DC-Build-Header: rdkit 201309-1 / 2014-06-17 14:03:50 +0000 DC-Task: source:rdkit version:201309-1 architecture:any chroot:unstable esttime:3702 logfile:/tmp/rdkit_201309-1_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 " rdkit_201309-1' sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on ip-172-31-5-179.us-west-2.compute.internal ╔══════════════════════════════════════════════════════════════════════════════╗ ║ rdkit 201309-1clang1 (amd64) 17 Jun 2014 14:03 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: rdkit Version: 201309-1clang1 Source Version: 201309-1 Distribution: unstable Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/rdkit-iIZ2Av/rdkit-201309' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/rdkit-iIZ2Av' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/unstable-amd64-sbuild-84af5511-2f00-468b-83fe-279e24437701' 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 (74.0 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 (38.4 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: 'rdkit' packaging is maintained in the 'Svn' version control system at: svn://anonscm.debian.org/debichem/unstable/rdkit/ Need to get 23.4 MB of source archives. Get:1 http://localhost:9999/debian/ unstable/main rdkit 201309-1 (dsc) [1638 B] Get:2 http://localhost:9999/debian/ unstable/main rdkit 201309-1 (tar) [23.4 MB] Get:3 http://localhost:9999/debian/ unstable/main rdkit 201309-1 (diff) [7693 B] Fetched 23.4 MB in 5s (4103 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 (38.1 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-Id4RzZ/apt_archive/sbuild-build-depends-core-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install core build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/818 B of archives. After this operation, 0 B of additional disk space will be used. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 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), bison, cmake, debhelper (>= 7.0.50~), flex, libboost-dev, libboost-python-dev, libboost-regex-dev, libboost-system-dev, libboost-thread-dev, libsqlite3-dev, python-dev, python-imaging, python-numpy, python-pandas, python-support 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), bison, cmake, debhelper (>= 7.0.50~), flex, libboost-dev, libboost-python-dev, libboost-regex-dev, libboost-system-dev, libboost-thread-dev, libsqlite3-dev, python-dev, python-imaging, python-numpy, python-pandas, python-support dpkg-deb: building package `sbuild-build-depends-rdkit-dummy' in `/«BUILDDIR»/resolver-nasGck/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 file flex gettext gettext-base groff-base icu-devtools intltool-debian libarchive13 libasprintf0c2 libbison-dev libblas3 libboost-atomic1.55-dev libboost-atomic1.55.0 libboost-chrono1.55-dev libboost-chrono1.55.0 libboost-date-time1.55-dev libboost-date-time1.55.0 libboost-dev libboost-python-dev libboost-python1.55-dev libboost-python1.55.0 libboost-regex-dev libboost-regex1.55-dev libboost-regex1.55.0 libboost-serialization1.55-dev libboost-serialization1.55.0 libboost-system-dev libboost-system1.55-dev libboost-system1.55.0 libboost-thread-dev libboost-thread1.55-dev libboost-thread1.55.0 libboost1.55-dev libcroco3 libcurl3 libexpat1 libexpat1-dev libfl-dev libfreetype6 libgcrypt11 libgcrypt20 libgfortran3 libglib2.0-0 libgnutls26 libgpg-error0 libgssapi-krb5-2 libicu-dev libicu52 libidn11 libjbig0 libjpeg8 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 liblzo2-2 libmagic1 libncursesw5 libnettle4 libp11-kit0 libpipeline1 libpng12-0 libprocps3 libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libsasl2-2 libsasl2-modules-db libsigsegv2 libsqlite3-0 libsqlite3-dev libssh2-1 libssl1.0.0 libtasn1-6 libtiff5 libunistring0 libwebp5 libwebpdemux1 libwebpmux1 libxml2 m4 man-db mime-support po-debconf procps python python-dateutil python-dev python-imaging python-minimal python-numpy python-pandas python-pandas-lib python-pil python-six python-support python-tz python2.7 python2.7-dev python2.7-minimal Suggested packages: bison-doc wamerican wordlist whois vacation codeblocks eclipse dh-make gettext-doc groff lrzip libboost-doc libboost1.55-doc gccxml python3 libboost-context1.55-dev libboost-coroutine1.55-dev libboost-exception1.55-dev libboost-filesystem1.55-dev libboost-graph1.55-dev libboost-graph-parallel1.55-dev libboost-iostreams1.55-dev libboost-locale1.55-dev libboost-log1.55-dev libboost-math1.55-dev libboost-mpi1.55-dev libboost-mpi-python1.55-dev libboost-program-options1.55-dev libboost-random1.55-dev libboost-signals1.55-dev libboost-test1.55-dev libboost-timer1.55-dev libboost-wave1.55-dev libboost1.55-tools-dev libmpfrc++-dev libntl-dev rng-tools krb5-doc krb5-user icu-doc liblcms2-utils sqlite3-doc less www-browser libmail-box-perl python-doc python-tk gfortran python-nose python-numpy-dbg python-numpy-doc python-pandas-doc python-pil-doc python-pil-dbg python2.7-doc binfmt-support Recommended packages: curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev ca-certificates libglib2.0-data shared-mime-info krb5-locales libsasl2-modules xml-core libmail-sendmail-perl psmisc python-scipy python-matplotlib python-tables python-numexpr python-xlrd python-statsmodels python-openpyxl python-xlwt python-bs4 python-html5lib The following NEW packages will be installed: bison bsdmainutils cmake cmake-data debhelper file flex gettext gettext-base groff-base icu-devtools intltool-debian libarchive13 libasprintf0c2 libbison-dev libblas3 libboost-atomic1.55-dev libboost-atomic1.55.0 libboost-chrono1.55-dev libboost-chrono1.55.0 libboost-date-time1.55-dev libboost-date-time1.55.0 libboost-dev libboost-python-dev libboost-python1.55-dev libboost-python1.55.0 libboost-regex-dev libboost-regex1.55-dev libboost-regex1.55.0 libboost-serialization1.55-dev libboost-serialization1.55.0 libboost-system-dev libboost-system1.55-dev libboost-system1.55.0 libboost-thread-dev libboost-thread1.55-dev libboost-thread1.55.0 libboost1.55-dev libcroco3 libcurl3 libexpat1 libexpat1-dev libfl-dev libfreetype6 libgcrypt11 libgcrypt20 libgfortran3 libglib2.0-0 libgnutls26 libgpg-error0 libgssapi-krb5-2 libicu-dev libicu52 libidn11 libjbig0 libjpeg8 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 liblzo2-2 libmagic1 libncursesw5 libnettle4 libp11-kit0 libpipeline1 libpng12-0 libprocps3 libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libsasl2-2 libsasl2-modules-db libsigsegv2 libsqlite3-0 libsqlite3-dev libssh2-1 libssl1.0.0 libtasn1-6 libtiff5 libunistring0 libwebp5 libwebpdemux1 libwebpmux1 libxml2 m4 man-db mime-support po-debconf procps python python-dateutil python-dev python-imaging python-minimal python-numpy python-pandas python-pandas-lib python-pil python-six python-support python-tz python2.7 python2.7-dev python2.7-minimal sbuild-build-depends-rdkit-dummy 0 upgraded, 112 newly installed, 0 to remove and 0 not upgraded. Need to get 78.3 MB/78.3 MB of archives. After this operation, 327 MB of additional disk space will be used. Get:1 http://localhost:9999/debian/ unstable/main libncursesw5 amd64 5.9+20140118-1 [120 kB] Get:2 http://localhost:9999/debian/ unstable/main libpipeline1 amd64 1.3.0-1 [25.8 kB] Get:3 http://localhost:9999/debian/ unstable/main libprocps3 amd64 1:3.3.9-5 [55.6 kB] Get:4 http://localhost:9999/debian/ unstable/main libssl1.0.0 amd64 1.0.1h-3 [1011 kB] Get:5 http://localhost:9999/debian/ unstable/main groff-base amd64 1.22.2-5 [1043 kB] Get:6 http://localhost:9999/debian/ unstable/main bsdmainutils amd64 9.0.5 [211 kB] Get:7 http://localhost:9999/debian/ unstable/main man-db amd64 2.6.7.1-1 [990 kB] Get:8 http://localhost:9999/debian/ unstable/main libasprintf0c2 amd64 0.18.3.2-2 [29.4 kB] Get:9 http://localhost:9999/debian/ unstable/main libgpg-error0 amd64 1.12-0.2 [56.5 kB] Get:10 http://localhost:9999/debian/ unstable/main libgcrypt11 amd64 1.5.3-4 [250 kB] Get:11 http://localhost:9999/debian/ unstable/main libgcrypt20 amd64 1.6.1-2 [381 kB] Get:12 http://localhost:9999/debian/ unstable/main libp11-kit0 amd64 0.20.2-5 [81.1 kB] Get:13 http://localhost:9999/debian/ unstable/main libtasn1-6 amd64 3.6-3 [50.2 kB] Get:14 http://localhost:9999/debian/ unstable/main libgnutls26 amd64 2.12.23-16 [530 kB] Get:15 http://localhost:9999/debian/ unstable/main libkeyutils1 amd64 1.5.9-4 [11.6 kB] Get:16 http://localhost:9999/debian/ unstable/main libkrb5support0 amd64 1.12.1+dfsg-3 [56.9 kB] Get:17 http://localhost:9999/debian/ unstable/main libk5crypto3 amd64 1.12.1+dfsg-3 [111 kB] Get:18 http://localhost:9999/debian/ unstable/main libkrb5-3 amd64 1.12.1+dfsg-3 [297 kB] Get:19 http://localhost:9999/debian/ unstable/main libgssapi-krb5-2 amd64 1.12.1+dfsg-3 [147 kB] Get:20 http://localhost:9999/debian/ unstable/main libidn11 amd64 1.28-2 [158 kB] Get:21 http://localhost:9999/debian/ unstable/main libsasl2-modules-db amd64 2.1.26.dfsg1-9 [66.4 kB] Get:22 http://localhost:9999/debian/ unstable/main libsasl2-2 amd64 2.1.26.dfsg1-9 [103 kB] Get:23 http://localhost:9999/debian/ unstable/main libldap-2.4-2 amd64 2.4.39-1 [212 kB] Get:24 http://localhost:9999/debian/ unstable/main libmagic1 amd64 1:5.19-1 [237 kB] Get:25 http://localhost:9999/debian/ unstable/main libsqlite3-0 amd64 3.8.5-1 [420 kB] Get:26 http://localhost:9999/debian/ unstable/main libxml2 amd64 2.9.1+dfsg1-3 [791 kB] Get:27 http://localhost:9999/debian/ unstable/main libsigsegv2 amd64 2.10-4 [28.8 kB] Get:28 http://localhost:9999/debian/ unstable/main m4 amd64 1.4.17-4 [254 kB] Get:29 http://localhost:9999/debian/ unstable/main libfl-dev amd64 2.5.39-7 [74.7 kB] Get:30 http://localhost:9999/debian/ unstable/main flex amd64 2.5.39-7 [960 kB] Get:31 http://localhost:9999/debian/ unstable/main liblzo2-2 amd64 2.06-1.2 [51.2 kB] Get:32 http://localhost:9999/debian/ unstable/main libnettle4 amd64 2.7.1-2+b1 [172 kB] Get:33 http://localhost:9999/debian/ unstable/main libarchive13 amd64 3.1.2-8 [265 kB] Get:34 http://localhost:9999/debian/ unstable/main libboost-atomic1.55.0 amd64 1.55.0+dfsg-2 [28.2 kB] Get:35 http://localhost:9999/debian/ unstable/main libboost-system1.55.0 amd64 1.55.0+dfsg-2 [30.2 kB] Get:36 http://localhost:9999/debian/ unstable/main libboost-chrono1.55.0 amd64 1.55.0+dfsg-2 [34.7 kB] Get:37 http://localhost:9999/debian/ unstable/main libboost-date-time1.55.0 amd64 1.55.0+dfsg-2 [40.8 kB] Get:38 http://localhost:9999/debian/ unstable/main libboost-python1.55.0 amd64 1.55.0+dfsg-2 [143 kB] Get:39 http://localhost:9999/debian/ unstable/main libicu52 amd64 52.1-3 [6751 kB] Get:40 http://localhost:9999/debian/ unstable/main libboost-regex1.55.0 amd64 1.55.0+dfsg-2 [284 kB] Get:41 http://localhost:9999/debian/ unstable/main libboost-serialization1.55.0 amd64 1.55.0+dfsg-2 [146 kB] Get:42 http://localhost:9999/debian/ unstable/main libboost-thread1.55.0 amd64 1.55.0+dfsg-2 [49.4 kB] Get:43 http://localhost:9999/debian/ unstable/main libglib2.0-0 amd64 2.40.0-3 [2405 kB] Get:44 http://localhost:9999/debian/ unstable/main libcroco3 amd64 0.6.8-2 [133 kB] Get:45 http://localhost:9999/debian/ unstable/main libssh2-1 amd64 1.4.3-3 [125 kB] Get:46 http://localhost:9999/debian/ unstable/main libcurl3 amd64 7.37.0-1+b1 [252 kB] Get:47 http://localhost:9999/debian/ unstable/main libexpat1 amd64 2.1.0-6 [80.6 kB] Get:48 http://localhost:9999/debian/ unstable/main libpng12-0 amd64 1.2.50-1 [189 kB] Get:49 http://localhost:9999/debian/ unstable/main libfreetype6 amd64 2.5.2-1 [454 kB] Get:50 http://localhost:9999/debian/ unstable/main libgfortran3 amd64 4.9.0-6 [254 kB] Get:51 http://localhost:9999/debian/ unstable/main libjpeg8 amd64 8d-2 [120 kB] Get:52 http://localhost:9999/debian/ unstable/main liblcms2-2 amd64 2.6-3 [140 kB] Get:53 http://localhost:9999/debian/ unstable/main libpython2.7-minimal amd64 2.7.7-2 [348 kB] Get:54 http://localhost:9999/debian/ unstable/main mime-support all 3.56 [35.5 kB] Get:55 http://localhost:9999/debian/ unstable/main libpython2.7-stdlib amd64 2.7.7-2 [1871 kB] Get:56 http://localhost:9999/debian/ unstable/main libpython2.7 amd64 2.7.7-2 [1046 kB] Get:57 http://localhost:9999/debian/ unstable/main libexpat1-dev amd64 2.1.0-6 [126 kB] Get:58 http://localhost:9999/debian/ unstable/main libpython2.7-dev amd64 2.7.7-2 [22.0 MB] Get:59 http://localhost:9999/debian/ unstable/main libjbig0 amd64 2.0-2.1 [29.3 kB] Get:60 http://localhost:9999/debian/ unstable/main libtiff5 amd64 4.0.3-8 [209 kB] Get:61 http://localhost:9999/debian/ unstable/main libunistring0 amd64 0.9.3-5 [434 kB] Get:62 http://localhost:9999/debian/ unstable/main python2.7-minimal amd64 2.7.7-2 [1231 kB] Get:63 http://localhost:9999/debian/ unstable/main libwebp5 amd64 0.4.0-4.1 [181 kB] Get:64 http://localhost:9999/debian/ unstable/main libwebpdemux1 amd64 0.4.0-4.1 [43.0 kB] Get:65 http://localhost:9999/debian/ unstable/main libwebpmux1 amd64 0.4.0-4.1 [49.1 kB] Get:66 http://localhost:9999/debian/ unstable/main procps amd64 1:3.3.9-5 [233 kB] Get:67 http://localhost:9999/debian/ unstable/main file amd64 1:5.19-1 [58.0 kB] Get:68 http://localhost:9999/debian/ unstable/main gettext-base amd64 0.18.3.2-2 [116 kB] Get:69 http://localhost:9999/debian/ unstable/main python2.7 amd64 2.7.7-2 [242 kB] Get:70 http://localhost:9999/debian/ unstable/main python-minimal amd64 2.7.6-2 [39.3 kB] Get:71 http://localhost:9999/debian/ unstable/main libpython-stdlib amd64 2.7.6-2 [18.8 kB] Get:72 http://localhost:9999/debian/ unstable/main python amd64 2.7.6-2 [150 kB] Get:73 http://localhost:9999/debian/ unstable/main python-support all 1.0.15 [33.6 kB] Get:74 http://localhost:9999/debian/ unstable/main libbison-dev amd64 2:3.0.2.dfsg-2 [426 kB] Get:75 http://localhost:9999/debian/ unstable/main bison amd64 2:3.0.2.dfsg-2 [765 kB] Get:76 http://localhost:9999/debian/ unstable/main cmake-data all 2.8.12.1-1.4 [1286 kB] Get:77 http://localhost:9999/debian/ unstable/main cmake amd64 2.8.12.1-1.4 [2612 kB] Get:78 http://localhost:9999/debian/ unstable/main gettext amd64 0.18.3.2-2 [1202 kB] Get:79 http://localhost:9999/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB] Get:80 http://localhost:9999/debian/ unstable/main po-debconf all 1.0.16+nmu2 [224 kB] Get:81 http://localhost:9999/debian/ unstable/main debhelper all 9.20140613 [692 kB] Get:82 http://localhost:9999/debian/ unstable/main icu-devtools amd64 52.1-3 [170 kB] Get:83 http://localhost:9999/debian/ unstable/main libblas3 amd64 1.2.20110419-7 [159 kB] Get:84 http://localhost:9999/debian/ unstable/main libboost1.55-dev amd64 1.55.0+dfsg-2 [5812 kB] Get:85 http://localhost:9999/debian/ unstable/main libboost-atomic1.55-dev amd64 1.55.0+dfsg-2 [27.0 kB] Get:86 http://localhost:9999/debian/ unstable/main libboost-chrono1.55-dev amd64 1.55.0+dfsg-2 [36.4 kB] Get:87 http://localhost:9999/debian/ unstable/main libboost-serialization1.55-dev amd64 1.55.0+dfsg-2 [174 kB] Get:88 http://localhost:9999/debian/ unstable/main libboost-date-time1.55-dev amd64 1.55.0+dfsg-2 [47.5 kB] Get:89 http://localhost:9999/debian/ unstable/main libboost-dev amd64 1.55.0.2 [3368 B] Get:90 http://localhost:9999/debian/ unstable/main libpython-dev amd64 2.7.6-2 [18.9 kB] Get:91 http://localhost:9999/debian/ unstable/main python2.7-dev amd64 2.7.7-2 [276 kB] Get:92 http://localhost:9999/debian/ unstable/main python-dev amd64 2.7.6-2 [1190 B] Get:93 http://localhost:9999/debian/ unstable/main libboost-python1.55-dev amd64 1.55.0+dfsg-2 [170 kB] Get:94 http://localhost:9999/debian/ unstable/main libboost-python-dev amd64 1.55.0.2 [3410 B] Get:95 http://localhost:9999/debian/ unstable/main libicu-dev amd64 52.1-3 [7586 kB] Get:96 http://localhost:9999/debian/ unstable/main libboost-regex1.55-dev amd64 1.55.0+dfsg-2 [325 kB] Get:97 http://localhost:9999/debian/ unstable/main libboost-regex-dev amd64 1.55.0.2 [3276 B] Get:98 http://localhost:9999/debian/ unstable/main libboost-system1.55-dev amd64 1.55.0+dfsg-2 [30.7 kB] Get:99 http://localhost:9999/debian/ unstable/main libboost-system-dev amd64 1.55.0.2 [3152 B] Get:100 http://localhost:9999/debian/ unstable/main libboost-thread1.55-dev amd64 1.55.0+dfsg-2 [49.1 kB] Get:101 http://localhost:9999/debian/ unstable/main libboost-thread-dev amd64 1.55.0.2 [3034 B] Get:102 http://localhost:9999/debian/ unstable/main liblapack3 amd64 3.5.0-2 [1735 kB] Get:103 http://localhost:9999/debian/ unstable/main libsqlite3-dev amd64 3.8.5-1 [519 kB] Get:104 http://localhost:9999/debian/ unstable/main python-dateutil all 1.5+dfsg-1 [49.0 kB] Get:105 http://localhost:9999/debian/ unstable/main python-pil amd64 2.4.0-2 [312 kB] Get:106 http://localhost:9999/debian/ unstable/main python-imaging all 2.4.0-2 [9080 B] Get:107 http://localhost:9999/debian/ unstable/main python-numpy amd64 1:1.8.1-1+b1 [1613 kB] Get:108 http://localhost:9999/debian/ unstable/main python-tz all 2012c-1 [39.9 kB] Get:109 http://localhost:9999/debian/ unstable/main python-pandas-lib amd64 0.14.0+git17-g3849d5d-1+b1 [1285 kB] Get:110 http://localhost:9999/debian/ unstable/main python-six all 1.7.2-1 [12.0 kB] Get:111 http://localhost:9999/debian/ unstable/main python-pandas all 0.14.0+git17-g3849d5d-1 [1172 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 78.3 MB in 22s (3501 kB/s) Selecting previously unselected package libncursesw5:amd64. (Reading database ... 14431 files and directories currently installed.) Preparing to unpack .../libncursesw5_5.9+20140118-1_amd64.deb ... Unpacking libncursesw5:amd64 (5.9+20140118-1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../libpipeline1_1.3.0-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.3.0-1) ... Selecting previously unselected package libprocps3:amd64. Preparing to unpack .../libprocps3_1%3a3.3.9-5_amd64.deb ... Unpacking libprocps3:amd64 (1:3.3.9-5) ... Selecting previously unselected package libssl1.0.0:amd64. Preparing to unpack .../libssl1.0.0_1.0.1h-3_amd64.deb ... Unpacking libssl1.0.0:amd64 (1.0.1h-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../groff-base_1.22.2-5_amd64.deb ... Unpacking groff-base (1.22.2-5) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../bsdmainutils_9.0.5_amd64.deb ... Unpacking bsdmainutils (9.0.5) ... 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Selecting previously unselected package sbuild-build-depends-rdkit-dummy. Preparing to unpack .../sbuild-build-depends-rdkit-dummy.deb ... Unpacking sbuild-build-depends-rdkit-dummy (0.invalid.0) ... Setting up libncursesw5:amd64 (5.9+20140118-1) ... Setting up libpipeline1:amd64 (1.3.0-1) ... Setting up libprocps3:amd64 (1:3.3.9-5) ... Setting up libssl1.0.0:amd64 (1.0.1h-3) ... 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 libgpg-error0:amd64 (1.12-0.2) ... Setting up libgcrypt11:amd64 (1.5.3-4) ... Setting up libgcrypt20:amd64 (1.6.1-2) ... Setting up libp11-kit0:amd64 (0.20.2-5) ... Setting up libtasn1-6:amd64 (3.6-3) ... 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Setting up libpython2.7-stdlib:amd64 (2.7.7-2) ... Setting up libpython2.7:amd64 (2.7.7-2) ... Setting up libexpat1-dev:amd64 (2.1.0-6) ... Setting up libpython2.7-dev:amd64 (2.7.7-2) ... Setting up libjbig0:amd64 (2.0-2.1) ... Setting up libtiff5:amd64 (4.0.3-8) ... Setting up libunistring0:amd64 (0.9.3-5) ... Setting up python2.7-minimal (2.7.7-2) ... Setting up libwebp5:amd64 (0.4.0-4.1) ... Setting up libwebpdemux1:amd64 (0.4.0-4.1) ... Setting up libwebpmux1:amd64 (0.4.0-4.1) ... Setting up procps (1:3.3.9-5) ... 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 (1:5.19-1) ... Setting up gettext-base (0.18.3.2-2) ... Setting up python2.7 (2.7.7-2) ... Setting up python-minimal (2.7.6-2) ... Setting up libpython-stdlib:amd64 (2.7.6-2) ... Setting up python (2.7.6-2) ... Setting up python-support (1.0.15) ... 