Date: Thu, 18 Jul 2019 08:20:55 GMT From: pkg-fallout@FreeBSD.org To: pkg-fallout@FreeBSD.org Subject: [package - 120powerpc64-quarterly][science/rdkit] Failed for rdkit-2018.09.3_2 in build Message-ID: <201907180820.x6I8KtEc039967@pylon.nyi.freebsd.org>
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You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: yuri@FreeBSD.org Last committer: jbeich@FreeBSD.org Ident: $FreeBSD: branches/2019Q3/science/rdkit/Makefile 498698 2019-04-12 06:36:31Z jbeich $ Log URL: http://pylon.nyi.freebsd.org/data/120powerpc64-quarterly/506721/logs/rdkit-2018.09.3_2.log Build URL: http://pylon.nyi.freebsd.org/build.html?mastername=120powerpc64-quarterly&build=506721 Log: =>> Building science/rdkit build started at Thu Jul 18 08:18:50 UTC 2019 port directory: /usr/ports/science/rdkit package name: rdkit-2018.09.3_2 building for: FreeBSD 120powerpc64-quarterly-job-01 12.0-RELEASE-p7 FreeBSD 12.0-RELEASE-p7 1200086 powerpc maintained by: yuri@FreeBSD.org Makefile ident: $FreeBSD: branches/2019Q3/science/rdkit/Makefile 498698 2019-04-12 06:36:31Z jbeich $ Poudriere version: 3.2.8-5-gc81843e5 Host OSVERSION: 1300012 Jail OSVERSION: 1200086 Job Id: 01 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1200086 UNAME_v=FreeBSD 12.0-RELEASE-p7 1200086 UNAME_r=12.0-RELEASE-p7 BLOCKSIZE=K MAIL=/var/mail/root STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin LOCALBASE=/usr/local USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-5-gc81843e5 MASTERMNT=/usr/local/poudriere/data/.m/120powerpc64-quarterly/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/120powerpc64-quarterly/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=120powerpc64-quarterly SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/120powerpc64-quarterly/ref/.p SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= DEPENDS_ARGS= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ===> The following configuration options are available for rdkit-2018.09.3_2: DOCS=on: Build and/or install documentation PYTHON=on: Python bindings or support ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- yuri@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON="/usr/local/bin/python3.6" XDG_DATA_HOME=/wrkdirs/usr/ports/science/rdkit/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/rdkit/work HOME=/wrkdirs/usr/ports/science/rdkit/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/rdkit/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/science/rdkit/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/rdkit/work HOME=/wrkdirs/usr/ports/science/rdkit/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/rdkit/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES DESTDIR=/wrkdirs/usr/ports/science/rdkit/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- SHLIB_VER=2018.09.3 PORTDOCS="" DOCS="" NO_DOCS="@comment " PYTHON="" NO_PYTHON="@comment " CMAKE_BUILD_TYPE="release" PYTHON_INCLUDEDIR=include/python3.6m PYTHON_LIBDIR=lib/python3.6 PYTHON_PLATFORM=freebsd12 PYTHON_SITELIBDIR=lib/python3.6/site-packages PYTHON_SUFFIX=36 PYTHON_VER=3.6 PYTHON_VERSION=python3.6 PYTHON2="@comment " PYTHON3="" OSREL=12.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/RDKit" EXAMPLESDIR="share/examples/rdkit" DATADIR="share/RDKit" WWWDIR="www/rdkit" ETCDIR="etc/rdkit" --End PLIST_SUB-- --SUB_LIST-- DOCS="" NO_DOCS="@comment " PYTHON="" NO_PYTHON="@comment " PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/RDKit DOCSDIR=/usr/local/share/doc/RDKit EXAMPLESDIR=/usr/local/share/examples/rdkit WWWDIR=/usr/local/www/rdkit ETCDIR=/usr/local/etc/rdkit --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### /usr/local/etc/poudriere.d/make.conf #### # XXX: We really need this but cannot use it while 'make checksum' does not # try the next mirror on checksum failure. It currently retries the same # failed mirror and then fails rather then trying another. It *does* # try the next if the size is mismatched though. #MASTER_SITE_FREEBSD=yes # Build ALLOW_MAKE_JOBS_PACKAGES with 2 jobs MAKE_JOBS_NUMBER=2 # stable/10 includes src.conf too late but make.conf is in sys.mk .if ${.CURDIR:M/poudriere/jails/10*/usr/src/usr.bin/xlint*} # Disable build of llib now that head no longer has lint(1) LINT= true .endif #### /usr/ports/Mk/Scripts/ports_env.sh #### _CCVERSION_921dbbb2=cc (GCC) 4.2.1 20070831 patched [FreeBSD] Copyright (C) 2007 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. _ALTCCVERSION_921dbbb2=none _CXXINTERNAL_acaad9ca=Using built-in specs. Target: powerpc64-undermydesk-freebsd Configured with: FreeBSD/powerpc64 system compiler Thread model: posix gcc version 4.2.1 20070831 patched [FreeBSD] "/usr/bin/ld" "--eh-frame-hdr" "-Qy" "-melf64ppc_fbsd" "--enable-new-dtags" "-dynamic-linker" "/libexec/ld-elf.so.1" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "-L/usr/lib" "/dev/null" "-lstdc++" "-lm" "-lgcc_s" "-lgcc" "-lc" "-lgcc_s" "-lgcc" "/usr/lib/crtsavres.o" "/usr/lib/crtend.o" "/usr/lib/crtn.o" CC_OUTPUT_921dbbb2_58173849=yes CC_OUTPUT_921dbbb2_9bdba57c=yes CC_OUTPUT_921dbbb2_6a4fe7f5=cc1: error: unrecognized command line option "-std=c11" CC_OUTPUT_921dbbb2_6bcac02b=yes CC_OUTPUT_921dbbb2_67d20829=yes CC_OUTPUT_921dbbb2_bfa62e83=cc1: error: unrecognized command line option "-std=gnu11" CC_OUTPUT_921dbbb2_f0b4d593=yes CC_OUTPUT_921dbbb2_308abb44=cc1plus: error: unrecognized command line option "-std=c++0x" CC_OUTPUT_921dbbb2_f00456e5=cc1plus: error: unrecognized command line option "-std=c++11" CC_OUTPUT_921dbbb2_65ad290d=cc1plus: error: unrecognized command line option "-std=c++14" CC_OUTPUT_921dbbb2_f2776b26=cc1plus: error: unrecognized command line option "-std=c++17" CC_OUTPUT_921dbbb2_b2657cc3=yes CC_OUTPUT_921dbbb2_380987f7=cc1plus: error: unrecognized command line option "-std=gnu++11" CC_OUTPUT_921dbbb2_160933ec=cc1plus: error: unrecognized command line option "-std=gnu++14" CC_OUTPUT_921dbbb2_fb62803b=cc1plus: error: unrecognized command line option "-std=gnu++17" _OBJC_CCVERSION_921dbbb2=cc (GCC) 4.2.1 20070831 patched [FreeBSD] Copyright (C) 2007 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. _OBJC_ALTCCVERSION_921dbbb2=none ARCH=powerpc64 OPSYS=FreeBSD _OSRELEASE=12.0-RELEASE-p7 OSREL=12.0 OSVERSION=1200086 PYTHONBASE=/usr/local CONFIGURE_MAX_CMD_LEN=262144 HAVE_PORTS_ENV=1 #### Misc Poudriere #### GID=0 UID=0 DISABLE_MAKE_JOBS=poudriere ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 33554432 stack size (kbytes, -s) 524288 core file size (512-blocks, -c) unlimited max memory size (kbytes, -m) unlimited locked memory (kbytes, -l) unlimited max user processes (-u) 89999 open files (-n) 1024 virtual mem size (kbytes, -v) unlimited swap limit (kbytes, -w) unlimited socket buffer size (bytes, -b) unlimited pseudo-terminals (-p) unlimited kqueues (-k) unlimited umtx shared locks (-o) unlimited --End resource limits-- =======================<phase: check-sanity >============================ ===> License BSD3CLAUSE accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===> rdkit-2018.09.3_2 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.11.1.txz [120powerpc64-quarterly-job-01] Installing pkg-1.11.1... [120powerpc64-quarterly-job-01] Extracting pkg-1.11.1: .......... done ===> rdkit-2018.09.3_2 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of rdkit-2018.09.3_2 =========================================================================== =======================<phase: fetch-depends >============================ =========================================================================== =======================<phase: fetch >============================ ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by rdkit-2018.09.3_2 for building =========================================================================== =======================<phase: checksum >============================ ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by rdkit-2018.09.3_2 for building => SHA256 Checksum OK for rdkit-rdkit-Release_2018_09_3_GH0.tar.gz. => SHA256 Checksum OK for schrodinger-maeparser-1.0.0_GH0.tar.gz. => SHA256 Checksum OK for schrodinger-coordgenlibs-ede3191_GH0.tar.gz. =========================================================================== =======================<phase: extract-depends>============================ =========================================================================== =======================<phase: extract >============================ ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by rdkit-2018.09.3_2 for building ===> Extracting for rdkit-2018.09.3_2 => SHA256 Checksum OK for rdkit-rdkit-Release_2018_09_3_GH0.tar.gz. => SHA256 Checksum OK for schrodinger-maeparser-1.0.0_GH0.tar.gz. => SHA256 Checksum OK for schrodinger-coordgenlibs-ede3191_GH0.tar.gz. =========================================================================== =======================<phase: patch-depends >============================ =========================================================================== =======================<phase: patch >============================ ===> Patching for rdkit-2018.09.3_2 ===> Applying FreeBSD patches for rdkit-2018.09.3_2 =========================================================================== =======================<phase: build-depends >============================ ===> rdkit-2018.09.3_2 depends on package: catch>0 - not found ===> Installing existing package /packages/All/catch-2.9.1.txz [120powerpc64-quarterly-job-01] Installing catch-2.9.1... [120powerpc64-quarterly-job-01] `-- Installing gcc8-8.3.0_2... [120powerpc64-quarterly-job-01] | `-- Installing binutils-2.32_1,1... [120powerpc64-quarterly-job-01] | | `-- Installing gettext-runtime-0.20.1... <snip> ===> rdkit-2018.09.3_2 depends on executable: bison - not found ===> Installing existing package /packages/All/bison-3.4.1,1.txz [120powerpc64-quarterly-job-01] Installing bison-3.4.1,1... [120powerpc64-quarterly-job-01] `-- Installing libtextstyle-0.20.1... [120powerpc64-quarterly-job-01] `-- Extracting libtextstyle-0.20.1: .......... done [120powerpc64-quarterly-job-01] `-- Installing m4-1.4.18_1,1... [120powerpc64-quarterly-job-01] `-- Extracting m4-1.4.18_1,1: .......... done [120powerpc64-quarterly-job-01] Extracting bison-3.4.1,1: .......... done ===> rdkit-2018.09.3_2 depends on executable: bison - found ===> Returning to build of rdkit-2018.09.3_2 ===> rdkit-2018.09.3_2 depends on file: /usr/local/bin/cmake - not found ===> Installing existing package /packages/All/cmake-3.14.5.txz [120powerpc64-quarterly-job-01] Installing cmake-3.14.5... [120powerpc64-quarterly-job-01] `-- Installing curl-7.65.1... [120powerpc64-quarterly-job-01] | `-- Installing ca_root_nss-3.45... [120powerpc64-quarterly-job-01] | `-- Extracting ca_root_nss-3.45: ........ done [120powerpc64-quarterly-job-01] | `-- Installing libnghttp2-1.39.1... [120powerpc64-quarterly-job-01] | `-- Extracting libnghttp2-1.39.1: .......... done [120powerpc64-quarterly-job-01] `-- Extracting curl-7.65.1: .......... done [120powerpc64-quarterly-job-01] `-- Installing expat-2.2.6_1... [120powerpc64-quarterly-job-01] `-- Extracting expat-2.2.6_1: .......... done [120powerpc64-quarterly-job-01] `-- Installing jsoncpp-1.8.1_6... [120powerpc64-quarterly-job-01] `-- Extracting jsoncpp-1.8.1_6: .......... done [120powerpc64-quarterly-job-01] `-- Installing libarchive-3.3.3,1... [120powerpc64-quarterly-job-01] | `-- Installing liblz4-1.9.1,1... [120powerpc64-quarterly-job-01] | `-- Extracting liblz4-1.9.1,1: .......... done [120powerpc64-quarterly-job-01] | `-- Installing lzo2-2.10_1... [120powerpc64-quarterly-job-01] | `-- Extracting lzo2-2.10_1: .......... done [120powerpc64-quarterly-job-01] `-- Extracting libarchive-3.3.3,1: .......... done [120powerpc64-quarterly-job-01] `-- Installing