' dh_clean -O--buildsystem=cmake debian/rules build-arch dh build-arch --buildsystem=cmake dh_testdir -a -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory `/«PKGBUILDDIR»' dh_auto_configure -- -DRDK_INSTALL_INTREE=OFF -DRDK_INSTALL_STATIC_LIBS=OFF -- The C compiler identification is Clang 3.1.0 -- The CXX compiler identification is Clang 3.1.0 -- Check for working C compiler: /usr/bin/gcc -- Check for working C compiler: /usr/bin/gcc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Found PythonLibs: /usr/lib/libpython2.7.so (found version "2.7.3") -- Found PythonInterp: /usr/bin/python (found version "2.7.3") -- Boost version: 1.49.0 -- Found the following Boost libraries: -- python Python Install directory /usr/lib/python2.7/dist-packages -- Found BISON: /usr/bin/bison -- Found FLEX: /usr/bin/flex -- Looking for include file pthread.h -- Looking for include file pthread.h - found -- Looking for pthread_create -- Looking for pthread_create - not found. -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE -- Boost version: 1.49.0 -- Found the following Boost libraries: -- regex -- Configuring done -- Generating done -- Build files have been written to: /«PKGBUILDDIR»/obj-x86_64-linux-gnu make[1]: Leaving directory `/«PKGBUILDDIR»' dh_auto_build -a -O--buildsystem=cmake make[1]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -H/«PKGBUILDDIR» -B/«PKGBUILDDIR»/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f External/cmim-1.0/CMakeFiles/fastentropy.dir/build.make External/cmim-1.0/CMakeFiles/fastentropy.dir/depend make[3]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /«PKGBUILDDIR» /«PKGBUILDDIR»/External/cmim-1.0 /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/External/cmim-1.0 /«PKGBUILDDIR»/obj-x86_64-linux-gnu/External/cmim-1.0/CMakeFiles/fastentropy.dir/DependInfo.cmake --color= Scanning dependencies of target fastentropy make[3]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f External/cmim-1.0/CMakeFiles/fastentropy.dir/build.make External/cmim-1.0/CMakeFiles/fastentropy.dir/build make[3]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 0%] Building CXX object External/cmim-1.0/CMakeFiles/fastentropy.dir/fastentropy.cc.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/External/cmim-1.0 && /usr/bin/c++ -DRDK_64BIT_BUILD -O3 -DNDEBUG -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/fastentropy.dir/fastentropy.cc.o -c /«PKGBUILDDIR»/External/cmim-1.0/fastentropy.cc /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 74 [ 1%] Building CXX object External/cmim-1.0/CMakeFiles/fastentropy.dir/misc.cc.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/External/cmim-1.0 && /usr/bin/c++ -DRDK_64BIT_BUILD -O3 -DNDEBUG -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/fastentropy.dir/misc.cc.o -c /«PKGBUILDDIR»/External/cmim-1.0/misc.cc Linking CXX static library libfastentropy.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/External/cmim-1.0 && /usr/bin/cmake -P CMakeFiles/fastentropy.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/External/cmim-1.0 && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastentropy.dir/link.txt --verbose=1 /usr/bin/ar cr libfastentropy.a CMakeFiles/fastentropy.dir/fastentropy.cc.o CMakeFiles/fastentropy.dir/misc.cc.o /usr/bin/ranlib libfastentropy.a make[3]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 74 [ 1%] Built target fastentropy make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/depend make[3]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /«PKGBUILDDIR» /«PKGBUILDDIR»/External/INCHI-API /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/External/INCHI-API /«PKGBUILDDIR»/obj-x86_64-linux-gnu/External/INCHI-API/CMakeFiles/inchi_support.dir/DependInfo.cmake --color= Scanning dependencies of target inchi_support make[3]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/build make[3]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/External/INCHI-API && /usr/bin/cmake -E copy /«PKGBUILDDIR»/External/INCHI-API/python/noinchi.py /«PKGBUILDDIR»/rdkit/Chem/inchi.py make[3]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 1%] Built target inchi_support make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend make[3]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /«PKGBUILDDIR» /«PKGBUILDDIR»/Code/RDGeneral /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral/CMakeFiles/RDGeneral.dir/DependInfo.cmake --color= Scanning dependencies of target RDGeneral make[3]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/build make[3]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 1%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/Invariant.