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Setting up libpython-dev:amd64 (2.7.6-2) ... Setting up python2.7-dev (2.7.7-2) ... Setting up python-dev (2.7.6-2) ... Setting up libboost-python1.55-dev (1.55.0+dfsg-2) ... Setting up libboost-python-dev (1.55.0.2) ... Setting up libicu-dev:amd64 (52.1-3) ... Setting up libboost-regex1.55-dev:amd64 (1.55.0+dfsg-2) ... Setting up libboost-regex-dev:amd64 (1.55.0.2) ... Setting up libboost-system1.55-dev:amd64 (1.55.0+dfsg-2) ... Setting up libboost-system-dev:amd64 (1.55.0.2) ... Setting up libboost-thread1.55-dev:amd64 (1.55.0+dfsg-2) ... Setting up libboost-thread-dev:amd64 (1.55.0.2) ... Setting up liblapack3 (3.5.0-2) ... update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode Setting up libsqlite3-dev:amd64 (3.8.5-1) ... Setting up python-dateutil (1.5+dfsg-1) ... Setting up python-pil (2.4.0-2) ... Setting up python-imaging (2.4.0-2) ... Setting up python-numpy (1:1.8.1-1+b1) ... Setting up python-tz (2012c-1) ... Setting up python-pandas-lib (0.14.0+git17-g3849d5d-1+b1) ... Setting up python-six (1.7.2-1) ... Setting up python-pandas (0.14.0+git17-g3849d5d-1) ... Setting up sbuild-build-depends-rdkit-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 bison_2:3.0.2.dfsg-2 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 cmake_2.8.12.1-1.4 cmake-data_2.8.12.1-1.4 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 flex_2.5.39-7 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 hostname_3.15 icu-devtools_52.1-3 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 libarchive13_3.1.2-8 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 libbison-dev_2:3.0.2.dfsg-2 libblas3_1.2.20110419-7 libblkid1_2.20.1-5.8 libboost-atomic1.55-dev_1.55.0+dfsg-2 libboost-atomic1.55.0_1.55.0+dfsg-2 libboost-chrono1.55-dev_1.55.0+dfsg-2 libboost-chrono1.55.0_1.55.0+dfsg-2 libboost-date-time1.55-dev_1.55.0+dfsg-2 libboost-date-time1.55.0_1.55.0+dfsg-2 libboost-dev_1.55.0.2 libboost-python-dev_1.55.0.2 libboost-python1.55-dev_1.55.0+dfsg-2 libboost-python1.55.0_1.55.0+dfsg-2 libboost-regex-dev_1.55.0.2 libboost-regex1.55-dev_1.55.0+dfsg-2 libboost-regex1.55.0_1.55.0+dfsg-2 libboost-serialization1.55-dev_1.55.0+dfsg-2 libboost-serialization1.55.0_1.55.0+dfsg-2 libboost-system-dev_1.55.0.2 libboost-system1.55-dev_1.55.0+dfsg-2 libboost-system1.55.0_1.55.0+dfsg-2 libboost-thread-dev_1.55.0.2 libboost-thread1.55-dev_1.55.0+dfsg-2 libboost-thread1.55.0_1.55.0+dfsg-2 libboost1.55-dev_1.55.0+dfsg-2 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 libcurl3_7.37.0-1+b1 libdb5.1_5.1.29-5 libdb5.3_5.3.28-3 libdebconfclient0_0.191 libdpkg-perl_1.17.10 libexpat1_2.1.0-6 libexpat1-dev_2.1.0-6 libfakeroot_1.20-3 libffi6_3.1-2 libfile-fcntllock-perl_0.20-1 libfl-dev_2.5.39-7 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 libgcrypt11_1.5.3-4 libgcrypt20_1.6.1-2 libgdbm3_1.8.3-12 libgfortran3_4.9.0-6 libglib2.0-0_2.40.0-3 libgmp10_2:6.0.0+dfsg-4 libgmpxx4ldbl_2:6.0.0+dfsg-4 libgnutls26_2.12.23-16 libgomp1_4.9.0-6 libgpg-error0_1.12-0.2 libgpm2_1.20.4-6.1 libgssapi-krb5-2_1.12.1+dfsg-3 libicu-dev_52.1-3 libicu52_52.1-3 libidn11_1.28-2 libisl10_0.12.2-1 libitm1_4.9.0-6 libjbig0_2.0-2.1 libjpeg8_8d-2 libk5crypto3_1.12.1+dfsg-3 libkeyutils1_1.5.9-4 libkrb5-3_1.12.1+dfsg-3 libkrb5support0_1.12.1+dfsg-3 liblapack3_3.5.0-2 liblcms2-2_2.6-3 libldap-2.4-2_2.4.39-1 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 liblzo2-2_2.06-1.2 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 libncursesw5_5.9+20140118-1 libnettle4_2.7.1-2+b1 libobjc-4.9-dev_4.9.0-6 libobjc4_4.9.0-6 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 libpcre3_1:8.31-5 libpipeline1_1.3.0-1 libpng12-0_1.2.50-1 libpod-latex-perl_0.61-1 libppl-c4_1:1.1-2+b1 libppl13_1:1.1-2+b1 libprocps3_1:3.3.9-5 libpython-dev_2.7.6-2 libpython-stdlib_2.7.6-2 libpython2.7_2.7.7-2 libpython2.7-dev_2.7.7-2 libpython2.7-minimal_2.7.7-2 libpython2.7-stdlib_2.7.7-2 libquadmath0_4.9.0-6 libreadline6_6.3-6 libsasl2-2_2.1.26.dfsg1-9 libsasl2-modules-db_2.1.26.dfsg1-9 libselinux1_2.3-1 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-1 libsigsegv2_2.10-4 libslang2_2.2.4-16 libsqlite3-0_3.8.5-1 libsqlite3-dev_3.8.5-1 libss2_1.42.10-1 libssh2-1_1.4.3-3 libssl1.0.0_1.0.1h-3 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 libwebp5_0.4.0-4.1 libwebpdemux1_0.4.0-4.1 libwebpmux1_0.4.0-4.1 libxml2_2.9.1+dfsg1-3 linux-libc-dev_3.14.7-1 login_1:4.2-2 lsb-base_4.1+Debian13 m4_1.4.17-4 make_4.0-8 man-db_2.6.7.1-1 mawk_1.3.3-17 mime-support_3.56 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 procps_1:3.3.9-5 python_2.7.6-2 python-dateutil_1.5+dfsg-1 python-dev_2.7.6-2 python-imaging_2.4.0-2 python-minimal_2.7.6-2 python-numpy_1:1.8.1-1+b1 python-pandas_0.14.0+git17-g3849d5d-1 python-pandas-lib_0.14.0+git17-g3849d5d-1+b1 python-pil_2.4.0-2 python-six_1.7.2-1 python-support_1.0.15 python-tz_2012c-1 python2.7_2.7.7-2 python2.7-dev_2.7.7-2 python2.7-minimal_2.7.7-2 readline-common_6.3-6 rename_0.20-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-rdkit-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 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 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-1 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Sun Dec 29 01:16:06 2013 UTC using DSA key ID 088F6B8C gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./rdkit_201309-1.dsc dpkg-source: info: extracting rdkit in rdkit-201309 dpkg-source: info: unpacking rdkit_201309.orig.tar.gz dpkg-source: info: unpacking rdkit_201309-1.debian.tar.gz dpkg-source: info: applying 733359_bison3_compatibility.patch Check disc space ──────────────── Sufficient free space for build Hack binNMU version ─────────────────── Created changelog entry for binNMU version 201309-1clang1 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-84af5511-2f00-468b-83fe-279e24437701 SCHROOT_UID=1000 SCHROOT_USER=user SHELL=/bin/sh USER=user dpkg-buildpackage ───────────────── dpkg-buildpackage: source package rdkit dpkg-buildpackage: source version 201309-1clang1 dpkg-buildpackage: source distribution unstable dpkg-source --before-build rdkit-201309 dpkg-buildpackage: host architecture amd64 fakeroot debian/rules clean dh clean --with python2 --buildsystem=cmake --parallel dh_testdir -O--buildsystem=cmake -O--parallel debian/rules override_dh_auto_clean make[1]: Entering directory '/«PKGBUILDDIR»' find /«PKGBUILDDIR» -name "*.pyc" | xargs rm -f rm -f -r Projects/DbCLI/testData/bzr/ Code/RDGeneral/versions.h rdkit/Chem/inchi.py dh_auto_clean make[1]: Leaving directory '/«PKGBUILDDIR»' dh_clean -O--buildsystem=cmake -O--parallel debian/rules build-arch dh build-arch --with python2 --buildsystem=cmake --parallel dh_testdir -a -O--buildsystem=cmake -O--parallel debian/rules override_dh_auto_configure make[1]: Entering directory '/«PKGBUILDDIR»' dh_auto_configure -- \ -DCMAKE_BUILD_TYPE=None -DCMAKE_SKIP_RPATH=ON \ -DRDK_INSTALL_INTREE=OFF -DRDK_INSTALL_STATIC_LIBS=OFF \ -DRDK_BUILD_THREADSAFE_SSS=ON -DRDK_BUILD_PYTHON_WRAPPERS=ON -- The C compiler identification is Clang 3.4.2 -- The CXX compiler identification is Clang 3.4.2 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- 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 -- Check if the system is big endian -- Searching 16 bit integer -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of unsigned short -- Check size of unsigned short - done -- Using unsigned short -- Check if the system is big endian - little endian -- Found PythonLibs: /usr/lib/x86_64-linux-gnu/libpython2.7.so (found version "2.7.7") -- Found PythonInterp: /usr/bin/python (found version "2.7.7") -- Boost version: 1.55.0 -- Found the following Boost libraries: -- python Python Install directory /usr/lib/python2.7/dist-packages -- 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: 1.55.0 -- Found the following Boost libraries: -- thread -- system -- Found BISON: /usr/bin/bison -- Found FLEX: /usr/bin/flex -- Boost version: 1.55.0 -- 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 -O--parallel 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 -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/depend make -f Code/RDGeneral/CMakeFiles/RDGeneral.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral.dir/depend make -f Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/build.make Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/depend make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.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= make -f Code/RDBoost/CMakeFiles/RDBoost_static.dir/build.make Code/RDBoost/CMakeFiles/RDBoost_static.dir/depend make -f Code/DataStructs/CMakeFiles/DataStructs_static.dir/build.make Code/DataStructs/CMakeFiles/DataStructs_static.dir/depend make -f Code/Geometry/CMakeFiles/RDGeometryLib_static.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib_static.dir/depend make -f Code/Numerics/Alignment/CMakeFiles/Alignment_static.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment_static.dir/depend make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers_static.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers_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/RDBoost /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost_static.dir/DependInfo.cmake --color= 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/RDBoost /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost/CMakeFiles/RDBoost.dir/DependInfo.cmake --color= 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= 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= make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' 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/Geometry /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry/CMakeFiles/RDGeometryLib_static.dir/DependInfo.cmake --color= 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/Numerics/Alignment /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Alignment /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Alignment/CMakeFiles/Alignment_static.dir/DependInfo.cmake --color= 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= 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/Numerics/EigenSolvers /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers_static.dir/DependInfo.cmake --color= cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /«PKGBUILDDIR» /«PKGBUILDDIR»/Code/DataStructs /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs_static.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 Scanning dependencies of target RDBoost_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/RDBoost/CMakeFiles/RDBoost_static.dir/build.make Code/RDBoost/CMakeFiles/RDBoost_static.dir/build Scanning dependencies of target RDBoost make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/RDBoost/CMakeFiles/RDBoost.dir/build.make Code/RDBoost/CMakeFiles/RDBoost.dir/build Scanning dependencies of target Alignment_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/Numerics/Alignment/CMakeFiles/Alignment_static.dir/build.make Code/Numerics/Alignment/CMakeFiles/Alignment_static.dir/build 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 Scanning dependencies of target inchi_support make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles make -f External/INCHI-API/CMakeFiles/inchi_support.dir/build.make External/INCHI-API/CMakeFiles/inchi_support.dir/build Scanning dependencies of target RDGeneral_static make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 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 make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' Scanning dependencies of target EigenSolvers_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers_static.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers_static.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 /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 57 Scanning dependencies of target RDGeometryLib_static make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 58 make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/Geometry/CMakeFiles/RDGeometryLib_static.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib_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 17 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%] [ 0%] Scanning dependencies of target DataStructs_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/DataStructs/CMakeFiles/DataStructs_static.dir/build.make Code/DataStructs/CMakeFiles/DataStructs_static.dir/build [ 0%] [ 0%] [ 1%] [ 2%] [ 3%] make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 8 [ 3%] make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles Building CXX object Code/RDBoost/CMakeFiles/RDBoost_static.dir/Wrap.cpp.o Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral_static.dir/Invariant.cpp.o Building CXX object Code/RDGeneral/CMakeFiles/RDGeneral.dir/Invariant.cpp.o [ 4%] Building CXX object Code/RDBoost/CMakeFiles/RDBoost.dir/Wrap.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost && /usr/bin/c++ -DRDBoost_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDBoost.dir/Wrap.cpp.o -c /«PKGBUILDDIR»/Code/RDBoost/Wrap.cpp cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDBoost_static.dir/Wrap.cpp.o -c /«PKGBUILDDIR»/Code/RDBoost/Wrap.cpp 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/fastentropy.dir/fastentropy.cc.o -c /«PKGBUILDDIR»/External/cmim-1.0/fastentropy.cc cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDGeneral_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral.dir/Invariant.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/Invariant.cpp Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib_static.dir/point.cpp.o Building CXX object Code/Numerics/Alignment/CMakeFiles/Alignment_static.dir/AlignPoints.cpp.o [ 4%] cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Alignment && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Alignment_static.dir/AlignPoints.cpp.o -c /«PKGBUILDDIR»/Code/Numerics/Alignment/AlignPoints.cpp Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers_static.dir/PowerEigenSolver.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/EigenSolvers_static.dir/PowerEigenSolver.cpp.o -c /«PKGBUILDDIR»/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeometryLib_static.dir/point.cpp.o -c /«PKGBUILDDIR»/Code/Geometry/point.cpp cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral_static.dir/Invariant.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/Invariant.cpp Built target inchi_support make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer_static.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer_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/Numerics/Optimizer /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Optimizer /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Optimizer/CMakeFiles/Optimizer_static.dir/DependInfo.cmake --color= Building CXX object Code/DataStructs/CMakeFiles/DataStructs_static.dir/BitVect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs_static.dir/BitVect.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/BitVect.cpp Scanning dependencies of target Optimizer_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/Numerics/Optimizer/CMakeFiles/Optimizer_static.dir/build.make Code/Numerics/Optimizer/CMakeFiles/Optimizer_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 55 [ 5%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer_static.dir/BFGSOpt.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Optimizer_static.dir/BFGSOpt.cpp.o -c /«PKGBUILDDIR»/Code/Numerics/Optimizer/BFGSOpt.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 5%] Building CXX object Code/Numerics/Optimizer/CMakeFiles/Optimizer_static.dir/LinearSearch.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Optimizer_static.dir/LinearSearch.cpp.o -c /«PKGBUILDDIR»/Code/Numerics/Optimizer/LinearSearch.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 76 [ 6%] 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -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 76 [ 6%] Built target fastentropy make -f Code/ForceField/CMakeFiles/ForceField_static.dir/build.make Code/ForceField/CMakeFiles/ForceField_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/ForceField /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField/CMakeFiles/ForceField_static.dir/DependInfo.cmake --color= Scanning dependencies of target ForceField_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ForceField/CMakeFiles/ForceField_static.dir/build.make Code/ForceField/CMakeFiles/ForceField_static.dir/build make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' Linking CXX static library libOptimizer_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -P CMakeFiles/Optimizer_static.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 6%] cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Optimizer && /usr/bin/cmake -E cmake_link_script CMakeFiles/Optimizer_static.dir/link.txt --verbose=1 Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/ForceField.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/ForceField.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/ForceField.cpp /usr/bin/ar cr libOptimizer_static.a CMakeFiles/Optimizer_static.dir/BFGSOpt.cpp.o CMakeFiles/Optimizer_static.dir/LinearSearch.cpp.o /usr/bin/ranlib libOptimizer_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 55 [ 6%] Built target Optimizer_static make -f Code/DistGeom/CMakeFiles/DistGeometry_static.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry_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/DistGeom /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DistGeom /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DistGeom/CMakeFiles/DistGeometry_static.dir/DependInfo.cmake --color= Scanning dependencies of target DistGeometry_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/DistGeom/CMakeFiles/DistGeometry_static.dir/build.make Code/DistGeom/CMakeFiles/DistGeometry_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 16 [ 7%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry_static.dir/DistGeomUtils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DistGeometry_static.dir/DistGeomUtils.cpp.o -c /«PKGBUILDDIR»/Code/DistGeom/DistGeomUtils.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 7%] /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral.dir/types.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/types.cpp [ 7%] 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -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 [ 7%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs_static.dir/SparseBitVect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs_static.dir/SparseBitVect.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/SparseBitVect.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 7%] [ 7%] 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral.dir/utils.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/utils.cpp 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -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 [ 7%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs_static.dir/ExplicitBitVect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs_static.dir/ExplicitBitVect.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/ExplicitBitVect.cpp Linking CXX static library libEigenSolvers_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/cmake -P CMakeFiles/EigenSolvers_static.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_link_script CMakeFiles/EigenSolvers_static.dir/link.txt --verbose=1 [ 7%] /usr/bin/ar cr libEigenSolvers_static.a CMakeFiles/EigenSolvers_static.dir/PowerEigenSolver.cpp.o /usr/bin/ranlib libEigenSolvers_static.a Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib_static.dir/Transform2D.