[package - main-powerpc64le-default][science/rdkit] Failed for rdkit-2023.09.1 in build
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Date: Thu, 07 Dec 2023 05:20:16 UTC
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
Log URL: https://pkg-status.freebsd.org/foul2/data/main-powerpc64le-default/pff89313922da_s51e7276365/logs/rdkit-2023.09.1.log
Build URL: https://pkg-status.freebsd.org/foul2/build.html?mastername=main-powerpc64le-default&build=pff89313922da_s51e7276365
Log:
=>> Building science/rdkit
build started at Thu Dec 7 04:59:24 UTC 2023
port directory: /usr/ports/science/rdkit
package name: rdkit-2023.09.1
building for: FreeBSD main-powerpc64le-default-job-18 15.0-CURRENT FreeBSD 15.0-CURRENT 1500005 powerpc
maintained by: yuri@FreeBSD.org
Makefile datestamp: -rw-r--r-- 1 root wheel 2544 Oct 21 01:02 /usr/ports/science/rdkit/Makefile
Ports top last git commit: ff89313922
Ports top unclean checkout: no
Port dir last git commit: cfaac4b2ed
Port dir unclean checkout: no
Poudriere version: poudriere-git-3.3.0-1258-gbc38e2e6
Host OSVERSION: 1500000
Jail OSVERSION: 1500005
Job Id: 18
!!! Jail is newer than host. (Jail: 1500005, Host: 1500000) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!
---Begin Environment---
SHELL=/bin/sh
OSVERSION=1500005
UNAME_v=FreeBSD 15.0-CURRENT 1500005
UNAME_r=15.0-CURRENT
BLOCKSIZE=K
MAIL=/var/mail/root
MM_CHARSET=UTF-8
LANG=C.UTF-8
STATUS=1
HOME=/root
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
LOCALBASE=/usr/local
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POUDRIERE_NAME=poudriere-git
LIBEXECPREFIX=/usr/local/libexec/poudriere
POUDRIERE_VERSION=3.3.0-1258-gbc38e2e6
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LC_COLLATE=C
POUDRIERE_BUILD_TYPE=bulk
PACKAGE_BUILDING=yes
SAVED_TERM=
OUTPUT_REDIRECTED_STDERR=4
OUTPUT_REDIRECTED=1
PWD=/usr/local/poudriere/data/.m/main-powerpc64le-default/18/.p
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SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
POUDRIEREPATH=/usr/local/bin/poudriere
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---Begin Poudriere Port Flags/Env---
PORT_FLAGS=
PKGENV=
FLAVOR=
MAKE_ARGS=
---End Poudriere Port Flags/Env---
---Begin OPTIONS List---
===> The following configuration options are available for rdkit-2023.09.1:
DOCS=on: Build and/or install documentation
PGSQL=off: Build the PostgreSQL cartridge
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/python3.9" XDG_DATA_HOME=/wrkdirs/usr/ports/science/rdkit/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/rdkit/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/rdkit/work/.cache 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 PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/rdkit/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh
--End CONFIGURE_ENV--
--MAKE_ENV--
NINJA_STATUS="[%p %s/%t] " XDG_DATA_HOME=/wrkdirs/usr/ports/science/rdkit/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/rdkit/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/rdkit/work/.cache 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 PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/rdkit/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig 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=2023.09.1 PORTDOCS="" DOCS="" NO_DOCS="@comment " PGSQL="@comment " NO_PGSQL="" PYTHON="" NO_PYTHON="@comment " LITTLE_ENDIAN="@comment " CMAKE_BUILD_TYPE="release" PYTHON_INCLUDEDIR=include/python3.9 PYTHON_LIBDIR=lib/python3.9 PYTHON_PLATFORM=freebsd15 PYTHON_SITELIBDIR=lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" OSREL=15.0 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 " PGSQL="@comment " NO_PGSQL="" PYTHON="" NO_PYTHON="@comment " PYTHON_INCLUDEDIR=/usr/local/include/python3.9 PYTHON_LIBDIR=/usr/local/lib/python3.9 PYTHON_PLATFORM=freebsd15 PYTHON_SITELIBDIR=/usr/local/lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" 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
#### ####
# 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 3 jobs
MAKE_JOBS_NUMBER=3
#### Misc Poudriere ####
.include "/etc/make.conf.ports_env"
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) 8192
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 >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License BSD3CLAUSE accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===> rdkit-2023.09.1 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.20.9.pkg
[main-powerpc64le-default-job-18] Installing pkg-1.20.9...
