Date: Sat, 16 Jan 2021 15:59:43 GMT From: pkg-fallout@FreeBSD.org To: pkg-fallout@FreeBSD.org Subject: [package - 121powerpc64-quarterly][science/rdkit] Failed for rdkit-2020.09.3 in build Message-ID: <202101161559.10GFxhL8055329@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: yuri@FreeBSD.org Ident: $FreeBSD: branches/2021Q1/science/rdkit/Makefile 558009 2020-12-13 22:00:58Z yuri $ Log URL: http://pylon.nyi.freebsd.org/data/121powerpc64-quarterly/560827/logs/rdkit-2020.09.3.log Build URL: http://pylon.nyi.freebsd.org/build.html?mastername=121powerpc64-quarterly&build=560827 Log: =>> Building science/rdkit build started at Sat Jan 16 15:57:47 UTC 2021 port directory: /usr/ports/science/rdkit package name: rdkit-2020.09.3 building for: FreeBSD 121powerpc64-quarterly-job-05 12.1-RELEASE-p10 FreeBSD 12.1-RELEASE-p10 1201000 powerpc maintained by: yuri@FreeBSD.org Makefile ident: $FreeBSD: branches/2021Q1/science/rdkit/Makefile 558009 2020-12-13 22:00:58Z yuri $ Poudriere version: 3.2.8-8-gaf08dbda Host OSVERSION: 1300121 Jail OSVERSION: 1201000 Job Id: 05 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1201000 UNAME_v=FreeBSD 12.1-RELEASE-p10 1201000 UNAME_r=12.1-RELEASE-p10 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=3.2.8-8-gaf08dbda MASTERMNT=/usr/local/poudriere/data/.m/121powerpc64-quarterly/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/121powerpc64-quarterly/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=121powerpc64-quarterly SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/121powerpc64-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-2020.09.3: 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/python3.7" 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 ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" DESTDIR=/wrkdirs/usr/ports/science/rdkit/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="gcc9" CFLAGS="-O2 -pipe -fstack-protector-strong -Wl,-rpath=/usr/local/lib/gcc9 -fno-strict-aliasing " CPP="cpp9" CPPFLAGS="" LDFLAGS=" -fstack-protector-str ong -Wl,-rpath=/usr/local/lib/gcc9 -L/usr/local/lib/gcc9 " LIBS="" CXX="g++9" CXXFLAGS="-O2 -pipe -fstack-protector-strong -Wl,-rpath=/usr/local/lib/gcc9 -Wl,-rpath=/usr/local/lib/gcc9 " 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=2020.09.3 PORTDOCS="" DOCS="" NO_DOCS="@comment " PYTHON="" NO_PYTHON="@comment " LITTLE_ENDIAN="@comment " CMAKE_BUILD_TYPE="release" PYTHON_INCLUDEDIR=include/python3.7m PYTHON_LIBDIR=lib/python3.7 PYTHON_PLATFORM=freebsd12 PYTHON_SITELIBDIR=lib/python3.7/site-packages PYTHON_SUFFIX=37 PYTHON_EXT_SUFFIX= PYTHON_VER=3.7 PYTHON_VERSION=python3.7 PYTHON2="@comment " PYTHON3="" OSREL=12.1 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 #### /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 PPC_ABI=ELFv1 OPSYS=FreeBSD _OSRELEASE=12.1-RELEASE-p10 OSREL=12.1 OSVERSION=1201000 PYTHONBASE=/usr/local CONFIGURE_MAX_CMD_LEN=524288 HAVE_PORTS_ENV=1 #### Misc Poudriere #### GID=0 UID=0 ---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-2020.09.3 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.16.1.txz [121powerpc64-quarterly-job-05] Installing pkg-1.16.1... [121powerpc64-quarterly-job-05] Extracting pkg-1.16.1: .......... done ===> rdkit-2020.09.3 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of rdkit-2020.09.3 =========================================================================== =======================<phase: fetch-depends >============================ =========================================================================== =======================<phase: fetch >============================ ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by rdkit-2020.09.3 for building =========================================================================== =======================<phase: checksum >============================ ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by rdkit-2020.09.3 for building => SHA256 Checksum OK for rdkit-rdkit-Release_2020_09_3_GH0.tar.gz. => SHA256 Checksum OK for rareylab-RingDecomposerLib-v1.1.3_rdkit_GH0.tar.gz. =========================================================================== =======================<phase: extract-depends>============================ =========================================================================== =======================<phase: extract >============================ ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by rdkit-2020.09.3 for building ===> Extracting for rdkit-2020.09.3 => SHA256 Checksum OK for rdkit-rdkit-Release_2020_09_3_GH0.tar.gz. => SHA256 Checksum OK for rareylab-RingDecomposerLib-v1.1.3_rdkit_GH0.tar.gz. =========================================================================== =======================<phase: patch-depends >============================ =========================================================================== =======================<phase: patch >============================ ===> Patching for rdkit-2020.09.3 ===> Applying FreeBSD patches for rdkit-2020.09.3 from /usr/ports/science/rdkit/files =========================================================================== =======================<phase: build-depends >============================ ===> rdkit-2020.09.3 depends on package: catch>0 - not found ===> Installing existing package /packages/All/catch-2.13.3.txz [121powerpc64-quarterly-job-05] Installing catch-2.13.3... [121powerpc64-quarterly-job-05] `-- Installing gcc9-9.3.0_1... [121powerpc64-quarterly-job-05] | `-- Installing binutils-2.33.1_4,1... [121powerpc64-quarterly-job-05] | | `-- Installing gettext-runtime-0.21... [121powerpc64-quarterly-job-05] | | `-- Installing indexinfo-0.3.1... [121powerpc64-quarterly-job-05] | | `-- Extracting indexinfo-0.3.1: .... done [121powerpc64-quarterly-job-05] | | `-- Extracting gettext-runtime-0.21: .......... done [121powerpc64-quarterly-job-05] | `-- Extracting binutils-2.33.1_4,1: .......... done [121powerpc64-quarterly-job-05] | `-- Installing gmp-6.2.1... [121powerpc64-quarterly-job-05] | `-- Extracting gmp-6.2.1: .......... done [121powerpc64-quarterly-job-05] | `-- Installing mpc-1.1.0_2... [121powerpc64-quarterly-job-05] | | `-- Installing mpfr-4.1.0... <snip> [121powerpc64-quarterly-job-05] | | `-- Installing pciids-20201127... [121powerpc64-quarterly-job-05] | | `-- Extracting pciids-20201127: ..... done [121powerpc64-quarterly-job-05] | | `-- Extracting libpciaccess-0.16: ......... done [121powerpc64-quarterly-job-05] | | `-- Installing libxml2-2.9.10_2... [121powerpc64-quarterly-job-05] | | `-- Extracting libxml2-2.9.10_2: .......... done [121powerpc64-quarterly-job-05] | `-- Extracting libdrm-2.4.103,1: .......... done [121powerpc64-quarterly-job-05] | `-- Installing libunwind-20200331_1... [121powerpc64-quarterly-job-05] | `-- Extracting libunwind-20200331_1: .......... done [121powerpc64-quarterly-job-05] | `-- Installing libxshmfence-1.3... [121powerpc64-quarterly-job-05] | `-- Extracting libxshmfence-1.3: ......... done [121powerpc64-quarterly-job-05] | `-- Installing wayland-1.18.0_4... [121powerpc64-quarterly-job-05] | | `-- Installing libepoll-shim-0.0.20200602... [121powerpc64-quarterly-job-05] | | `-- Extracting libepoll-shim-0.0.20200602: .......... done [121powerpc64-quarterly-job-05] | `-- Extracting wayland-1.18.0_4: .......... done [121powerpc64-quarterly-job-05] | `-- Installing zstd-1.4.5_1... [121powerpc64-quarterly-job-05] | `-- Extracting zstd-1.4.5_1: .......... done [121powerpc64-quarterly-job-05] `-- Extracting mesa-libs-20.2.3: .......... done [121powerpc64-quarterly-job-05] `-- Installing superlu-5.2.2... [121powerpc64-quarterly-job-05] | `-- Installing blas-3.5.0_6... [121powerpc64-quarterly-job-05] | `-- Extracting blas-3.5.0_6: ....... done [121powerpc64-quarterly-job-05] | `-- Installing lapack-3.5.0_8... [121powerpc64-quarterly-job-05] | `-- Extracting lapack-3.5.0_8: .......... done [121powerpc64-quarterly-job-05] `-- Extracting superlu-5.2.2: .......... done [121powerpc64-quarterly-job-05] Extracting eigen-3.3.8: .......... done ===== Message from boost-libs-1.72.0_3: -- You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===> rdkit-2020.09.3 depends on file: /usr/local/libdata/pkgconfig/eigen3.pc - found ===> Returning to build of rdkit-2020.09.3 ===> rdkit-2020.09.3 depends on file: /usr/local/bin/python3.7 - found ===> rdkit-2020.09.3 depends on executable: gcc9 - found ===> rdkit-2020.09.3 depends on file: /usr/local/bin/as - found =========================================================================== =======================<phase: lib-depends >============================ ===> rdkit-2020.09.3 depends on shared library: libboost_system.so - found (/usr/local/lib/libboost_system.so) ===> rdkit-2020.09.3 depends on shared library: libcoordgen.so - not found ===> Installing existing package /packages/All/coordgenlibs-1.4.2.txz [121powerpc64-quarterly-job-05] Installing coordgenlibs-1.4.2... [121powerpc64-quarterly-job-05] `-- Installing maeparser-1.2.4... [121powerpc64-quarterly-job-05] `-- Extracting maeparser-1.2.4: .......... done [121powerpc64-quarterly-job-05] Extracting coordgenlibs-1.4.2: .......... done ===> rdkit-2020.09.3 depends on shared library: libcoordgen.so - found (/usr/local/lib/libcoordgen.so) ===> Returning to build of rdkit-2020.09.3 ===> rdkit-2020.09.3 depends on shared library: libfreetype.so - not found ===> Installing existing package /packages/All/freetype2-2.10.4.txz [121powerpc64-quarterly-job-05] Installing freetype2-2.10.4... [121powerpc64-quarterly-job-05] `-- Installing png-1.6.37... [121powerpc64-quarterly-job-05] `-- Extracting png-1.6.37: .......... done [121powerpc64-quarterly-job-05] Extracting freetype2-2.10.4: .......... done ===== Message from freetype2-2.10.4: -- The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as the default, emulating a modern version of ClearType. This change inevitably leads to different rendering results, and you might change port's options to adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment variable). The environment variable "FREETYPE_PROPERTIES" can be used to control the driver properties. Example: FREETYPE_PROPERTIES=truetype:interpreter-version=35 \ cff:no-stem-darkening=1 \ autofitter:warping=1 This allows to select, say, the subpixel hinting mode at runtime for a given application. If LONG_PCF_NAMES port's option was enabled, the PCF family names may include the foundry and information whether they contain wide characters. For example, "Sony Fixed" or "Misc Fixed Wide", instead of "Fixed". This can be disabled at run time with using pcf:no-long-family-names property, if needed. Example: FREETYPE_PROPERTIES=pcf:no-long-family-names=1 How to recreate fontconfig cache with using such environment variable, if needed: # env FREETYPE_PROPERTIES=pcf:no-long-family-names=1 fc-cache -fsv The controllable properties are listed in the section "Controlling FreeType Modules" in the reference's table of contents (/usr/local/share/doc/freetype2/reference/site/index.html, if documentation was installed). ===> rdkit-2020.09.3 depends on shared library: libfreetype.so - found (/usr/local/lib/libfreetype.so) ===> Returning to build of rdkit-2020.09.3 ===> rdkit-2020.09.3 depends on shared library: libmaeparser.so - found (/usr/local/lib/libmaeparser.so) ===> rdkit-2020.09.3 depends on shared library: libboost_python37.so - not found ===> Installing existing package /packages/All/py37-boost-libs-1.72.0_1.txz [121powerpc64-quarterly-job-05] Installing py37-boost-libs-1.72.0_1... [121powerpc64-quarterly-job-05] Extracting py37-boost-libs-1.72.0_1: .......... done ===== Message from py37-boost-libs-1.72.0_1: -- You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===> rdkit-2020.09.3 depends on shared library: libboost_python37.so - found (/usr/local/lib/libboost_python37.so) ===> Returning to build of rdkit-2020.09.3 =========================================================================== =======================<phase: configure >============================ ===> Configuring for rdkit-2020.09.3 ===> Performing out-of-source build /bin/mkdir -p /wrkdirs/usr/ports/science/rdkit/work/.build -- The C compiler identification is GNU 9.3.0 -- The CXX compiler identification is GNU 9.3.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/local/bin/gcc9 - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/local/bin/g++9 - skipped -- 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 -- Searching 16 bit integer - Using unsigned short -- Check if the system is big endian - big endian -- Found Catch2: /usr/local/include/catch2 CATCH: /usr/local/include/catch2 -- Found PythonInterp: /usr/local/bin/python3.7 (found version "3.7.9") -- Found PythonLibs: /usr/local/lib/libpython3.7m.so (found version "3.7.9") CMake Warning at /usr/local/share/cmake/Modules/FindBoost.cmake:2039 (message): No header defined for python-py37; skipping header check (note: header-only libraries have no designated component) Call Stack (most recent call