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeometryLib_static.dir/Transform2D.cpp.o -c /«PKGBUILDDIR»/Code/Geometry/Transform2D.cpp make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 17 [ 7%] Built target EigenSolvers_static make -f Code/Catalogs/CMakeFiles/Catalogs_static.dir/build.make Code/Catalogs/CMakeFiles/Catalogs_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/Catalogs /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs_static.dir/DependInfo.cmake --color= Scanning dependencies of target Catalogs_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/Catalogs/CMakeFiles/Catalogs_static.dir/build.make Code/Catalogs/CMakeFiles/Catalogs_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 Linking CXX static library libAlignment_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -P CMakeFiles/Alignment_static.dir/cmake_clean_target.cmake Linking CXX static library libRDBoost_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost && /usr/bin/cmake -P CMakeFiles/RDBoost_static.dir/cmake_clean_target.cmake [ 7%] cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/Alignment && /usr/bin/cmake -E cmake_link_script CMakeFiles/Alignment_static.dir/link.txt --verbose=1 cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDBoost_static.dir/link.txt --verbose=1 Building CXX object Code/Catalogs/CMakeFiles/Catalogs_static.dir/Catalog.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Catalogs_static.dir/Catalog.cpp.o -c /«PKGBUILDDIR»/Code/Catalogs/Catalog.cpp /usr/bin/ar cr libAlignment_static.a CMakeFiles/Alignment_static.dir/AlignPoints.cpp.o Linking CXX shared library ../../lib/libRDBoost.so /usr/bin/ranlib libAlignment_static.a /usr/bin/ar cr libRDBoost_static.a CMakeFiles/RDBoost_static.dir/Wrap.cpp.o make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDBoost.dir/link.txt --verbose=1 /usr/bin/ranlib libRDBoost_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 [ 7%] /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,libRDBoost.so.1 -o ../../lib/libRDBoost.so.1.2013.09.1 CMakeFiles/RDBoost.dir/Wrap.cpp.o -lpython2.7 -lboost_python -lboost_thread -lboost_system -lpthread [ 7%] Built target RDBoost_static make -f Code/GraphMol/CMakeFiles/GraphMol_static.dir/build.make Code/GraphMol/CMakeFiles/GraphMol_static.dir/depend Built target Alignment_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 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/GraphMol /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/CMakeFiles/GraphMol_static.dir/DependInfo.cmake --color= [ 7%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs_static.dir/Utils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs_static.dir/Utils.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/Utils.cpp Scanning dependencies of target GraphMol_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/CMakeFiles/GraphMol_static.dir/build.make Code/GraphMol/CMakeFiles/GraphMol_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 cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDBoost.so.1.2013.09.1 ../../lib/libRDBoost.so.1 ../../lib/libRDBoost.so [ 7%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/Atom.cpp.o make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/Atom.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Atom.cpp [ 7%] Built target RDBoost /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 9 [ 8%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs_static.dir/base64.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs_static.dir/base64.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/base64.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 8%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib_static.dir/Transform3D.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeometryLib_static.dir/Transform3D.cpp.o -c /«PKGBUILDDIR»/Code/Geometry/Transform3D.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 61 [ 9%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib_static.dir/UniformGrid3D.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeometryLib_static.dir/UniformGrid3D.cpp.o -c /«PKGBUILDDIR»/Code/Geometry/UniformGrid3D.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 33 [ 10%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/UFF/AngleBend.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/UFF/AngleBend.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/UFF/AngleBend.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 10%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry_static.dir/TriangleSmooth.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DistGeometry_static.dir/TriangleSmooth.cpp.o -c /«PKGBUILDDIR»/Code/DistGeom/TriangleSmooth.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 10%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs_static.dir/BitOps.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs_static.dir/BitOps.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/BitOps.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 10%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs_static.dir/CatalogParams.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Catalogs_static.dir/CatalogParams.cpp.o -c /«PKGBUILDDIR»/Code/Catalogs/CatalogParams.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 10%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs_static.dir/CatalogEntry.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Catalogs_static.dir/CatalogEntry.cpp.o -c /«PKGBUILDDIR»/Code/Catalogs/CatalogEntry.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 10%] /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral.dir/RDLog.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/RDLog.cpp [ 10%] 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral_static.dir/RDLog.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/RDLog.cpp Linking CXX static library libCatalogs_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/cmake -P CMakeFiles/Catalogs_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Catalogs_static.dir/link.txt --verbose=1 /usr/bin/ar cr libCatalogs_static.a CMakeFiles/Catalogs_static.dir/Catalog.cpp.o CMakeFiles/Catalogs_static.dir/CatalogParams.cpp.o CMakeFiles/Catalogs_static.dir/CatalogEntry.cpp.o /usr/bin/ranlib libCatalogs_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 [ 10%] Built target Catalogs_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 59 [ 11%] 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral_static.dir/Dict.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/Dict.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeneral.dir/Dict.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/Dict.cpp [ 11%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib_static.dir/GridUtils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeometryLib_static.dir/GridUtils.cpp.o -c /«PKGBUILDDIR»/Code/Geometry/GridUtils.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry_static.dir/DistViolationContrib.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DistGeometry_static.dir/DistViolationContrib.cpp.o -c /«PKGBUILDDIR»/Code/DistGeom/DistViolationContrib.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs_static.dir/DiscreteDistMat.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs_static.dir/DiscreteDistMat.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/DiscreteDistMat.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] Building CXX object Code/DistGeom/CMakeFiles/DistGeometry_static.dir/ChiralViolationContrib.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DistGeometry_static.dir/ChiralViolationContrib.cpp.o -c /«PKGBUILDDIR»/Code/DistGeom/ChiralViolationContrib.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs_static.dir/DiscreteValueVect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs_static.dir/DiscreteValueVect.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/DiscreteValueVect.cpp make -f Code/GraphMol/Depictor/CMakeFiles/Depictor_static.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor_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/GraphMol/Depictor /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Depictor /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Depictor/CMakeFiles/Depictor_static.dir/DependInfo.cmake --color= /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] Scanning dependencies of target Depictor_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/Depictor/CMakeFiles/Depictor_static.dir/build.make Code/GraphMol/Depictor/CMakeFiles/Depictor_static.dir/build Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/UFF/BondStretch.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/UFF/BondStretch.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/UFF/BondStretch.cpp make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor_static.dir/RDDepictor.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Depictor_static.dir/RDDepictor.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Depictor/RDDepictor.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/UFF/Nonbonded.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/UFF/Nonbonded.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/UFF/Nonbonded.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/QueryAtom.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/QueryAtom.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/QueryAtom.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 58 59 [ 11%] Built target RDGeneral_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/UFF/Inversion.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/UFF/Inversion.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/UFF/Inversion.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 Linking CXX static library libDataStructs_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/cmake -P CMakeFiles/DataStructs_static.dir/cmake_clean_target.cmake /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,libRDGeneral.so.1 -o ../../lib/libRDGeneral.so.1.2013.09.1 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 cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/DataStructs_static.dir/link.txt --verbose=1 /usr/bin/ar cr libDataStructs_static.a CMakeFiles/DataStructs_static.dir/BitVect.cpp.o CMakeFiles/DataStructs_static.dir/SparseBitVect.cpp.o CMakeFiles/DataStructs_static.dir/ExplicitBitVect.cpp.o CMakeFiles/DataStructs_static.dir/Utils.cpp.o CMakeFiles/DataStructs_static.dir/base64.cpp.o CMakeFiles/DataStructs_static.dir/BitOps.cpp.o CMakeFiles/DataStructs_static.dir/DiscreteDistMat.cpp.o CMakeFiles/DataStructs_static.dir/DiscreteValueVect.cpp.o /usr/bin/ranlib libDataStructs_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 8 9 [ 11%] Built target DataStructs_static make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/depend make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] [FLEX][SmartsL] Building scanner with flex 2.5.39 cd /«PKGBUILDDIR»/Code/GraphMol/SmilesParse && /usr/bin/flex -Pyysmarts_ -o/«PKGBUILDDIR»/Code/GraphMol/SmilesParse/lex.yysmarts.cpp smarts.ll cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDGeneral && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDGeneral.so.1.2013.09.1 ../../lib/libRDGeneral.so.1 ../../lib/libRDGeneral.so /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 57 [BISON][SmilesY] Building parser with bison 3.0.2 [ 11%] Built target RDGeneral /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles cd /«PKGBUILDDIR»/Code/GraphMol/SmilesParse && /usr/bin/bison -pyysmiles_ -d -o /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/smiles.tab.cpp smiles.yy [ 11%] [BISON][SmartsY] Building parser with bison 3.0.2 cd /«PKGBUILDDIR»/Code/GraphMol/SmilesParse && /usr/bin/bison -pyysmiles_ -d -pyysmarts_ -d -o /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/smarts.tab.cpp smarts.yy smarts.yy: warning: 86 shift/reduce conflicts [-Wconflicts-sr] /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor_static.dir/EmbeddedFrag.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Depictor_static.dir/EmbeddedFrag.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Depictor/EmbeddedFrag.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 11%] [FLEX][SmilesL] Building scanner with flex 2.5.39 cd /«PKGBUILDDIR»/Code/GraphMol/SmilesParse && /usr/bin/flex -Pyysmiles_ -o/«PKGBUILDDIR»/Code/GraphMol/SmilesParse/lex.yysmiles.cpp smiles.ll cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /«PKGBUILDDIR» /«PKGBUILDDIR»/Code/GraphMol/SmilesParse /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/DependInfo.cmake --color= Scanning dependencies of target SmilesParse_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/build.make Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_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 70 [ 12%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/SmilesParse.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SmilesParse_static.dir/SmilesParse.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/SmilesParse.cpp Linking CXX static library libRDGeometryLib_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/cmake -P CMakeFiles/RDGeometryLib_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeometryLib_static.dir/link.txt --verbose=1 /usr/bin/ar cr libRDGeometryLib_static.a CMakeFiles/RDGeometryLib_static.dir/point.cpp.o CMakeFiles/RDGeometryLib_static.dir/Transform2D.cpp.o CMakeFiles/RDGeometryLib_static.dir/Transform3D.cpp.o CMakeFiles/RDGeometryLib_static.dir/UniformGrid3D.cpp.o CMakeFiles/RDGeometryLib_static.dir/GridUtils.cpp.o /usr/bin/ranlib libRDGeometryLib_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 61 [ 12%] Built target RDGeometryLib_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 12%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/UFF/TorsionAngle.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/UFF/TorsionAngle.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/UFF/TorsionAngle.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 34 [ 13%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/UFF/DistanceConstraint.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/UFF/DistanceConstraint.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/UFF/DistanceConstraint.cpp Linking CXX static library libDistGeometry_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/cmake -P CMakeFiles/DistGeometry_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DistGeom && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeometry_static.dir/link.txt --verbose=1 /usr/bin/ar cr libDistGeometry_static.a CMakeFiles/DistGeometry_static.dir/DistGeomUtils.cpp.o CMakeFiles/DistGeometry_static.dir/TriangleSmooth.cpp.o CMakeFiles/DistGeometry_static.dir/DistViolationContrib.cpp.o CMakeFiles/DistGeometry_static.dir/ChiralViolationContrib.cpp.o /usr/bin/ranlib libDistGeometry_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 16 [ 13%] Built target DistGeometry_static make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers_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/GraphMol/FileParsers /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/DependInfo.cmake --color= Scanning dependencies of target FileParsers_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/build.make Code/GraphMol/FileParsers/CMakeFiles/FileParsers_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 [ 13%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/Mol2FileParser.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/Mol2FileParser.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/Mol2FileParser.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 13%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MolFileParser.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/MolFileParser.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/MolFileParser.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 13%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/UFF/Params.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/UFF/Params.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/UFF/Params.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 13%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/MMFF/AngleBend.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/MMFF/AngleBend.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/MMFF/AngleBend.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 11 [ 14%] Building CXX object Code/GraphMol/Depictor/CMakeFiles/Depictor_static.dir/DepictUtils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Depictor_static.dir/DepictUtils.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Depictor/DepictUtils.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 14%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/MMFF/BondStretch.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/MMFF/BondStretch.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/MMFF/BondStretch.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 35 [ 15%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/MMFF/StretchBend.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/MMFF/StretchBend.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/MMFF/StretchBend.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 45 [ 16%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/QueryBond.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/QueryBond.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/QueryBond.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 16%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/MMFF/OopBend.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/MMFF/OopBend.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/MMFF/OopBend.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 16%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/SmilesParseOps.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SmilesParse_static.dir/SmilesParseOps.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/SmilesParseOps.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 16%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/MMFF/TorsionAngle.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/MMFF/TorsionAngle.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/MMFF/TorsionAngle.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 16%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/MMFF/Nonbonded.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/MMFF/Nonbonded.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/MMFF/Nonbonded.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 16%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/MMFF/DistanceConstraint.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/MMFF/DistanceConstraint.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/MMFF/DistanceConstraint.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 36 [ 17%] Building CXX object Code/ForceField/CMakeFiles/ForceField_static.dir/MMFF/Params.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceField_static.dir/MMFF/Params.cpp.o -c /«PKGBUILDDIR»/Code/ForceField/MMFF/Params.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/Bond.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/Bond.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Bond.cpp Linking CXX static library libDepictor_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -P CMakeFiles/Depictor_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Depictor && /usr/bin/cmake -E cmake_link_script CMakeFiles/Depictor_static.dir/link.txt --verbose=1 /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles /usr/bin/ar cr libDepictor_static.a CMakeFiles/Depictor_static.dir/RDDepictor.cpp.o CMakeFiles/Depictor_static.dir/EmbeddedFrag.cpp.o CMakeFiles/Depictor_static.dir/DepictUtils.cpp.o [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/MolOps.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/MolOps.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolOps.cpp /usr/bin/ranlib libDepictor_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 11 [ 17%] Built target Depictor_static make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch_static.