[main-powerpc64le-default-job-18] Extracting pkg-1.20.9: .......... done
===> rdkit-2023.09.1 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of rdkit-2023.09.1
===========================================================================
=======================<phase: fetch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: fetch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by rdkit-2023.09.1 for building
===========================================================================
=======================<phase: checksum >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by rdkit-2023.09.1 for building
=> SHA256 Checksum OK for rdkit-2023.09.1/Comic_Neue.zip.
=> SHA256 Checksum OK for rdkit-2023.09.1/rdkit-rdkit-Release_2023_09_1_GH0.tar.gz.
=> SHA256 Checksum OK for rdkit-2023.09.1/rareylab-RingDecomposerLib-v1.1.3_rdkit_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: extract >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> License BSD3CLAUSE accepted by the user
===> Fetching all distfiles required by rdkit-2023.09.1 for building
===> Extracting for rdkit-2023.09.1
=> SHA256 Checksum OK for rdkit-2023.09.1/Comic_Neue.zip.
=> SHA256 Checksum OK for rdkit-2023.09.1/rdkit-rdkit-Release_2023_09_1_GH0.tar.gz.
=> SHA256 Checksum OK for rdkit-2023.09.1/rareylab-RingDecomposerLib-v1.1.3_rdkit_GH0.tar.gz.
Archive: /portdistfiles/rdkit-2023.09.1/Comic_Neue.zip
extracting: OFL.txt
extracting: ComicNeue-Light.ttf
extracting: ComicNeue-LightItalic.ttf
extracting: ComicNeue-Regular.ttf
extracting: ComicNeue-Italic.ttf
extracting: ComicNeue-Bold.ttf
extracting: ComicNeue-BoldItalic.ttf
===========================================================================
=======================<phase: patch-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
===========================================================================
=======================<phase: patch >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Patching for rdkit-2023.09.1
===> Applying FreeBSD patches for rdkit-2023.09.1 from /usr/ports/science/rdkit/files
===========================================================================
=======================<phase: build-depends >============================
===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0
<snip>
-- Found RingDecomposerLib source in /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib
-- Found Boost: /usr/local/include (found suitable version "1.83.0", minimum required is "1.58.0") found components: iostreams regex
-- Found Boost: /usr/local/include (found suitable version "1.83.0", minimum required is "1.58.0") found components: system iostreams regex
-- Found ZLIB: /usr/lib/libz.so (found version "1.3")
CMake Warning (dev) at Code/GraphMol/FilterCatalog/CMakeLists.txt:8 (find_package):
Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules
are removed. Run "cmake --help-policy CMP0148" for policy details. Use
the cmake_policy command to set the policy and suppress this warning.
This warning is for project developers. Use -Wno-dev to suppress it.