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDK_64BIT_BUILD -O3 -DNDEBUG -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral.dir/Invariant.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/Invariant.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 53 [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/types.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDK_64BIT_BUILD -O3 -DNDEBUG -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral.dir/types.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/types.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/utils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDK_64BIT_BUILD -O3 -DNDEBUG -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral.dir/utils.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/utils.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/RDLog.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDK_64BIT_BUILD -O3 -DNDEBUG -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral.dir/RDLog.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/RDLog.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 2%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/Dict.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDK_64BIT_BUILD -O3 -DNDEBUG -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral.dir/Dict.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/Dict.cpp Linking CXX shared library ../../lib/libRDGeneral.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeneral.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -O3 -DNDEBUG -shared -Wl,-soname,libRDGeneral.so.1 -o ../../lib/libRDGeneral.so.1.2012.03.1 CMakeFiles/RDGeneral.dir/Invariant.cpp.o CMakeFiles/RDGeneral.dir/types.cpp.o CMakeFiles/RDGeneral.dir/utils.cpp.o CMakeFiles/RDGeneral.dir/RDLog.cpp.o CMakeFiles/RDGeneral.dir/Dict.cpp.o -L/usr/lib/libpython2.7.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDGeneral.so.1.2012.03.1 ../../lib/libRDGeneral.so.1 ../../lib/libRDGeneral.so make[3]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 53 [ 2%] Built target RDGeneral make -f Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/depend make[3]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /«PKGBUILDDIR» /«PKGBUILDDIR»/Code/RDGeneral /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/DependInfo.cmake --color= Scanning dependencies of target RDGeneral_static make[3]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/build make[3]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 54 [ 3%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/Invariant.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDK_64BIT_BUILD -O3 -DNDEBUG -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral_static.dir/Invariant.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/Invariant.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 3%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/types.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDK_64BIT_BUILD -O3 -DNDEBUG -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral_static.dir/types.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/types.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 3%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/utils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDK_64BIT_BUILD -O3 -DNDEBUG -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral_static.dir/utils.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/utils.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 3%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/RDLog.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDK_64BIT_BUILD -O3 -DNDEBUG -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral_static.dir/RDLog.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/RDLog.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 55 [ 4%] Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/Dict.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDK_64BIT_BUILD -O3 -DNDEBUG -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral_static.dir/Dict.