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch_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/GraphMol/Substruct /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Substruct /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Substruct/CMakeFiles/SubstructMatch_static.dir/DependInfo.cmake --color= Scanning dependencies of target SubstructMatch_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/Substruct/CMakeFiles/SubstructMatch_static.dir/build.make Code/GraphMol/Substruct/CMakeFiles/SubstructMatch_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 [ 17%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch_static.dir/SubstructMatch.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SubstructMatch_static.dir/SubstructMatch.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Substruct/SubstructMatch.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 17%] Building CXX object Code/GraphMol/Substruct/CMakeFiles/SubstructMatch_static.dir/SubstructUtils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SubstructMatch_static.dir/SubstructUtils.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Substruct/SubstructUtils.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/FindRings.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/FindRings.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FindRings.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 17%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/ROMol.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/ROMol.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ROMol.cpp /«PKGBUILDDIR»/Code/ForceField/MMFF/Nonbonded.cpp:91:75: warning: adding 'unsigned int' to a string does not append to the string [-Wstring-plus-int] PRECONDITION(mmffVdWParamsIAtom, "bad MMFFVdW parameters for atom " + idx1); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /«PKGBUILDDIR»/Code/RDGeneral/Invariant.h:121:55: note: expanded from macro 'PRECONDITION' Invar::Invariant inv( "Pre-condition Violation", mess, \ ^ /«PKGBUILDDIR»/Code/ForceField/MMFF/Nonbonded.cpp:91:75: note: use array indexing to silence this warning PRECONDITION(mmffVdWParamsIAtom, "bad MMFFVdW parameters for atom " + idx1); ^ & [ /«PKGBUILDDIR»/Code/RDGeneral/Invariant.h:121:55: note: expanded from macro 'PRECONDITION' Invar::Invariant inv( "Pre-condition Violation", mess, \ ^ /«PKGBUILDDIR»/Code/ForceField/MMFF/Nonbonded.cpp:92:75: warning: adding 'unsigned int' to a string does not append to the string [-Wstring-plus-int] PRECONDITION(mmffVdWParamsJAtom, "bad MMFFVdW parameters for atom " + idx2); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /«PKGBUILDDIR»/Code/RDGeneral/Invariant.h:121:55: note: expanded from macro 'PRECONDITION' Invar::Invariant inv( "Pre-condition Violation", mess, \ ^ /«PKGBUILDDIR»/Code/ForceField/MMFF/Nonbonded.cpp:92:75: note: use array indexing to silence this warning PRECONDITION(mmffVdWParamsJAtom, "bad MMFFVdW parameters for atom " + idx2); ^ & [ /«PKGBUILDDIR»/Code/RDGeneral/Invariant.h:121:55: note: expanded from macro 'PRECONDITION' Invar::Invariant inv( "Pre-condition Violation", mess, \ ^ 2 warnings generated. /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 46 [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/RWMol.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/RWMol.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/RWMol.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 18%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/SmilesWrite.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SmilesParse_static.dir/SmilesWrite.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/SmilesWrite.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 18%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/PeriodicTable.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/PeriodicTable.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/PeriodicTable.cpp Linking CXX static library libForceField_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/cmake -P CMakeFiles/ForceField_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ForceField && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceField_static.dir/link.txt --verbose=1 /usr/bin/ar cr libForceField_static.a CMakeFiles/ForceField_static.dir/ForceField.cpp.o CMakeFiles/ForceField_static.dir/UFF/AngleBend.cpp.o CMakeFiles/ForceField_static.dir/UFF/BondStretch.cpp.o CMakeFiles/ForceField_static.dir/UFF/Nonbonded.cpp.o CMakeFiles/ForceField_static.dir/UFF/Inversion.cpp.o CMakeFiles/ForceField_static.dir/UFF/TorsionAngle.cpp.o CMakeFiles/ForceField_static.dir/UFF/DistanceConstraint.cpp.o CMakeFiles/ForceField_static.dir/UFF/Params.cpp.o CMakeFiles/ForceField_static.dir/MMFF/AngleBend.cpp.o CMakeFiles/ForceField_static.dir/MMFF/BondStretch.cpp.o CMakeFiles/ForceField_static.dir/MMFF/StretchBend.cpp.o CMakeFiles/ForceField_static.dir/MMFF/OopBend.cpp.o CMakeFiles/ForceField_static.dir/MMFF/TorsionAngle.cpp.o CMakeFiles/ForceField_static.dir/MMFF/Nonbonded.cpp.o CMakeFiles/ForceField_static.dir/MMFF/DistanceConstraint.cpp.o CMakeFiles/ForceField_static.dir/MMFF/Params.cpp.o /usr/bin/ranlib libForceField_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 33 34 35 36 [ 18%] Built target ForceField_static make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_static.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_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/GraphMol/ChemReactions /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_static.dir/DependInfo.cmake --color= Scanning dependencies of target ChemReactions_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_static.dir/build.make Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_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 [ 18%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_static.dir/Reaction.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ChemReactions_static.dir/Reaction.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ChemReactions/Reaction.cpp make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms_static.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms_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/GraphMol/ChemTransforms /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms_static.dir/DependInfo.cmake --color= Scanning dependencies of target ChemTransforms_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms_static.dir/build.make Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms_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 5 [ 19%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms_static.dir/ChemTransforms.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ChemTransforms_static.dir/ChemTransforms.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ChemTransforms/ChemTransforms.cpp make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs_static.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs_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/GraphMol/Subgraphs /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs_static.dir/DependInfo.cmake --color= Scanning dependencies of target Subgraphs_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs_static.dir/build.make Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs_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 [ 19%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs_static.dir/Subgraphs.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -I/«PKGBUILDDIR»/External/boost-numeric-bindings -o CMakeFiles/Subgraphs_static.dir/Subgraphs.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Subgraphs/Subgraphs.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 19%] Building CXX object Code/GraphMol/Subgraphs/CMakeFiles/Subgraphs_static.dir/SubgraphUtils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -I/«PKGBUILDDIR»/External/boost-numeric-bindings -o CMakeFiles/Subgraphs_static.dir/SubgraphUtils.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Subgraphs/SubgraphUtils.cpp Linking CXX static library libSubstructMatch_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -P CMakeFiles/SubstructMatch_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Substruct && /usr/bin/cmake -E cmake_link_script CMakeFiles/SubstructMatch_static.dir/link.txt --verbose=1 /usr/bin/ar cr libSubstructMatch_static.a CMakeFiles/SubstructMatch_static.dir/SubstructMatch.cpp.o CMakeFiles/SubstructMatch_static.dir/SubstructUtils.cpp.o /usr/bin/ranlib libSubstructMatch_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 [ 19%] Built target SubstructMatch_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 19%] Building CXX object Code/GraphMol/ChemTransforms/CMakeFiles/ChemTransforms_static.dir/MolFragmenter.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ChemTransforms_static.dir/MolFragmenter.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ChemTransforms/MolFragmenter.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 19%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MolFileStereochem.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/MolFileStereochem.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/MolFileStereochem.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 19%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/MolFileWriter.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/MolFileWriter.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/MolFileWriter.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 19%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/SmartsWrite.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SmilesParse_static.dir/SmartsWrite.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/SmartsWrite.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 19%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_static.dir/MDLParser.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ChemReactions_static.dir/MDLParser.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ChemReactions/MDLParser.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/atomic_data.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/atomic_data.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/atomic_data.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 19%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/QueryOps.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/QueryOps.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/QueryOps.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 22 [ 20%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/ForwardSDMolSupplier.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/ForwardSDMolSupplier.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/ForwardSDMolSupplier.cpp Linking CXX static library libSubgraphs_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -P CMakeFiles/Subgraphs_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Subgraphs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Subgraphs_static.dir/link.txt --verbose=1 /usr/bin/ar cr libSubgraphs_static.a CMakeFiles/Subgraphs_static.dir/Subgraphs.cpp.o CMakeFiles/Subgraphs_static.dir/SubgraphUtils.cpp.o /usr/bin/ranlib libSubgraphs_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 [ 20%] Built target Subgraphs_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 71 [ 21%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/smiles.tab.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SmilesParse_static.dir/smiles.tab.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/smiles.tab.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 47 [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/MolPickler.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/MolPickler.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolPickler.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/Canon.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/Canon.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Canon.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 22%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/smarts.tab.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SmilesParse_static.dir/smarts.tab.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/smarts.tab.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/AtomIterators.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/AtomIterators.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/AtomIterators.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 22%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_static.dir/DaylightParser.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ChemReactions_static.dir/DaylightParser.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ChemReactions/DaylightParser.cpp Linking CXX static library libChemTransforms_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -P CMakeFiles/ChemTransforms_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemTransforms_static.dir/link.txt --verbose=1 /usr/bin/ar cr libChemTransforms_static.a CMakeFiles/ChemTransforms_static.dir/ChemTransforms.cpp.o CMakeFiles/ChemTransforms_static.dir/MolFragmenter.cpp.o /usr/bin/ranlib libChemTransforms_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 5 [ 22%] Built target ChemTransforms_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 22%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/BondIterators.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/BondIterators.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/BondIterators.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 22%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/lex.yysmiles.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SmilesParse_static.dir/lex.yysmiles.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/lex.yysmiles.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 4 [ 23%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_static.dir/ReactionPickler.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ChemReactions_static.dir/ReactionPickler.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ChemReactions/ReactionPickler.cpp smiles.yy:23:9: warning: 'YYDEBUG' macro redefined #define YYDEBUG 1 ^ /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/smiles.tab.hpp:37:10: note: previous definition is here # define YYDEBUG 0 ^ /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 23%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SDMolSupplier.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/SDMolSupplier.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/SDMolSupplier.cpp 1 warning generated. /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 23%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_static.dir/ReactionWriter.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ChemReactions_static.dir/ReactionWriter.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ChemReactions/ReactionWriter.cpp smarts.yy:23:9: warning: 'YYDEBUG' macro redefined #define YYDEBUG 1 ^ /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/smarts.tab.hpp:37:10: note: previous definition is here # define YYDEBUG 0 ^ make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog_static.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog_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/GraphMol/FragCatalog /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog_static.dir/DependInfo.cmake --color= Scanning dependencies of target FragCatalog_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog_static.dir/build.make Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog_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 [ 23%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog_static.dir/FragCatalogUtils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FragCatalog_static.dir/FragCatalogUtils.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FragCatalog/FragCatalogUtils.cpp make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors_static.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors_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/GraphMol/Descriptors /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors/CMakeFiles/Descriptors_static.dir/DependInfo.cmake --color= Scanning dependencies of target Descriptors_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/Descriptors/CMakeFiles/Descriptors_static.dir/build.make Code/GraphMol/Descriptors/CMakeFiles/Descriptors_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 [ 23%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors_static.dir/Crippen.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Descriptors_static.dir/Crippen.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Descriptors/Crippen.cpp make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints_static.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints_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/GraphMol/Fingerprints /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints_static.dir/DependInfo.cmake --color= Scanning dependencies of target Fingerprints_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints_static.dir/build.make Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints_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 1 warning generated. [ 23%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints_static.dir/Fingerprints.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Fingerprints_static.dir/Fingerprints.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Fingerprints/Fingerprints.cpp make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges_static.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges_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/GraphMol/PartialCharges /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges_static.dir/DependInfo.cmake --color= Scanning dependencies of target PartialCharges_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges_static.dir/build.make Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges_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 56 [ 24%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges_static.dir/GasteigerCharges.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/PartialCharges_static.dir/GasteigerCharges.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/PartialCharges/GasteigerCharges.cpp make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms_static.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms_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/GraphMol/MolTransforms /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms_static.dir/DependInfo.cmake --color= Scanning dependencies of target MolTransforms_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms_static.dir/build.make Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms_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 [ 24%] Building CXX object Code/GraphMol/MolTransforms/CMakeFiles/MolTransforms_static.dir/MolTransforms.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/MolTransforms_static.dir/MolTransforms.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolTransforms/MolTransforms.cpp make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers_static.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers_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/GraphMol/ForceFieldHelpers /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers_static.dir/DependInfo.cmake --color= Scanning dependencies of target ForceFieldHelpers_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers_static.dir/build.make Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers_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 [ 24%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers_static.dir/UFF/AtomTyper.