/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Data/Fonts/ComicNeue-Regular.ttf already there, skipping the download
-- Found Freetype: /usr/local/lib/libfreetype.so (found version "2.13.2")
-- Found Boost: /usr/local/include (found suitable version "1.83.0", minimum required is "1.58.0") found components: program_options
-- Found RapidJSON source in /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External
-- Configuring done (23.5s)
-- Generating done (3.5s)
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_COLOR_MAKEFILE
CMAKE_VERBOSE_MAKEFILE
FETCHCONTENT_FULLY_DISCONNECTED
Python3_EXECUTABLE
Python_EXECUTABLE
RDK_OPTIMIZE_NATIVE
-- Build files have been written to: /wrkdirs/usr/ports/science/rdkit/work/.build
===========================================================================
=======================<phase: build >============================
===== env: NO_DEPENDS=yes USER=root UID=0 GID=0
===> Building for rdkit-2023.09.1
[ 0% 3/640] 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_2023_09_1/External/INCHI-API/python/noinchi.py /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/rdkit/Chem/inchi.py
[ 0% 4/640] /usr/bin/cc -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DRingDecomposerLib_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-array-bounds -fPIC -Wno-parentheses -Wno-logical-op-parentheses -Wno-format -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fPIC -pthread -MD -MT Exte
rnal/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLapsp.c.o -MF External/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLapsp.c.o.d -o External/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLapsp.c.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib/RDLapsp.c
[ 0% 5/640] /usr/bin/cc -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DRingDecomposerLib_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-array-bounds -fPIC -Wno-parentheses -Wno-logical-op-parentheses -Wno-format -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fPIC -pthread -MD -MT Exte
rnal/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLbitset.c.o -MF External/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLbitset.c.o.d -o External/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLbitset.c.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib/RDLbitset.c
[ 0% 6/640] /usr/bin/cc -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DRingDecomposerLib_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-array-bounds -fPIC -Wno-parentheses -Wno-logical-op-parentheses -Wno-format -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fPIC -pthread -MD -MT Exte
rnal/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLcycleFams.c.o -MF External/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLcycleFams.c.o.d -o External/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLcycleFams.c.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib/RDLcycleFams.c
[ 0% 7/640] /usr/bin/cc -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DRingDecomposerLib_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -Wno-array-bounds -fPIC -Wno-parentheses -Wno-logical-op-parentheses -Wno-format -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fPIC -pthread -MD -MT Exte
rnal/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLdimacs.c.o -MF External/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLdimacs.c.o.d -o External/RingFamilies/CMakeFiles/RingDecomposerLib.dir/RingDecomposerLib/src/RingDecomposerLib/RDLdimacs.c.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib/RDLdimacs.c
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[ 5% 38/640] : && /usr/bin/c++ -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fstack-protector-strong -shared -Wl,-soname,libRDKitRDStreams.so.1 -o lib/libRDKitRDStreams.so.1.2023.09.1 Code/RDStreams/CMakeFiles/RDStreams.dir/streams.cpp.o -Wl,-rpath,/usr/local/lib: /usr/local/lib/libboost_iostreams.so -lpthread /usr/local/lib/libboost_regex.so && :
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[ 6% 42/640] /usr/local/bin/cmake -E cmake_symlink_library lib/libRDKitRDBoost.so.1.2023.09.1 lib/libRDKitRDBoost.so.1 lib/libRDKitRDBoost.so && :
[ 6% 43/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_OPTIMIZE_POPCNT -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2
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[ 6% 45/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_OPTIMIZE_POPCNT -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2
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[ 6% 46/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_OPTIMIZE_POPCNT -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2
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[ 7% 47/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_OPTIMIZE_POPCNT -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2
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[ 7% 50/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DDataStructs_EXPORTS -DRDKIT_DATASTRUCTS_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_OPTIMIZE_POPCNT -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2
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[ 8% 57/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_OPTIMIZE_POPCNT -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DcDataStructs_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -isystem /usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-prot