libuv-1.30.1... [120powerpc64-quarterly-job-01] `-- Extracting libuv-1.30.1: .......... done [120powerpc64-quarterly-job-01] `-- Installing rhash-1.3.5... [120powerpc64-quarterly-job-01] `-- Extracting rhash-1.3.5: .......... done [120powerpc64-quarterly-job-01] Extracting cmake-3.14.5: .......... done Message from ca_root_nss-3.45: ********************************* WARNING ********************************* FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. *********************************** NOTE ********************************** This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem *************************************************************************** ===> rdkit-2018.09.3_2 depends on file: /usr/local/bin/cmake - found ===> Returning to build of rdkit-2018.09.3_2 ===> rdkit-2018.09.3_2 depends on executable: ninja - not found ===> Installing existing package /packages/All/ninja-1.9.0,2.txz [120powerpc64-quarterly-job-01] Installing ninja-1.9.0,2... [120powerpc64-quarterly-job-01] Extracting ninja-1.9.0,2: ......... done ===> rdkit-2018.09.3_2 depends on executable: ninja - found ===> Returning to build of rdkit-2018.09.3_2 ===> rdkit-2018.09.3_2 depends on file: /usr/local/libdata/pkgconfig/eigen3.pc - not found ===> Installing existing package /packages/All/eigen-3.3.7.txz [120powerpc64-quarterly-job-01] Installing eigen-3.3.7... [120powerpc64-quarterly-job-01] Extracting eigen-3.3.7: .......... done ===> rdkit-2018.09.3_2 depends on file: /usr/local/libdata/pkgconfig/eigen3.pc - found ===> Returning to build of rdkit-2018.09.3_2 ===> rdkit-2018.09.3_2 depends on file: /usr/local/bin/python3.6 - found =========================================================================== =======================<phase: lib-depends >============================ ===> rdkit-2018.09.3_2 depends on shared library: libboost_system.so - not found ===> Installing existing package /packages/All/boost-libs-1.70.0_2.txz [120powerpc64-quarterly-job-01] Installing boost-libs-1.70.0_2... [120powerpc64-quarterly-job-01] `-- Installing icu-64.2,1... [120powerpc64-quarterly-job-01] `-- Extracting icu-64.2,1: .......... done [120powerpc64-quarterly-job-01] Extracting boost-libs-1.70.0_2: .......... done Message from boost-libs-1.70.0_2: You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===> rdkit-2018.09.3_2 depends on shared library: libboost_system.so - found (/usr/local/lib/libboost_system.so) ===> Returning to build of rdkit-2018.09.3_2 ===> rdkit-2018.09.3_2 depends on shared library: libboost_python36.so - not found ===> Installing existing package /packages/All/py36-boost-libs-1.70.0_2.txz [120powerpc64-quarterly-job-01] Installing py36-boost-libs-1.70.0_2... [120powerpc64-quarterly-job-01] Extracting py36-boost-libs-1.70.0_2: .......... done Message from py36-boost-libs-1.70.0_2: You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. You have built the Boost.Python library. You have to add the following options when building your own code: Compiler options: -I/usr/local/include/python3.6m -I/usr/local/include Linker options: -L/usr/local/lib/python3.6 -L/usr/local/lib -lboost_python -lpython3.6 ===> rdkit-2018.09.3_2 depends on shared library: libboost_python36.so - found (/usr/local/lib/libboost_python36.so) ===> Returning to build of rdkit-2018.09.3_2 =========================================================================== =======================<phase: configure >============================ ===> Configuring for rdkit-2018.09.3_2 ===> Performing out-of-source build /bin/mkdir -p /wrkdirs/usr/ports/science/rdkit/work/.build -- The C compiler identification is GNU 4.2.1 -- The CXX compiler identification is GNU 4.2.1 -- 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 -- Detecting C compile features -- Detecting C compile features - 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 -- Detecting CXX compile features -- Detecting CXX compile features - 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 - big endian -- Found Catch2 source in /usr/local CATCH: /usr/local/include/catch2 -- Found PythonInterp: /usr/local/bin/python3.6 (found version "3.6.9") -- Found PythonLibs: /usr/local/lib/libpython3.6m.so (found version "3.6.9") CMake Warning at /usr/local/share/cmake/Modules/FindBoost.cmake:1837 (message): No header defined for python-py36; skipping header check Call Stack (most recent call first): CMakeLists.txt:236 (find_package) Python Install directory /usr/local/lib/python3.6/site-packages PYTHON Py_ENABLE_SHARED: 1 PYTHON USING LINK LINE: -shared -lpthread -L/usr/local/lib -fstack-protector-strong -- Found Eigen3: /usr/local/include/eigen3 (Required is at least version "2.91.0") -- Looking for pthread.h -- Looking for pthread.h - found -- Found Threads: TRUE -- Boost version: 1.70.0 -- Found the following Boost libraries: -- serialization == Using strict rotor definition -- Found MAEParser source in /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen/maeparser -- Found coordgenlibs source in /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen/coordgenlibs == Updating Filters.cpp from pains file == Done updating pains files -- Found RapidJSON source in /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External Skipping SLN build with gcc version <= 4.8 Skipping build of SimDivPickers on big endian system Skipping build of clustering and cmim libraries on big endian system -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_COLOR_MAKEFILE CMAKE_CXX_FLAGS_DEBUG CMAKE_C_FLAGS_DEBUG CMAKE_C_FLAGS_RELEASE CMAKE_VERBOSE_MAKEFILE -- Build files have been written to: /wrkdirs/usr/ports/science/rdkit/work/.build =========================================================================== =======================<phase: build >============================ ===> Building for rdkit-2018.09.3_2 [1/681] cd /wrkdirs/usr/ports/science/rdkit/work/.build/External/INCHI-API && /usr/local/bin/cmake -E copy /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/INCHI-API/python/noinchi.py /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/rdkit/Chem/inchi.py [2/681] /usr/bin/c++ -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Dcoordgenlib_EXPORTS -I/usr/local/include/catch2 -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen -I/usr/local/include/python3.6m -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcnt -std=c++11 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -MD -MT External/CoordGen/CMakeFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o -MF External/CoordGen/CMak eFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o.d -o External/CoordGen/CMakeFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen/coordgenlibs/CoordgenFragmentBuilder.cpp FAILED: External/CoordGen/CMakeFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o /usr/bin/c++ -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_STRICT_ROTOR_DEFINITION -Dcoordgenlib_EXPORTS -I/usr/local/include/catch2 -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen -I/usr/local/include/python3.6m -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcnt -std=c++11 -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -MD -MT External/CoordGen/CMakeFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o -MF External/CoordGen/CMakeFiles/c oordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o.d -o External/CoordGen/CMakeFiles/coordgenlib.dir/coordgenlibs/CoordgenFragmentBuilder.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2018_09_3/External/CoordGen/coordgenlibs/CoordgenFragmentBuilder.cpp cc1plus: error: unrecognized command line option "-mpopcnt" cc1plus: error: unrecognized command line option "-std=c++11" ninja: build stopped: subcommand failed. *** Error code 1 Stop. make: stopped in /usr/ports/science/rdkit
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