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceFieldHelpers_static.dir/UFF/AtomTyper.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ForceFieldHelpers/UFF/AtomTyper.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 24%] Building CXX object Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse_static.dir/lex.yysmarts.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SmilesParse_static.dir/lex.yysmarts.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SmilesParse/lex.yysmarts.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 24%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SDWriter.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/SDWriter.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/SDWriter.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 24%] Building CXX object Code/GraphMol/ChemReactions/CMakeFiles/ChemReactions_static.dir/ReactionDepict.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ChemReactions_static.dir/ReactionDepict.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ChemReactions/ReactionDepict.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 24%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/Aromaticity.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/Aromaticity.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Aromaticity.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 32 [ 25%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers_static.dir/UFF/Builder.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceFieldHelpers_static.dir/UFF/Builder.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ForceFieldHelpers/UFF/Builder.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 25%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors_static.dir/MolDescriptors.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Descriptors_static.dir/MolDescriptors.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Descriptors/MolDescriptors.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 25%] Building CXX object Code/GraphMol/PartialCharges/CMakeFiles/PartialCharges_static.dir/GasteigerParams.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/PartialCharges_static.dir/GasteigerParams.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/PartialCharges/GasteigerParams.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 25%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog_static.dir/FragCatGenerator.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FragCatalog_static.dir/FragCatGenerator.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FragCatalog/FragCatGenerator.cpp Linking CXX static library libSmilesParse_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -P CMakeFiles/SmilesParse_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SmilesParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SmilesParse_static.dir/link.txt --verbose=1 /usr/bin/ar cr libSmilesParse_static.a CMakeFiles/SmilesParse_static.dir/SmilesParse.cpp.o CMakeFiles/SmilesParse_static.dir/SmilesParseOps.cpp.o CMakeFiles/SmilesParse_static.dir/SmilesWrite.cpp.o CMakeFiles/SmilesParse_static.dir/SmartsWrite.cpp.o CMakeFiles/SmilesParse_static.dir/smiles.tab.cpp.o CMakeFiles/SmilesParse_static.dir/smarts.tab.cpp.o CMakeFiles/SmilesParse_static.dir/lex.yysmiles.cpp.o CMakeFiles/SmilesParse_static.dir/lex.yysmarts.cpp.o /usr/bin/ranlib libSmilesParse_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 70 71 [ 25%] Built target SmilesParse_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 13 [ 26%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors_static.dir/MolSurf.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Descriptors_static.dir/MolSurf.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Descriptors/MolSurf.cpp Linking CXX static library libMolTransforms_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -P CMakeFiles/MolTransforms_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolTransforms && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolTransforms_static.dir/link.txt --verbose=1 /usr/bin/ar cr libMolTransforms_static.a CMakeFiles/MolTransforms_static.dir/MolTransforms.cpp.o /usr/bin/ranlib libMolTransforms_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 [ 26%] Built target MolTransforms_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 26%] Linking CXX static library libChemReactions_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -P CMakeFiles/ChemReactions_static.dir/cmake_clean_target.cmake Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors_static.dir/Lipinski.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Descriptors_static.dir/Lipinski.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Descriptors/Lipinski.cpp cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ChemReactions && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemReactions_static.dir/link.txt --verbose=1 /usr/bin/ar cr libChemReactions_static.a CMakeFiles/ChemReactions_static.dir/Reaction.cpp.o CMakeFiles/ChemReactions_static.dir/MDLParser.cpp.o CMakeFiles/ChemReactions_static.dir/DaylightParser.cpp.o CMakeFiles/ChemReactions_static.dir/ReactionPickler.cpp.o CMakeFiles/ChemReactions_static.dir/ReactionWriter.cpp.o CMakeFiles/ChemReactions_static.dir/ReactionDepict.cpp.o /usr/bin/ranlib libChemReactions_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 4 [ 26%] Built target ChemReactions_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 26%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors_static.dir/ConnectivityDescriptors.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Descriptors_static.dir/ConnectivityDescriptors.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Descriptors/ConnectivityDescriptors.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 26%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints_static.dir/PatternFingerprints.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Fingerprints_static.dir/PatternFingerprints.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Fingerprints/PatternFingerprints.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 26%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SmilesMolSupplier.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/SmilesMolSupplier.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/SmilesMolSupplier.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 48 [ 27%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/Kekulize.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/Kekulize.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Kekulize.cpp Linking CXX static library libPartialCharges_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/cmake -P CMakeFiles/PartialCharges_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/PartialCharges && /usr/bin/cmake -E cmake_link_script CMakeFiles/PartialCharges_static.dir/link.txt --verbose=1 /usr/bin/ar cr libPartialCharges_static.a CMakeFiles/PartialCharges_static.dir/GasteigerCharges.cpp.o CMakeFiles/PartialCharges_static.dir/GasteigerParams.cpp.o /usr/bin/ranlib libPartialCharges_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 56 [ 27%] Built target PartialCharges_static make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers_static.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers_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/GraphMol/DistGeomHelpers /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers_static.dir/DependInfo.cmake --color= Scanning dependencies of target DistGeomHelpers_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers_static.dir/build.make Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers_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 [ 27%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers_static.dir/BoundsMatrixBuilder.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DistGeomHelpers_static.dir/BoundsMatrixBuilder.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/DistGeomHelpers/BoundsMatrixBuilder.cpp In file included from /«PKGBUILDDIR»/Code/GraphMol/FragCatalog/FragCatGenerator.cpp:12: /«PKGBUILDDIR»/Code/GraphMol/FragCatalog/FragCatGenerator.h:10:9: warning: '_RD_FRAG_CAT_GENERATOR_H_' is used as a header guard here, followed by #define of a different macro [-Wheader-guard] #ifndef _RD_FRAG_CAT_GENERATOR_H_ ^~~~~~~~~~~~~~~~~~~~~~~~~ /«PKGBUILDDIR»/Code/GraphMol/FragCatalog/FragCatGenerator.h:11:9: note: '_RD_FRAG_CAT_GENRATOR_H_' is defined here; did you mean '_RD_FRAG_CAT_GENERATOR_H_'? #define _RD_FRAG_CAT_GENRATOR_H_ ^~~~~~~~~~~~~~~~~~~~~~~~ _RD_FRAG_CAT_GENERATOR_H_ make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign_static.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign_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/GraphMol/MolAlign /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign/CMakeFiles/MolAlign_static.dir/DependInfo.cmake --color= Scanning dependencies of target MolAlign_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolAlign/CMakeFiles/MolAlign_static.dir/build.make Code/GraphMol/MolAlign/CMakeFiles/MolAlign_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 51 [ 28%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign_static.dir/AlignMolecules.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/MolAlign_static.dir/AlignMolecules.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolAlign/AlignMolecules.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 28%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers_static.dir/MMFF/AtomTyper.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceFieldHelpers_static.dir/MMFF/AtomTyper.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ForceFieldHelpers/MMFF/AtomTyper.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 28%] Building CXX object Code/GraphMol/ForceFieldHelpers/CMakeFiles/ForceFieldHelpers_static.dir/MMFF/Builder.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ForceFieldHelpers_static.dir/MMFF/Builder.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ForceFieldHelpers/MMFF/Builder.cpp 1 warning generated. /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 38 [ 29%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog_static.dir/FragCatalogEntry.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FragCatalog_static.dir/FragCatalogEntry.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FragCatalog/FragCatalogEntry.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 29%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/MolDiscriminators.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/MolDiscriminators.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolDiscriminators.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 29%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints_static.dir/MorganFingerprints.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Fingerprints_static.dir/MorganFingerprints.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Fingerprints/MorganFingerprints.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 23 [ 29%] [ 30%] Building CXX object Code/GraphMol/Descriptors/CMakeFiles/Descriptors_static.dir/MQN.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Descriptors_static.dir/MQN.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Descriptors/MQN.cpp Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/SmilesWriter.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/SmilesWriter.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/SmilesWriter.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 30%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints_static.dir/AtomPairs.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Fingerprints_static.dir/AtomPairs.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Fingerprints/AtomPairs.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 30%] Building CXX object Code/GraphMol/MolAlign/CMakeFiles/MolAlign_static.dir/O3AAlignMolecules.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/MolAlign_static.dir/O3AAlignMolecules.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolAlign/O3AAlignMolecules.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 30%] Building CXX object Code/GraphMol/DistGeomHelpers/CMakeFiles/DistGeomHelpers_static.dir/Embedder.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DistGeomHelpers_static.dir/Embedder.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/DistGeomHelpers/Embedder.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 30%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/ConjugHybrid.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/ConjugHybrid.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ConjugHybrid.cpp Linking CXX static library libDescriptors_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -P CMakeFiles/Descriptors_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Descriptors && /usr/bin/cmake -E cmake_link_script CMakeFiles/Descriptors_static.dir/link.txt --verbose=1 /usr/bin/ar cr libDescriptors_static.a CMakeFiles/Descriptors_static.dir/Crippen.cpp.o CMakeFiles/Descriptors_static.dir/MolDescriptors.cpp.o CMakeFiles/Descriptors_static.dir/MolSurf.cpp.o CMakeFiles/Descriptors_static.dir/Lipinski.cpp.o CMakeFiles/Descriptors_static.dir/ConnectivityDescriptors.cpp.o CMakeFiles/Descriptors_static.dir/MQN.cpp.o /usr/bin/ranlib libDescriptors_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 13 [ 30%] Built target Descriptors_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 27 [ 31%] Building CXX object Code/GraphMol/Fingerprints/CMakeFiles/Fingerprints_static.dir/MACCS.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Fingerprints_static.dir/MACCS.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Fingerprints/MACCS.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 31%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TDTMolSupplier.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/TDTMolSupplier.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/TDTMolSupplier.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 31%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog_static.dir/FragCatParams.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FragCatalog_static.dir/FragCatParams.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FragCatalog/FragCatParams.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 31%] Building CXX object Code/GraphMol/FragCatalog/CMakeFiles/FragCatalog_static.dir/FragFPGenerator.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FragCatalog_static.dir/FragFPGenerator.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FragCatalog/FragFPGenerator.cpp Linking CXX static library libForceFieldHelpers_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -P CMakeFiles/ForceFieldHelpers_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ForceFieldHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ForceFieldHelpers_static.dir/link.txt --verbose=1 /usr/bin/ar cr libForceFieldHelpers_static.a CMakeFiles/ForceFieldHelpers_static.dir/UFF/AtomTyper.cpp.o CMakeFiles/ForceFieldHelpers_static.dir/UFF/Builder.cpp.o CMakeFiles/ForceFieldHelpers_static.dir/MMFF/AtomTyper.cpp.o CMakeFiles/ForceFieldHelpers_static.dir/MMFF/Builder.cpp.o /usr/bin/ranlib libForceFieldHelpers_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 32 [ 31%] Built target ForceFieldHelpers_static make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures_static.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures_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/GraphMol/MolChemicalFeatures /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures_static.dir/DependInfo.cmake --color= Scanning dependencies of target MolChemicalFeatures_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures_static.dir/build.make Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures_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 [ 31%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures_static.dir/MolChemicalFeature.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/MolChemicalFeatures_static.dir/MolChemicalFeature.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolChemicalFeatures/MolChemicalFeature.cpp /«PKGBUILDDIR»/Code/GraphMol/Fingerprints/AtomPairs.cpp:448:78: warning: operator '<<' has lower precedence than '+'; '+' will be evaluated first [-Wshift-op-parentheses] atomCodes.push_back(((*atomInvariants)[(*atomItI)->getIdx()])<<1 + 1); ~~~~^~~ /«PKGBUILDDIR»/Code/GraphMol/Fingerprints/AtomPairs.cpp:448:78: note: place parentheses around the '+' expression to silence this warning atomCodes.push_back(((*atomInvariants)[(*atomItI)->getIdx()])<<1 + 1); ^ ( ) make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers_static.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers_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/GraphMol/ShapeHelpers /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers_static.dir/DependInfo.cmake --color= Scanning dependencies of target ShapeHelpers_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers_static.dir/build.make Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers_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 [ 31%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers_static.dir/ShapeEncoder.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ShapeHelpers_static.dir/ShapeEncoder.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ShapeHelpers/ShapeEncoder.cpp 1 warning generated. make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog_static.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog_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/GraphMol/MolCatalog /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog_static.dir/DependInfo.cmake --color= Scanning dependencies of target MolCatalog_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog_static.dir/build.make Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog_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 52 [ 32%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog_static.dir/MolCatalogEntry.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/MolCatalog_static.dir/MolCatalogEntry.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolCatalog/MolCatalogEntry.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 32%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/AddHs.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/AddHs.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/AddHs.cpp Linking CXX static library libDistGeomHelpers_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -P CMakeFiles/DistGeomHelpers_static.dir/cmake_clean_target.cmake Linking CXX static library libMolAlign_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -P CMakeFiles/MolAlign_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/DistGeomHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/DistGeomHelpers_static.dir/link.txt --verbose=1 cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolAlign && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolAlign_static.dir/link.txt --verbose=1 /usr/bin/ar cr libDistGeomHelpers_static.a CMakeFiles/DistGeomHelpers_static.dir/BoundsMatrixBuilder.cpp.o CMakeFiles/DistGeomHelpers_static.dir/Embedder.cpp.o /usr/bin/ar cr libMolAlign_static.a CMakeFiles/MolAlign_static.dir/AlignMolecules.cpp.o CMakeFiles/MolAlign_static.dir/O3AAlignMolecules.cpp.o /usr/bin/ranlib libDistGeomHelpers_static.a /usr/bin/ranlib libMolAlign_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 make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 51 [ 32%] [ 32%] Built target MolAlign_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles Built target DistGeomHelpers_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 32%] [ 32%] Building CXX object Code/GraphMol/ShapeHelpers/CMakeFiles/ShapeHelpers_static.dir/ShapeUtils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ShapeHelpers_static.dir/ShapeUtils.