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[ 8% 59/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_OPTIMIZE_POPCNT -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DcDataStructs_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -isystem /usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-prot
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[ 9% 60/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_OPTIMIZE_POPCNT -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DcDataStructs_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -isystem /usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-prot
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[ 9% 61/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_OPTIMIZE_POPCNT -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DcDataStructs_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -isystem /usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-prot
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[ 10% 68/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-prot
ector-strong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o -MF Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o.d -o Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/Geometry/Transform3D.cpp
[ 10% 69/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-prot
ector-strong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -MF Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o.d -o Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/Geometry/GridUtils.cpp
[ 10% 70/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDGeometryLib_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_RDGEOMETRYLIB_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-prot
ector-strong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o -MF Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o.d -o Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/Geometry/UniformGrid3D.cpp
[ 10% 71/640] : && /usr/bin/c++ -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fstack-protector-strong -shared -Wl,-soname,libRDKitRDGeometryLib.so.1 -o lib/libRDKitRDGeometryLib.so.1.2023.09.1 Code/Geometry/CMakeFiles/RDGeometryLib.dir/point.cpp.o Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform2D.cpp.o Code/Geometry/CMakeFiles/RDGeometryLib.dir/Transform3D.cpp.o Code/Geometry/CMakeFiles/RDGeometryLib.dir/UniformGrid3D.cpp.o Code/Geometry/CMakeFiles/RDGeometryLib.dir/GridUtils.cpp.o -Wl,-rpath,/wrkdirs/usr/ports/science/rdkit/work/.build/lib: lib/libRDKitDataStructs.so.1.2023.09.1 lib/libRDKitRDGeneral.so.1.2023.09.1 -lpthread -ldl && :
[ 10% 72/640] /usr/local/bin/cmake -E cmake_symlink_library lib/libRDKitRDGeometryLib.so.1.2023.09.1 lib/libRDKitRDGeometryLib.so.1 lib/libRDKitRDGeometryLib.so && :
[ 11% 73/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DrdGeometry_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -isystem /usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-strict
-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -MF Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o.d -o Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/Geometry/Wrap/rdGeometry.cpp
[ 11% 74/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DrdGeometry_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -isystem /usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-strict
-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -MF Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o.d -o Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/Geometry/Wrap/UniformGrid3D.cpp
[ 11% 75/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DrdGeometry_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -isystem /usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-strict
-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o -MF Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o.d -o Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/Geometry/Wrap/Point.cpp
[ 11% 76/640] : && /usr/bin/c++ -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fstack-protector-strong -pthread -shared -L/usr/local/lib -fstack-protector-strong -shared -o rdkit/Geometry/rdGeometry.so Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/Point.cpp.o Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/UniformGrid3D.cpp.o Code/Geometry/Wrap/CMakeFiles/rdGeometry.dir/rdGeometry.cpp.o -Wl,-rpath,/wrkdirs/usr/ports/science/rdkit/work/.build/lib:/usr/local/lib: lib/libRDKitRDGeometryLib.so.1.2023.09.1 lib/libRDKitRDBoost.so.1.2023.09.1 lib/libRDKitDataStructs.so.1.2023.09.1 /usr/local/lib/libpython3.9.so /usr/local/lib/libboost_python39.so lib/libRDKitRDGeneral.so.1.2023.09.1 -lpthread -ldl && :
[ 11% 77/640] /usr/bin/c++ -DAlignment_EXPORTS -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_ALIGNMENT_BUILD -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-st
rong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o -MF Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o.d -o Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/Numerics/Alignment/AlignPoints.cpp