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/Dict.cpp Linking CXX static library libRDGeneral_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -P CMakeFiles/RDGeneral_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeneral_static.dir/link.txt --verbose=1 /usr/bin/ar cr libRDGeneral_static.a CMakeFiles/RDGeneral_static.dir/Invariant.cpp.o CMakeFiles/RDGeneral_static.dir/types.cpp.o CMakeFiles/RDGeneral_static.dir/utils.cpp.o CMakeFiles/RDGeneral_static.dir/RDLog.cpp.o CMakeFiles/RDGeneral_static.dir/Dict.cpp.o /usr/bin/ranlib libRDGeneral_static.a make[3]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 54 55 [ 4%] Built target RDGeneral_static make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/depend make[3]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /«PKGBUILDDIR» /«PKGBUILDDIR»/Code/RDGeneral /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral/CMakeFiles/testDict.dir/DependInfo.cmake --color= Scanning dependencies of target testDict make[3]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/RDGeneral/CMakeFiles/testDict.dir/build.make Code/RDGeneral/CMakeFiles/testDict.dir/build make[3]: Entering directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 4%] Building CXX object Code/RDGeneral/CMakeFiles/testDict.dir/testDict.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDK_64BIT_BUILD -O3 -DNDEBUG -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/testDict.dir/testDict.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/testDict.cpp Linking CXX executable testDict cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDict.dir/link.txt --verbose=1 /usr/bin/c++ -O3 -DNDEBUG CMakeFiles/testDict.dir/testDict.cpp.o -o testDict -rdynamic -L/usr/lib/libpython2.7.so ../../lib/libRDGeneral.so.1.2012.03.1 -Wl,-rpath,/usr/lib/libpython2.7.so:/«PKGBUILDDIR»/obj-x86_64-linux-gnu/lib CMakeFiles/testDict.dir/testDict.cpp.o: In function `void RDKit::Dict::setVal >, std::allocator > > > >(std::string const&, std::vector >, std::allocator > > >&)': /«PKGBUILDDIR»/Code/RDGeneral/testDict.cpp:(.text._ZN5RDKit4Dict6setValISt6vectorIS2_IiSaIiEESaIS4_EEEEvRKSsRT_[_ZN5RDKit4Dict6setValISt6vectorIS2_IiSaIiEESaIS4_EEEEvRKSsRT_]+0xc5): undefined reference to `boost::any RDKit::Dict::toany >, std::allocator > > > >(std::vector >, std::allocator > > >) const' CMakeFiles/testDict.dir/testDict.cpp.o: In function `void RDKit::Dict::getVal > >(std::string const&, std::vector >&) const': /«PKGBUILDDIR»/Code/RDGeneral/testDict.cpp:(.text._ZNK5RDKit4Dict6getValISt6vectorIiSaIiEEEEvRKSsRT_[_ZNK5RDKit4Dict6getValISt6vectorIiSaIiEEEEvRKSsRT_]+0x34): undefined reference to `std::vector > RDKit::Dict::fromany > >(boost::any const&) const' CMakeFiles/testDict.dir/testDict.cpp.o: In function `void RDKit::Dict::setVal > >(std::string const&, std::vector >&)': /«PKGBUILDDIR»/Code/RDGeneral/testDict.cpp:(.text._ZN5RDKit4Dict6setValISt6vectorIiSaIiEEEEvRKSsRT_[_ZN5RDKit4Dict6setValISt6vectorIiSaIiEEEEvRKSsRT_]+0xc2): undefined reference to `boost::any RDKit::Dict::toany > >(std::vector >) const' CMakeFiles/testDict.dir/testDict.cpp.o: In function `void RDKit::Dict::getVal(std::string const&, int&) const': /«PKGBUILDDIR»/Code/RDGeneral/testDict.cpp:(.text._ZNK5RDKit4Dict6getValIiEEvRKSsRT_[_ZNK5RDKit4Dict6getValIiEEvRKSsRT_]+0x2d): undefined reference to `int RDKit::Dict::fromany(boost::any const&) const' CMakeFiles/testDict.dir/testDict.cpp.o: In function `void RDKit::Dict::setVal(std::string const&, int&)': /«PKGBUILDDIR»/Code/RDGeneral/testDict.cpp:(.text._ZN5RDKit4Dict6setValIiEEvRKSsRT_[_ZN5RDKit4Dict6setValIiEEvRKSsRT_]+0x35): undefined reference to `boost::any RDKit::Dict::toany(int) const' clang: error: linker command failed with exit code 1 (use -v to see invocation) make[3]: *** [Code/RDGeneral/testDict] Error 1 make[3]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make[2]: *** [Code/RDGeneral/CMakeFiles/testDict.dir/all] Error 2 make[2]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make[1]: *** [all] Error 2 make[1]: Leaving directory `/«PKGBUILDDIR»/obj-x86_64-linux-gnu' dh_auto_build: make -j1 returned exit code 2 make: *** [build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120623-0053 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: amd64 Build-Space: 47324 Build-Time: 15 Distribution: unstable Fail-Stage: build Install-Time: 18 Job: rdkit_201203-2 Package: rdkit Package-Time: 55 Source-Version: 201203-2 Space: 47324 Status: attempted Version: 201203-2 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120623-0053 Build needed 00:00:55, 47324k disc space DC-Status: Failed 56.083882s DC-Time-Estimation: 56.083882 versus expected 3892 (r/m: 68.3960521491718 ; m: 56.083882)