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/ShapeHelpers/ShapeUtils.cpp Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures_static.dir/MolChemicalFeatureDef.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/MolChemicalFeatures_static.dir/MolChemicalFeatureDef.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureDef.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 32%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TDTWriter.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/TDTWriter.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/TDTWriter.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 32%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures_static.dir/MolChemicalFeatureFactory.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/MolChemicalFeatures_static.dir/MolChemicalFeatureFactory.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolChemicalFeatures/MolChemicalFeatureFactory.cpp Linking CXX static library libFragCatalog_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -P CMakeFiles/FragCatalog_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FragCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragCatalog_static.dir/link.txt --verbose=1 /usr/bin/ar cr libFragCatalog_static.a CMakeFiles/FragCatalog_static.dir/FragCatalogUtils.cpp.o CMakeFiles/FragCatalog_static.dir/FragCatGenerator.cpp.o CMakeFiles/FragCatalog_static.dir/FragCatalogEntry.cpp.o CMakeFiles/FragCatalog_static.dir/FragCatParams.cpp.o CMakeFiles/FragCatalog_static.dir/FragFPGenerator.cpp.o /usr/bin/ranlib libFragCatalog_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 38 [ 32%] Built target FragCatalog_static make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse_static.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse_static.dir/depend make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 63 [ 33%] [FLEX][SlnL] Building scanner with flex 2.5.39 cd /«PKGBUILDDIR»/Code/GraphMol/SLNParse && /usr/bin/flex -Pyysln_ -o/«PKGBUILDDIR»/Code/GraphMol/SLNParse/lex.yysln.cpp sln.ll /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 33%] [BISON][SlnY] Building parser with bison 3.0.2 cd /«PKGBUILDDIR»/Code/GraphMol/SLNParse && /usr/bin/bison -pyysln_ -d -o /«PKGBUILDDIR»/Code/GraphMol/SLNParse/sln.tab.cpp sln.yy Linking CXX static library libFingerprints_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -P CMakeFiles/Fingerprints_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/Fingerprints && /usr/bin/cmake -E cmake_link_script CMakeFiles/Fingerprints_static.dir/link.txt --verbose=1 make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.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/Query /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Query /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Query/CMakeFiles/testQuery.dir/DependInfo.cmake --color= /usr/bin/ar cr libFingerprints_static.a CMakeFiles/Fingerprints_static.dir/Fingerprints.cpp.o CMakeFiles/Fingerprints_static.dir/PatternFingerprints.cpp.o CMakeFiles/Fingerprints_static.dir/MorganFingerprints.cpp.o CMakeFiles/Fingerprints_static.dir/AtomPairs.cpp.o CMakeFiles/Fingerprints_static.dir/MACCS.cpp.o Scanning dependencies of target testQuery make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/Query/CMakeFiles/testQuery.dir/build.make Code/Query/CMakeFiles/testQuery.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 /usr/bin/ranlib libFingerprints_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /«PKGBUILDDIR» /«PKGBUILDDIR»/Code/GraphMol/SLNParse /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse/CMakeFiles/SLNParse_static.dir/DependInfo.cmake --color= [ 33%] make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 27 [ 33%] Building CXX object Code/Query/CMakeFiles/testQuery.dir/test.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Query && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/testQuery.dir/test.cpp.o -c /«PKGBUILDDIR»/Code/Query/test.cpp Built target Fingerprints_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 54 Scanning dependencies of target SLNParse_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/GraphMol/SLNParse/CMakeFiles/SLNParse_static.dir/build.make Code/GraphMol/SLNParse/CMakeFiles/SLNParse_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 [ 34%] [ 34%] Building CXX object Code/GraphMol/MolChemicalFeatures/CMakeFiles/MolChemicalFeatures_static.dir/FeatureParser.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/MolChemicalFeatures_static.dir/FeatureParser.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolChemicalFeatures/FeatureParser.cpp Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse_static.dir/SLNParse.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SLNParse_static.dir/SLNParse.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SLNParse/SLNParse.cpp make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.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/DataManip/MetricMatrixCalc /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/DependInfo.cmake --color= Scanning dependencies of target testMatCalc make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/build.make Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.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 [ 34%] Building CXX object Code/DataManip/MetricMatrixCalc/CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -c /«PKGBUILDDIR»/Code/DataManip/MetricMatrixCalc/testMatCalc.cpp Linking CXX executable testMatCalc cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatCalc.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/testMatCalc.dir/testMatCalc.cpp.o -o testMatCalc -rdynamic ../../../lib/libRDGeneral.so.1.2013.09.1 make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 34%] Built target testMatCalc /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 49 [ 35%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/RankAtoms.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/RankAtoms.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/RankAtoms.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 35%] Building CXX object Code/GraphMol/MolCatalog/CMakeFiles/MolCatalog_static.dir/MolCatalogParams.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/MolCatalog_static.dir/MolCatalogParams.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/MolCatalog/MolCatalogParams.cpp make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.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/ML/Cluster/Murtagh /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/DependInfo.cmake --color= Scanning dependencies of target hc make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc.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 [ 35%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hc.c.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cc -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -Dhc_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/hc.dir/hc.c.o -c /«PKGBUILDDIR»/Code/ML/Cluster/Murtagh/hc.c /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 35%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc.dir/hcdriver.c.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cc -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -Dhc_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/hc.dir/hcdriver.c.o -c /«PKGBUILDDIR»/Code/ML/Cluster/Murtagh/hcdriver.c Linking CXX static library libShapeHelpers_static.a Linking CXX static library libMolCatalog_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -P CMakeFiles/MolCatalog_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -P CMakeFiles/ShapeHelpers_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/ShapeHelpers && /usr/bin/cmake -E cmake_link_script CMakeFiles/ShapeHelpers_static.dir/link.txt --verbose=1 cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolCatalog && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolCatalog_static.dir/link.txt --verbose=1 /usr/bin/ar cr libMolCatalog_static.a CMakeFiles/MolCatalog_static.dir/MolCatalogEntry.cpp.o CMakeFiles/MolCatalog_static.dir/MolCatalogParams.cpp.o /usr/bin/ar cr libShapeHelpers_static.a CMakeFiles/ShapeHelpers_static.dir/ShapeEncoder.cpp.o CMakeFiles/ShapeHelpers_static.dir/ShapeUtils.cpp.o /usr/bin/ranlib libShapeHelpers_static.a /usr/bin/ranlib libMolCatalog_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 make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 52 Linking C shared library ../../../../lib/libhc.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/hc.dir/link.txt --verbose=1 [ 35%] [ 35%] Built target MolCatalog_static make -f Code/SimDivPickers/CMakeFiles/SimDivPickers_static.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers_static.dir/depend Built target ShapeHelpers_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 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/SimDivPickers /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers_static.dir/DependInfo.cmake --color= [ 35%] /usr/bin/cc -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,libhc.so.1 -o ../../../../lib/libhc.so.1.2013.09.1 CMakeFiles/hc.dir/hc.c.o CMakeFiles/hc.dir/hcdriver.c.o Scanning dependencies of target SimDivPickers_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/SimDivPickers/CMakeFiles/SimDivPickers_static.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers_static.dir/build Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse_static.dir/SLNAttribs.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SLNParse_static.dir/SLNAttribs.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SLNParse/SLNAttribs.cpp make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 35%] cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_symlink_library ../../../../lib/libhc.so.1.2013.09.1 ../../../../lib/libhc.so.1 ../../../../lib/libhc.so Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers_static.dir/DistPicker.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SimDivPickers_static.dir/DistPicker.cpp.o -c /«PKGBUILDDIR»/Code/SimDivPickers/DistPicker.cpp make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 35%] Built target hc /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 35%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse_static.dir/sln.tab.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SLNParse_static.dir/sln.tab.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SLNParse/sln.tab.cpp Linking CXX executable testQuery cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Query && /usr/bin/cmake -E cmake_link_script CMakeFiles/testQuery.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/testQuery.dir/test.cpp.o -o testQuery -rdynamic ../../lib/libRDGeneral.so.1.2013.09.1 make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 35%] Built target testQuery /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 64 [ 36%] Building CXX object Code/GraphMol/SLNParse/CMakeFiles/SLNParse_static.dir/lex.yysln.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SLNParse_static.dir/lex.yysln.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/SLNParse/lex.yysln.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 66 [ 37%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers_static.dir/MaxMinPicker.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SimDivPickers_static.dir/MaxMinPicker.cpp.o -c /«PKGBUILDDIR»/Code/SimDivPickers/MaxMinPicker.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 37%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers_static.dir/HierarchicalClusterPicker.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SimDivPickers_static.dir/HierarchicalClusterPicker.cpp.o -c /«PKGBUILDDIR»/Code/SimDivPickers/HierarchicalClusterPicker.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 37%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TplFileParser.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/TplFileParser.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/TplFileParser.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 37%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/Matrices.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/Matrices.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Matrices.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 37%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/Chirality.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/Chirality.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Chirality.cpp sln.yy:54:9: warning: 'YYDEBUG' macro redefined #define YYDEBUG 1 ^ /«PKGBUILDDIR»/Code/GraphMol/SLNParse/sln.tab.hpp:37:10: note: previous definition is here # define YYDEBUG 0 ^ Linking CXX static library libSimDivPickers_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -P CMakeFiles/SimDivPickers_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/SimDivPickers_static.dir/link.txt --verbose=1 /usr/bin/ar cr libSimDivPickers_static.a CMakeFiles/SimDivPickers_static.dir/DistPicker.cpp.o CMakeFiles/SimDivPickers_static.dir/MaxMinPicker.cpp.o CMakeFiles/SimDivPickers_static.dir/HierarchicalClusterPicker.cpp.o /usr/bin/ranlib libSimDivPickers_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 66 [ 37%] Built target SimDivPickers_static make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc_static.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc_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/ML/Cluster/Murtagh /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/hc_static.dir/DependInfo.cmake --color= Scanning dependencies of target hc_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ML/Cluster/Murtagh/CMakeFiles/hc_static.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/hc_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 [ 37%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc_static.dir/hc.c.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cc -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/hc_static.dir/hc.c.o -c /«PKGBUILDDIR»/Code/ML/Cluster/Murtagh/hc.c /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 37%] Building C object Code/ML/Cluster/Murtagh/CMakeFiles/hc_static.dir/hcdriver.c.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cc -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/hc_static.dir/hcdriver.c.o -c /«PKGBUILDDIR»/Code/ML/Cluster/Murtagh/hcdriver.c Linking C static library libhc_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -P CMakeFiles/hc_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/hc_static.dir/link.txt --verbose=1 /usr/bin/ar cr libhc_static.a CMakeFiles/hc_static.dir/hc.c.o CMakeFiles/hc_static.dir/hcdriver.c.o /usr/bin/ranlib libhc_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 [ 37%] Built target hc_static make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/depend Linking CXX static library libMolChemicalFeatures_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -P CMakeFiles/MolChemicalFeatures_static.dir/cmake_clean_target.cmake 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/ML/InfoTheory /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/DependInfo.cmake --color= cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/MolChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/MolChemicalFeatures_static.dir/link.txt --verbose=1 Scanning dependencies of target InfoTheory make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/build.make Code/ML/InfoTheory/CMakeFiles/InfoTheory.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 /usr/bin/ar cr libMolChemicalFeatures_static.a CMakeFiles/MolChemicalFeatures_static.dir/MolChemicalFeature.cpp.o CMakeFiles/MolChemicalFeatures_static.dir/MolChemicalFeatureDef.cpp.o CMakeFiles/MolChemicalFeatures_static.dir/MolChemicalFeatureFactory.cpp.o CMakeFiles/MolChemicalFeatures_static.dir/FeatureParser.cpp.o [ 37%] /usr/bin/ranlib libMolChemicalFeatures_static.a Building CXX object Code/ML/InfoTheory/CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o -c /«PKGBUILDDIR»/Code/ML/InfoTheory/InfoBitRanker.cpp 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 [ 37%] Built target MolChemicalFeatures_static make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.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/ChemicalFeatures /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target ChemicalFeatures make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.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 [ 37%] Building CXX object Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DChemicalFeatures_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o -c /«PKGBUILDDIR»/Code/ChemicalFeatures/FreeChemicalFeature.cpp make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures_static.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures_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/ChemicalFeatures /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures_static.dir/DependInfo.cmake --color= Scanning dependencies of target ChemicalFeatures_static make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures_static.dir/build.make Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures_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 [ 37%] Building CXX object Code/ChemicalFeatures/CMakeFiles/ChemicalFeatures_static.dir/FreeChemicalFeature.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/ChemicalFeatures_static.dir/FreeChemicalFeature.cpp.o -c /«PKGBUILDDIR»/Code/ChemicalFeatures/FreeChemicalFeature.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 37%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/RingInfo.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/RingInfo.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/RingInfo.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 50 [ 38%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/Conformer.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/Conformer.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Conformer.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 38%] Building CXX object Code/GraphMol/CMakeFiles/GraphMol_static.dir/Renumber.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/GraphMol_static.dir/Renumber.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/Renumber.cpp Linking CXX static library libInfoTheory.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory && /usr/bin/cmake -P CMakeFiles/InfoTheory.dir/cmake_clean_target.cmake /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_link_script CMakeFiles/InfoTheory.dir/link.txt --verbose=1 [ 38%] /usr/bin/ar cr libInfoTheory.a CMakeFiles/InfoTheory.dir/InfoBitRanker.cpp.o /usr/bin/ranlib libInfoTheory.a Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/TplFileWriter.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/TplFileWriter.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/TplFileWriter.cpp make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 38%] Built target InfoTheory /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 24 [ 39%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBParser.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/PDBParser.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/PDBParser.cpp 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 [ 39%] 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 -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/testDict.dir/testDict.cpp.o -c /«PKGBUILDDIR»/Code/RDGeneral/testDict.cpp 1 warning generated. Linking CXX static library libSLNParse_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -P CMakeFiles/SLNParse_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/SLNParse && /usr/bin/cmake -E cmake_link_script CMakeFiles/SLNParse_static.dir/link.txt --verbose=1 /usr/bin/ar cr libSLNParse_static.a CMakeFiles/SLNParse_static.dir/SLNParse.cpp.o CMakeFiles/SLNParse_static.dir/SLNAttribs.cpp.o CMakeFiles/SLNParse_static.dir/sln.tab.cpp.o CMakeFiles/SLNParse_static.dir/lex.yysln.cpp.o /usr/bin/ranlib libSLNParse_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 63 64 [ 39%] Built target SLNParse_static make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.