first): CMakeLists.txt:279 (find_package) Python Install directory /usr/local/lib/python3.7/site-packages PYTHON Py_ENABLE_SHARED: 1 PYTHON USING LINK LINE: -pthread -shared -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 -- Found Boost: /usr/local/include (found suitable version "1.72.0", minimum required is "1.58.0") found components: serialization == Using strict rotor definition -- Found Boost: /usr/local/include (found suitable version "1.72.0", minimum required is "1.58.0") found components: system iostreams regex -- maeparser include dir set as '/usr/local/include' -- maeparser libraries set as '/usr/local/lib/libmaeparser.so' -- Found maeparser: /usr/local/include -- coordgen include dir set as /usr/local/include -- coordgen libraries set as '/usr/local/lib/libcoordgen.so' -- Found coordgen: /usr/local/include -- Found RingDecomposerLib source in /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -- Found Boost: /usr/local/include (found suitable version "1.72.0", minimum required is "1.58.0") found components: iostreams regex -- Found Boost: /usr/local/include (found suitable version "1.72.0", minimum required is "1.58.0") found components: system iostreams regex -- Found ZLIB: /usr/lib/libz.so (found version "1.2.11") == Updating Filters.cpp from pains file == Done updating pains files -- Found Freetype: /usr/local/lib/libfreetype.so (found version "2.10.4") -- Found RapidJSON source in /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/External Skipping build of SimDivPickers on big endian system Skipping build of clustering library 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_VERBOSE_MAKEFILE RDK_OPTIMIZE_NATIVE -- Build files have been written to: /wrkdirs/usr/ports/science/rdkit/work/.build =========================================================================== =======================<phase: build >============================ ===> Building for rdkit-2020.09.3 [1/566] /usr/local/bin/g++9 -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DrdCoordGen_EXPORTS -I/usr/local/include/catch2 -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.7m -I/usr/local/lib/python3.7/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/Code -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -Wl,-rpath=/usr/local/lib/gcc9 -Wl,-rpath=/usr/local/lib/gcc9 -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextr a -fPIC -O2 -pipe -fstack-protector-strong -Wl,-rpath=/usr/local/lib/gcc9 -Wl,-rpath=/usr/local/lib/gcc9 -fPIC -pthread -std=gnu++11 -MD -MT External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -MF External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o.d -o External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/External/CoordGen/Wrap/rdCoordGen.cpp FAILED: External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o /usr/local/bin/g++9 -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_SERIALIZATION_DYN_LINK -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_THREADSAFE_SSS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DrdCoordGen_EXPORTS -I/usr/local/include/catch2 -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.7m -I/usr/local/lib/python3.7/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/Code -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -Wl,-rpath=/usr/local/lib/gcc9 -Wl,-rpath=/usr/local/lib/gcc9 -mpopcnt -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wall -Wextra -fPIC -O2 -pipe -fstack-protector-strong -Wl,-rpath=/usr/local/lib/gcc9 -Wl,-rpath=/usr/local/lib/gcc9 -fPIC -pthread -std=gnu++11 -MD -MT External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -MF External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o.d -o External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/External/CoordGen/Wrap/rdCoordGen.cpp g++9: error: unrecognized command line option '-mpopcnt'; did you mean '-mpopcntb'? [2/566] 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_2020_09_3/External/INCHI-API/python/noinchi.py /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2020_09_3/rdkit/Chem/inchi.py ninja: build stopped: subcommand failed. ===> Compilation failed unexpectedly. Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to the maintainer. *** Error code 1 Stop. make: stopped in /usr/ports/science/rdkit
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