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/RDBoost/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/DependInfo.cmake --color= Scanning dependencies of target rdBase make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/build.make Code/RDBoost/Wrap/CMakeFiles/rdBase.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 [ 39%] Building CXX object Code/RDBoost/Wrap/CMakeFiles/rdBase.dir/RDBase.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DrdBase_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/rdBase.dir/RDBase.cpp.o -c /«PKGBUILDDIR»/Code/RDBoost/Wrap/RDBase.cpp Linking CXX shared library ../../lib/libChemicalFeatures.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,libChemicalFeatures.so.1 -o ../../lib/libChemicalFeatures.so.1.2013.09.1 CMakeFiles/ChemicalFeatures.dir/FreeChemicalFeature.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_symlink_library ../../lib/libChemicalFeatures.so.1.2013.09.1 ../../lib/libChemicalFeatures.so.1 ../../lib/libChemicalFeatures.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 [ 39%] Built target ChemicalFeatures make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.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/DataStructs /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/CMakeFiles/DataStructs.dir/DependInfo.cmake --color= Scanning dependencies of target DataStructs make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/DataStructs/CMakeFiles/DataStructs.dir/build.make Code/DataStructs/CMakeFiles/DataStructs.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 [ 39%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitVect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs.dir/BitVect.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/BitVect.cpp Linking CXX static library libChemicalFeatures_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -P CMakeFiles/ChemicalFeatures_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/ChemicalFeatures_static.dir/link.txt --verbose=1 /usr/bin/ar cr libChemicalFeatures_static.a CMakeFiles/ChemicalFeatures_static.dir/FreeChemicalFeature.cpp.o /usr/bin/ranlib libChemicalFeatures_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 [ 39%] Built target ChemicalFeatures_static make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.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/Numerics /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/CMakeFiles/testMatrices.dir/DependInfo.cmake --color= Scanning dependencies of target testMatrices make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/Numerics/CMakeFiles/testMatrices.dir/build.make Code/Numerics/CMakeFiles/testMatrices.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 [ 39%] Building CXX object Code/Numerics/CMakeFiles/testMatrices.dir/testMatrices.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/testMatrices.dir/testMatrices.cpp.o -c /«PKGBUILDDIR»/Code/Numerics/testMatrices.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 39%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBWriter.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/PDBWriter.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/PDBWriter.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 39%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/SparseBitVect.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 39%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/PDBSupplier.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/PDBSupplier.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/PDBSupplier.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 39%] Building CXX object Code/GraphMol/FileParsers/CMakeFiles/FileParsers_static.dir/ProximityBonds.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/FileParsers_static.dir/ProximityBonds.cpp.o -c /«PKGBUILDDIR»/Code/GraphMol/FileParsers/ProximityBonds.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 39%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/ExplicitBitVect.cpp Linking CXX static library libGraphMol_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -P CMakeFiles/GraphMol_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol && /usr/bin/cmake -E cmake_link_script CMakeFiles/GraphMol_static.dir/link.txt --verbose=1 /usr/bin/ar cr libGraphMol_static.a CMakeFiles/GraphMol_static.dir/Atom.cpp.o CMakeFiles/GraphMol_static.dir/QueryAtom.cpp.o CMakeFiles/GraphMol_static.dir/QueryBond.cpp.o CMakeFiles/GraphMol_static.dir/Bond.cpp.o CMakeFiles/GraphMol_static.dir/MolOps.cpp.o CMakeFiles/GraphMol_static.dir/FindRings.cpp.o CMakeFiles/GraphMol_static.dir/ROMol.cpp.o CMakeFiles/GraphMol_static.dir/RWMol.cpp.o CMakeFiles/GraphMol_static.dir/PeriodicTable.cpp.o CMakeFiles/GraphMol_static.dir/atomic_data.cpp.o CMakeFiles/GraphMol_static.dir/QueryOps.cpp.o CMakeFiles/GraphMol_static.dir/MolPickler.cpp.o CMakeFiles/GraphMol_static.dir/Canon.cpp.o CMakeFiles/GraphMol_static.dir/AtomIterators.cpp.o CMakeFiles/GraphMol_static.dir/BondIterators.cpp.o CMakeFiles/GraphMol_static.dir/Aromaticity.cpp.o CMakeFiles/GraphMol_static.dir/Kekulize.cpp.o CMakeFiles/GraphMol_static.dir/MolDiscriminators.cpp.o CMakeFiles/GraphMol_static.dir/ConjugHybrid.cpp.o CMakeFiles/GraphMol_static.dir/AddHs.cpp.o CMakeFiles/GraphMol_static.dir/RankAtoms.cpp.o CMakeFiles/GraphMol_static.dir/Matrices.cpp.o CMakeFiles/GraphMol_static.dir/Chirality.cpp.o CMakeFiles/GraphMol_static.dir/RingInfo.cpp.o CMakeFiles/GraphMol_static.dir/Conformer.cpp.o CMakeFiles/GraphMol_static.dir/Renumber.cpp.o make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.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/Numerics/EigenSolvers /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/DependInfo.cmake --color= Scanning dependencies of target EigenSolvers make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/build.make Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.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 [ 39%] /usr/bin/ranlib libGraphMol_static.a Building CXX object Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/c++ -DEigenSolvers_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -c /«PKGBUILDDIR»/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 45 46 47 48 49 50 [ 39%] Built target GraphMol_static /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 7 [ 40%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/Utils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs.dir/Utils.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/Utils.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++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/testDict.dir/testDict.cpp.o -o testDict -rdynamic ../../lib/libRDGeneral.so.1.2013.09.1 make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 40%] Built target testDict /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 40%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/base64.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs.dir/base64.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/base64.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 40%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/BitOps.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs.dir/BitOps.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/BitOps.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 40%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/DiscreteDistMat.cpp Linking CXX executable testMatrices cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics && /usr/bin/cmake -E cmake_link_script CMakeFiles/testMatrices.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/testMatrices.dir/testMatrices.cpp.o -o testMatrices -rdynamic ../../lib/libRDGeneral.so.1.2013.09.1 make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 40%] Built target testMatrices make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.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/Catalogs /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs/CMakeFiles/Catalogs.dir/DependInfo.cmake --color= Scanning dependencies of target Catalogs make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/Catalogs/CMakeFiles/Catalogs.dir/build.make Code/Catalogs/CMakeFiles/Catalogs.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 [ 40%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/Catalog.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DCatalogs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Catalogs.dir/Catalog.cpp.o -c /«PKGBUILDDIR»/Code/Catalogs/Catalog.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 40%] Building CXX object Code/DataStructs/CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DDataStructs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/DiscreteValueVect.cpp make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.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/SimDivPickers /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DependInfo.cmake --color= Scanning dependencies of target SimDivPickers make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/build.make Code/SimDivPickers/CMakeFiles/SimDivPickers.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 65 make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.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/ML/Cluster/Murtagh /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/DependInfo.cmake --color= [ 41%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DSimDivPickers_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o -c /«PKGBUILDDIR»/Code/SimDivPickers/DistPicker.cpp Scanning dependencies of target Clustering make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/build.make Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.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 6 [ 42%] Building CXX object Code/ML/Cluster/Murtagh/CMakeFiles/Clustering.dir/Clustering.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/c++ -DClustering_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Clustering.dir/Clustering.cpp.o -c /«PKGBUILDDIR»/Code/ML/Cluster/Murtagh/Clustering.cpp In file included from /«PKGBUILDDIR»/Code/ML/Cluster/Murtagh/Clustering.cpp:15: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ 1 warning generated. Linking CXX shared module ../../../../rdkit/ML/Cluster/Clustering.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Cluster/Murtagh && /usr/bin/cmake -E cmake_link_script CMakeFiles/Clustering.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,Clustering.so -o ../../../../rdkit/ML/Cluster/Clustering.so CMakeFiles/Clustering.dir/Clustering.cpp.o ../../../../lib/libhc.so.1.2013.09.1 ../../../../lib/libRDGeneral.so.1.2013.09.1 ../../../../lib/libRDBoost.so.1.2013.09.1 -lpython2.7 -lboost_python -lboost_thread -lboost_system -lpthread make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 6 [ 42%] Built target Clustering /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 42%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DSimDivPickers_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o -c /«PKGBUILDDIR»/Code/SimDivPickers/MaxMinPicker.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles make -f Code/ML/InfoTheory/CMakeFiles/cEntropy.dir/build.make Code/ML/InfoTheory/CMakeFiles/cEntropy.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/ML/InfoTheory /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory/CMakeFiles/cEntropy.dir/DependInfo.cmake --color= [ 42%] Building CXX object Code/SimDivPickers/CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DSimDivPickers_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /«PKGBUILDDIR»/Code/SimDivPickers/HierarchicalClusterPicker.cpp Scanning dependencies of target cEntropy make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ML/InfoTheory/CMakeFiles/cEntropy.dir/build.make Code/ML/InfoTheory/CMakeFiles/cEntropy.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 [ 42%] make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.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/ML/Data /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Data /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Data/CMakeFiles/cQuantize.dir/DependInfo.cmake --color= Building CXX object Code/ML/InfoTheory/CMakeFiles/cEntropy.dir/cEntropy.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DcEntropy_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/cEntropy.dir/cEntropy.cpp.o -c /«PKGBUILDDIR»/Code/ML/InfoTheory/cEntropy.cpp Scanning dependencies of target cQuantize make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ML/Data/CMakeFiles/cQuantize.dir/build.make Code/ML/Data/CMakeFiles/cQuantize.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 [ 42%] Linking CXX shared library ../../lib/libDataStructs.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/DataStructs.dir/link.txt --verbose=1 Building CXX object Code/ML/Data/CMakeFiles/cQuantize.dir/cQuantize.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Data && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DcQuantize_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/cQuantize.dir/cQuantize.cpp.o -c /«PKGBUILDDIR»/Code/ML/Data/cQuantize.cpp /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,libDataStructs.so.1 -o ../../lib/libDataStructs.so.1.2013.09.1 CMakeFiles/DataStructs.dir/BitVect.cpp.o CMakeFiles/DataStructs.dir/SparseBitVect.cpp.o CMakeFiles/DataStructs.dir/ExplicitBitVect.cpp.o CMakeFiles/DataStructs.dir/Utils.cpp.o CMakeFiles/DataStructs.dir/base64.cpp.o CMakeFiles/DataStructs.dir/BitOps.cpp.o CMakeFiles/DataStructs.dir/DiscreteDistMat.cpp.o CMakeFiles/DataStructs.dir/DiscreteValueVect.cpp.o ../../lib/libRDGeneral.so.1.2013.09.1 cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libDataStructs.so.1.2013.09.1 ../../lib/libDataStructs.so.1 ../../lib/libDataStructs.so In file included from /«PKGBUILDDIR»/Code/ML/InfoTheory/cEntropy.cpp:14: In file included from /usr/include/python2.7/numpy/oldnumeric.h:1: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 7 [ 42%] Built target DataStructs make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.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/ChemicalFeatures /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/DependInfo.cmake --color= Scanning dependencies of target testChemicalFeatures make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/build.make Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.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 In file included from /«PKGBUILDDIR»/Code/ML/Data/cQuantize.cpp:15: In file included from /usr/include/python2.7/numpy/oldnumeric.h:1: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ [ 42%] Building CXX object Code/ChemicalFeatures/CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -c /«PKGBUILDDIR»/Code/ChemicalFeatures/testChemicalFeatures.cpp 1 warning generated. Linking CXX shared module ../../../rdkit/ML/InfoTheory/cEntropy.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory && /usr/bin/cmake -E cmake_link_script CMakeFiles/cEntropy.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,cEntropy.so -o ../../../rdkit/ML/InfoTheory/cEntropy.so CMakeFiles/cEntropy.dir/cEntropy.cpp.o libInfoTheory.a ../../../lib/libRDGeneral.so.1.2013.09.1 ../../../lib/libRDBoost.so.1.2013.09.1 -lpython2.7 -lboost_python -lboost_thread -lboost_system -lpthread /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 42%] Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogParams.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DCatalogs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o -c /«PKGBUILDDIR»/Code/Catalogs/CatalogParams.cpp make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 42%] Built target cEntropy make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.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/DataStructs /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/CMakeFiles/testDataStructs.dir/DependInfo.cmake --color= Scanning dependencies of target testDataStructs make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/DataStructs/CMakeFiles/testDataStructs.dir/build.make Code/DataStructs/CMakeFiles/testDataStructs.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 make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/depend [ 42%] 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/DataStructs/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DependInfo.cmake --color= Linking CXX shared library ../../../lib/libEigenSolvers.so Building CXX object Code/DataStructs/CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/testDatastructs.cpp cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_link_script CMakeFiles/EigenSolvers.dir/link.txt --verbose=1 Scanning dependencies of target cDataStructs make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build.make Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/build /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,libEigenSolvers.so.1 -o ../../../lib/libEigenSolvers.so.1.2013.09.1 CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o ../../../lib/libRDGeneral.so.1.2013.09.1 make[3]: Entering directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 42%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DataStructs.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DcDataStructs_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/cDataStructs.dir/DataStructs.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/Wrap/DataStructs.cpp Linking CXX static library libFileParsers_static.a cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -P CMakeFiles/FileParsers_static.dir/cmake_clean_target.cmake cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/GraphMol/FileParsers && /usr/bin/cmake -E cmake_link_script CMakeFiles/FileParsers_static.dir/link.txt --verbose=1 /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 1 cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Numerics/EigenSolvers && /usr/bin/cmake -E cmake_symlink_library ../../../lib/libEigenSolvers.so.1.2013.09.1 ../../../lib/libEigenSolvers.so.1 ../../../lib/libEigenSolvers.so /usr/bin/ar cr libFileParsers_static.a CMakeFiles/FileParsers_static.dir/Mol2FileParser.cpp.o CMakeFiles/FileParsers_static.dir/MolFileParser.cpp.o CMakeFiles/FileParsers_static.dir/MolFileStereochem.cpp.o CMakeFiles/FileParsers_static.dir/MolFileWriter.cpp.o CMakeFiles/FileParsers_static.dir/ForwardSDMolSupplier.cpp.o CMakeFiles/FileParsers_static.dir/SDMolSupplier.cpp.o CMakeFiles/FileParsers_static.dir/SDWriter.cpp.o CMakeFiles/FileParsers_static.dir/SmilesMolSupplier.cpp.o CMakeFiles/FileParsers_static.dir/SmilesWriter.cpp.o CMakeFiles/FileParsers_static.dir/TDTMolSupplier.cpp.o CMakeFiles/FileParsers_static.dir/TDTWriter.cpp.o CMakeFiles/FileParsers_static.dir/TplFileParser.cpp.o CMakeFiles/FileParsers_static.dir/TplFileWriter.cpp.o CMakeFiles/FileParsers_static.dir/PDBParser.cpp.o CMakeFiles/FileParsers_static.dir/PDBWriter.cpp.o CMakeFiles/FileParsers_static.dir/PDBSupplier.cpp.o CMakeFiles/FileParsers_static.dir/ProximityBonds.cpp.o [ 43%] make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles Building CXX object Code/Catalogs/CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/c++ -DCatalogs_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o -c /«PKGBUILDDIR»/Code/Catalogs/CatalogEntry.cpp [ 43%] Built target EigenSolvers /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 43%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DcDataStructs_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/Wrap/DiscreteValueVect.cpp /usr/bin/ranlib libFileParsers_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 22 23 24 [ 43%] Built target FileParsers_static make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.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/Geometry /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry/CMakeFiles/RDGeometryLib.dir/DependInfo.cmake --color= Scanning dependencies of target RDGeometryLib make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/Geometry/CMakeFiles/RDGeometryLib.dir/build.make Code/Geometry/CMakeFiles/RDGeometryLib.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 [ 43%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/point.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DRDGeometryLib_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeometryLib.dir/point.cpp.o -c /«PKGBUILDDIR»/Code/Geometry/point.cpp Linking CXX shared library ../../lib/libCatalogs.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/cmake -E cmake_link_script CMakeFiles/Catalogs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,libCatalogs.so.1 -o ../../lib/libCatalogs.so.1.2013.09.1 CMakeFiles/Catalogs.dir/Catalog.cpp.o CMakeFiles/Catalogs.dir/CatalogParams.cpp.o CMakeFiles/Catalogs.dir/CatalogEntry.cpp.o ../../lib/libRDGeneral.so.1.2013.09.1 cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Catalogs && /usr/bin/cmake -E cmake_symlink_library ../../lib/libCatalogs.so.1.2013.09.1 ../../lib/libCatalogs.so.1 ../../lib/libCatalogs.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 1 [ 43%] Built target Catalogs make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.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/DataManip/MetricMatrixCalc/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/DependInfo.cmake --color= Scanning dependencies of target rdMetricMatrixCalc make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/build.make Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.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 [ 43%] Building CXX object Code/DataManip/MetricMatrixCalc/Wrap/CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DrdMetricMatrixCalc_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o -c /«PKGBUILDDIR»/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp 1 warning generated. Linking CXX shared module ../../../rdkit/ML/Data/cQuantize.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/Data && /usr/bin/cmake -E cmake_link_script CMakeFiles/cQuantize.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,cQuantize.so -o ../../../rdkit/ML/Data/cQuantize.so CMakeFiles/cQuantize.dir/cQuantize.cpp.o ../InfoTheory/libInfoTheory.a ../../../lib/libRDGeneral.so.1.2013.09.1 ../../../lib/libRDBoost.so.1.2013.09.1 -lpython2.7 -lboost_python -lboost_thread -lboost_system -lpthread make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 43%] Built target cQuantize make -f Code/ML/FeatureSelect/Wrap/CMakeFiles/rdFeatSelect.dir/build.make Code/ML/FeatureSelect/Wrap/CMakeFiles/rdFeatSelect.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/ML/FeatureSelect/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/FeatureSelect/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/FeatureSelect/Wrap/CMakeFiles/rdFeatSelect.dir/DependInfo.cmake --color= /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 43%] Scanning dependencies of target rdFeatSelect make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ML/FeatureSelect/Wrap/CMakeFiles/rdFeatSelect.dir/build.make Code/ML/FeatureSelect/Wrap/CMakeFiles/rdFeatSelect.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 [ 43%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DRDGeometryLib_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o -c /«PKGBUILDDIR»/Code/Geometry/Transform2D.cpp Building CXX object Code/ML/FeatureSelect/Wrap/CMakeFiles/rdFeatSelect.dir/rdFeatSelect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/FeatureSelect/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DrdFeatSelect_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -I/«PKGBUILDDIR»/External/cmim-1.0 -o CMakeFiles/rdFeatSelect.dir/rdFeatSelect.cpp.o -c /«PKGBUILDDIR»/Code/ML/FeatureSelect/Wrap/rdFeatSelect.cpp Linking CXX shared library ../../lib/libSimDivPickers.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_link_script CMakeFiles/SimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,libSimDivPickers.so.1 -o ../../lib/libSimDivPickers.so.1.2013.09.1 CMakeFiles/SimDivPickers.dir/DistPicker.cpp.o CMakeFiles/SimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/SimDivPickers.dir/HierarchicalClusterPicker.cpp.o ../../lib/libhc.so.1.2013.09.1 ../../lib/libRDGeneral.so.1.2013.09.1 cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers && /usr/bin/cmake -E cmake_symlink_library ../../lib/libSimDivPickers.so.1.2013.09.1 ../../lib/libSimDivPickers.so.1 ../../lib/libSimDivPickers.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 65 [ 43%] Built target SimDivPickers make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.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/ML/InfoTheory/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/DependInfo.cmake --color= Scanning dependencies of target rdInfoTheory make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.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 82 [ 44%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DrdInfoTheory_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o -c /«PKGBUILDDIR»/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp Linking CXX executable testChemicalFeatures cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ChemicalFeatures && /usr/bin/cmake -E cmake_link_script CMakeFiles/testChemicalFeatures.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/testChemicalFeatures.dir/testChemicalFeatures.cpp.o -o testChemicalFeatures -rdynamic ../../lib/libChemicalFeatures.so.1.2013.09.1 ../../lib/libRDGeneral.so.1.2013.09.1 make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 44%] Built target testChemicalFeatures make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.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/SimDivPickers/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/DependInfo.cmake --color= Scanning dependencies of target rdSimDivPickers make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make -f Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/build.make Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.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 [ 44%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DrdSimDivPickers_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o -c /«PKGBUILDDIR»/Code/SimDivPickers/Wrap/MaxMinPicker.cpp In file included from /«PKGBUILDDIR»/Code/DataStructs/Wrap/DataStructs.cpp:20: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 44%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DRDGeometryLib_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o -c /«PKGBUILDDIR»/Code/Geometry/Transform3D.cpp In file included from /«PKGBUILDDIR»/Code/DataManip/MetricMatrixCalc/Wrap/rdMetricMatrixCalc.cpp:14: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ 1 warning generated. /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 74 [ 45%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DcDataStructs_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/Wrap/SparseIntVect.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 45%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DRDGeometryLib_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o -c /«PKGBUILDDIR»/Code/Geometry/UniformGrid3D.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 45%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DcDataStructs_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/Wrap/wrap_SparseBV.cpp 1 warning generated. Linking CXX shared module ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataManip/MetricMatrixCalc/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdMetricMatrixCalc.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,rdMetricMatrixCalc.so -o ../../../../rdkit/DataManip/Metric/rdMetricMatrixCalc.so CMakeFiles/rdMetricMatrixCalc.dir/rdMetricMatrixCalc.cpp.o ../../../../lib/libRDGeneral.so.1.2013.09.1 ../../../../lib/libDataStructs.so.1.2013.09.1 ../../../../lib/libRDBoost.so.1.2013.09.1 -lpython2.7 -lboost_python -lboost_thread -lboost_system -lpthread ../../../../lib/libRDGeneral.so.1.2013.09.1 make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 45%] Built target rdMetricMatrixCalc /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 45%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DcDataStructs_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/Wrap/wrap_ExplicitBV.cpp Linking CXX shared module ../../../../rdkit/ML/FeatureSelect/rdFeatSelect.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/FeatureSelect/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdFeatSelect.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,rdFeatSelect.so -o ../../../../rdkit/ML/FeatureSelect/rdFeatSelect.so CMakeFiles/rdFeatSelect.dir/rdFeatSelect.cpp.o ../../../../External/cmim-1.0/libfastentropy.a ../../../../lib/libDataStructs.so.1.2013.09.1 ../../../../lib/libRDGeneral.so.1.2013.09.1 ../../../../lib/libRDBoost.so.1.2013.09.1 -lpython2.7 -lboost_python -lboost_thread -lboost_system -lpthread /usr/bin/ld: ../../../../External/cmim-1.0/libfastentropy.a(fastentropy.cc.o): relocation R_X86_64_32S against `fe_logn' can not be used when making a shared object; recompile with -fPIC ../../../../External/cmim-1.0/libfastentropy.a: error adding symbols: Bad value clang: error: linker command failed with exit code 1 (use -v to see invocation) make[3]: *** [rdkit/ML/FeatureSelect/rdFeatSelect.so] Error 1 Code/ML/FeatureSelect/Wrap/CMakeFiles/rdFeatSelect.dir/build.make:97: recipe for target 'rdkit/ML/FeatureSelect/rdFeatSelect.so' failed make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make[2]: *** [Code/ML/FeatureSelect/Wrap/CMakeFiles/rdFeatSelect.dir/all] Error 2 make[2]: *** Waiting for unfinished jobs.... CMakeFiles/Makefile2:6810: recipe for target 'Code/ML/FeatureSelect/Wrap/CMakeFiles/rdFeatSelect.dir/all' failed /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 45%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DcDataStructs_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/Wrap/wrap_BitOps.cpp In file included from /«PKGBUILDDIR»/Code/ML/InfoTheory/Wrap/InfoBitRanker.cpp:14: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ Linking CXX executable testDataStructs cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs && /usr/bin/cmake -E cmake_link_script CMakeFiles/testDataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro CMakeFiles/testDataStructs.dir/testDatastructs.cpp.o -o testDataStructs -rdynamic ../../lib/libDataStructs.so.1.2013.09.1 ../../lib/libRDGeneral.so.1.2013.09.1 make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 45%] Built target testDataStructs /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 75 [ 46%] Building CXX object Code/DataStructs/Wrap/CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DcDataStructs_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o -c /«PKGBUILDDIR»/Code/DataStructs/Wrap/wrap_Utils.cpp In file included from /«PKGBUILDDIR»/Code/SimDivPickers/Wrap/MaxMinPicker.cpp:16: In file included from /usr/include/python2.7/numpy/oldnumeric.h:1: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles 60 [ 47%] Building CXX object Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/c++ -DRDGeometryLib_EXPORTS -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -c /«PKGBUILDDIR»/Code/Geometry/GridUtils.cpp 1 warning generated. /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 47%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DrdInfoTheory_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o -c /«PKGBUILDDIR»/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 47%] Building CXX object Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DrdInfoTheory_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o -c /«PKGBUILDDIR»/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 47%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DrdSimDivPickers_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o -c /«PKGBUILDDIR»/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp 1 warning generated. /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 47%] Building CXX object Code/SimDivPickers/Wrap/CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/c++ -DRDK_64BIT_BUILD -DRDK_THREADSAFE_SSS -DrdSimDivPickers_EXPORTS -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python2.7 -I/«PKGBUILDDIR»/Code -o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o -c /«PKGBUILDDIR»/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp In file included from /«PKGBUILDDIR»/Code/ML/InfoTheory/Wrap/BitCorrMatGenerator.cpp:15: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ Linking CXX shared library ../../lib/libRDGeometryLib.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_link_script CMakeFiles/RDGeometryLib.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,libRDGeometryLib.so.1 -o ../../lib/libRDGeometryLib.so.1.2013.09.1 CMakeFiles/RDGeometryLib.dir/point.cpp.o CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o ../../lib/libDataStructs.so.1.2013.09.1 ../../lib/libRDGeneral.so.1.2013.09.1 cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/Geometry && /usr/bin/cmake -E cmake_symlink_library ../../lib/libRDGeometryLib.so.1.2013.09.1 ../../lib/libRDGeometryLib.so.1 ../../lib/libRDGeometryLib.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 60 [ 47%] Built target RDGeometryLib In file included from 1/«PKGBUILDDIR»/Code/ML/InfoTheory/Wrap/rdInfoTheory.cpp:12: In file included from /usr/include/python2.7/numpy/oldnumeric.h:1: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ warning generated. 1 warning generated. Linking CXX shared module ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/ML/InfoTheory/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdInfoTheory.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,rdInfoTheory.so -o ../../../../rdkit/ML/InfoTheory/rdInfoTheory.so CMakeFiles/rdInfoTheory.dir/InfoBitRanker.cpp.o CMakeFiles/rdInfoTheory.dir/BitCorrMatGenerator.cpp.o CMakeFiles/rdInfoTheory.dir/rdInfoTheory.cpp.o ../libInfoTheory.a ../../../../lib/libRDGeneral.so.1.2013.09.1 ../../../../lib/libDataStructs.so.1.2013.09.1 ../../../../lib/libRDBoost.so.1.2013.09.1 -lpython2.7 -lboost_python -lboost_thread -lboost_system -lpthread ../../../../lib/libRDGeneral.so.1.2013.09.1 /usr/bin/ld: ../libInfoTheory.a(InfoBitRanker.cpp.o): relocation R_X86_64_32 against `.rodata.str1.1' can not be used when making a shared object; recompile with -fPIC ../libInfoTheory.a: error adding symbols: Bad value clang: error: linker command failed with exit code 1 (use -v to see invocation) make[3]: *** [rdkit/ML/InfoTheory/rdInfoTheory.so] Error 1 Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/build.make:148: recipe for target 'rdkit/ML/InfoTheory/rdInfoTheory.so' failed make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make[2]: *** [Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/all] Error 2 CMakeFiles/Makefile2:6954: recipe for target 'Code/ML/InfoTheory/Wrap/CMakeFiles/rdInfoTheory.dir/all' failed In file included from /«PKGBUILDDIR»/Code/SimDivPickers/Wrap/HierarchicalClusterPicker.cpp:16: In file included from /usr/include/python2.7/numpy/oldnumeric.h:1: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ Linking CXX shared module ../../../rdkit/rdBase.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/RDBoost/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdBase.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,rdBase.so -o ../../../rdkit/rdBase.so CMakeFiles/rdBase.dir/RDBase.cpp.o ../../../lib/libRDGeneral.so.1.2013.09.1 ../../../lib/libRDBoost.so.1.2013.09.1 -lpython2.7 -lboost_python -lboost_thread -lboost_system -lpthread In file included from /«PKGBUILDDIR»/Code/SimDivPickers/Wrap/rdSimDivPickers.cpp:13: In file included from /usr/include/python2.7/numpy/oldnumeric.h:1: In file included from /usr/include/python2.7/numpy/arrayobject.h:4: In file included from /usr/include/python2.7/numpy/ndarrayobject.h:17: In file included from /usr/include/python2.7/numpy/ndarraytypes.h:1761: /usr/include/python2.7/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ 1 warning generated. 1 warning generated. Linking CXX shared module ../../../rdkit/SimDivFilters/rdSimDivPickers.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/SimDivPickers/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/rdSimDivPickers.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,rdSimDivPickers.so -o ../../../rdkit/SimDivFilters/rdSimDivPickers.so CMakeFiles/rdSimDivPickers.dir/MaxMinPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/HierarchicalClusterPicker.cpp.o CMakeFiles/rdSimDivPickers.dir/rdSimDivPickers.cpp.o ../../../lib/libSimDivPickers.so.1.2013.09.1 ../../../lib/libhc.so.1.2013.09.1 ../../../lib/libDataStructs.so.1.2013.09.1 ../../../lib/libRDGeneral.so.1.2013.09.1 ../../../lib/libRDBoost.so.1.2013.09.1 -lpython2.7 -lboost_python -lboost_thread -lboost_system -lpthread make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 47%] Built target rdBase make[3]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/obj-x86_64-linux-gnu/CMakeFiles [ 47%] Built target rdSimDivPickers Linking CXX shared module ../../../rdkit/DataStructs/cDataStructs.so cd /«PKGBUILDDIR»/obj-x86_64-linux-gnu/Code/DataStructs/Wrap && /usr/bin/cmake -E cmake_link_script CMakeFiles/cDataStructs.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -shared -Wl,-soname,cDataStructs.so -o ../../../rdkit/DataStructs/cDataStructs.so CMakeFiles/cDataStructs.dir/DataStructs.cpp.o CMakeFiles/cDataStructs.dir/DiscreteValueVect.cpp.o CMakeFiles/cDataStructs.dir/SparseIntVect.cpp.o CMakeFiles/cDataStructs.dir/wrap_SparseBV.cpp.o CMakeFiles/cDataStructs.dir/wrap_ExplicitBV.cpp.o CMakeFiles/cDataStructs.dir/wrap_BitOps.cpp.o CMakeFiles/cDataStructs.dir/wrap_Utils.cpp.o ../../../lib/libRDGeneral.so.1.2013.09.1 ../../../lib/libDataStructs.so.1.2013.09.1 ../../../lib/libRDBoost.so.1.2013.09.1 -lpython2.7 -lboost_python -lboost_thread -lboost_system -lpthread ../../../lib/libRDGeneral.so.1.2013.09.1 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 75 [ 47%] Built target cDataStructs make[2]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make[1]: *** [all] Error 2 dh_auto_build: make -j10 returned exit code 2 Makefile:146: recipe for target 'all' failed make[1]: Leaving directory '/«PKGBUILDDIR»/obj-x86_64-linux-gnu' make: *** [build-arch] Error 2 debian/rules:18: recipe for target 'build-arch' failed dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 ──────────────────────────────────────────────────────────────────────────────── Build finished at 20140617-1412 Finished ──────── E: Build failure (dpkg-buildpackage died) ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Not cleaning session: cloned chroot in use ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Build Architecture: amd64 Build-Space: 456900 Build-Time: 425 Distribution: unstable Fail-Stage: build Host Architecture: amd64 Install-Time: 48 Job: rdkit_201309-1 Machine Architecture: amd64 Package: rdkit Package-Time: 503 Source-Version: 201309-1 Space: 456900 Status: attempted Version: 201309-1clang1 ──────────────────────────────────────────────────────────────────────────────── Finished at 20140617-1412 Build needed 00:08:23, 456900k disc space DC-Status: Failed 503.591469546s DC-Time-Estimation: 503.591469546 versus expected 3702 (r/m: 6.351196801124219 ; m: 503.591469546)