[ 11% 78/640] : && /usr/bin/c++ -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fstack-protector-strong -shared -Wl,-soname,libRDKitAlignment.so.1 -o lib/libRDKitAlignment.so.1.2023.09.1 Code/Numerics/Alignment/CMakeFiles/Alignment.dir/AlignPoints.cpp.o -Wl,-rpath,/wrkdirs/usr/ports/science/rdkit/work/.build/lib: lib/libRDKitRDGeometryLib.so.1.2023.09.1 lib/libRDKitDataStructs.so.1.2023.09.1 lib/libRDKitRDGeneral.so.1.2023.09.1 -lpthread -ldl && :
[ 12% 79/640] /usr/local/bin/cmake -E cmake_symlink_library lib/libRDKitAlignment.so.1.2023.09.1 lib/libRDKitAlignment.so.1 lib/libRDKitAlignment.so && :
[ 12% 80/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DOptimizer_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_OPTIMIZER_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-st
rong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -MF Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o.d -o Code/Numerics/Optimizer/CMakeFiles/Optimizer.dir/BFGSOpt.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/Numerics/Optimizer/BFGSOpt.cpp
[ 12% 81/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DEigenSolvers_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_EIGENSOLVERS_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protec
tor-strong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -MF Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o.d -o Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/Numerics/EigenSolvers/PowerEigenSolver.cpp
[ 12% 82/640] : && /usr/bin/c++ -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fstack-protector-strong -shared -Wl,-soname,libRDKitEigenSolvers.so.1 -o lib/libRDKitEigenSolvers.so.1.2023.09.1 Code/Numerics/EigenSolvers/CMakeFiles/EigenSolvers.dir/PowerEigenSolver.cpp.o -Wl,-rpath,/wrkdirs/usr/ports/science/rdkit/work/.build/lib: lib/libRDKitRDGeneral.so.1.2023.09.1 -lpthread -ldl && :
[ 12% 83/640] /usr/local/bin/cmake -E cmake_symlink_library lib/libRDKitEigenSolvers.so.1.2023.09.1 lib/libRDKitEigenSolvers.so.1 lib/libRDKitEigenSolvers.so && :
[ 12% 84/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DRDKIT_DYN_LINK -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DrdAlignment_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -isystem /usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-stric
t-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -MF Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o.d -o Code/Numerics/Alignment/Wrap/CMakeFiles/rdAlignment.dir/rdAlignment.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/Numerics/Alignment/Wrap/rdAlignment.cpp
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[ 19% 126/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-str
ong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/ROMol.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/ROMol.cpp
[ 19% 127/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-str
ong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/PeriodicTable.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/PeriodicTable.cpp
[ 19% 128/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-str
ong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/atomic_data.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/atomic_data.cpp
[ 19% 129/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-str
ong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/RWMol.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/RWMol.cpp
[ 20% 130/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-str
ong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/QueryOps.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/QueryOps.cpp
[ 20% 131/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-str
ong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/Canon.cpp
FAILED: Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o
/usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-strong -fno-strict
-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/Canon.cpp
Assertion failed: (VDecl->isLinkageValid()), function DeduceVariableDeclarationType, file /usr/local/poudriere/jails/main-powerpc64le/usr/src/contrib/llvm-project/clang/lib/Sema/SemaDecl.cpp, line 12705.
PLEASE submit a bug report to https://bugs.freebsd.org/submit/ and include the crash backtrace, preprocessed source, and associated run script.
Stack dump:
0. Program arguments: /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protec
tor-strong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/Canon.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/Canon.cpp
1. /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/Canon.cpp:84:2: current parser token ';'
2. /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/Canon.cpp:21:1: parsing namespace 'RDKit'
3. /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/Canon.cpp:22:1: parsing namespace 'RDKit::Canon'
#0 0x0000000015bb187c (/usr/bin/c+++0x15bb187c)
#1 0x0000000015baf150 (/usr/bin/c+++0x15baf150)
#2 0x0000000015b3d9cc (/usr/bin/c+++0x15b3d9cc)
#3 0x000000081825db40 (/lib/libthr.so.3+0x30b40)
c++: error: clang frontend command failed with exit code 134 (use -v to see invocation)
FreeBSD clang version 16.0.6 (https://github.com/llvm/llvm-project.git llvmorg-16.0.6-0-g7cbf1a259152)
Target: powerpc64le-unknown-freebsd15.0
Thread model: posix
InstalledDir: /usr/bin
c++: note: diagnostic msg:
********************
PLEASE ATTACH THE FOLLOWING FILES TO THE BUG REPORT:
Preprocessed source(s) and associated run script(s) are located at:
c++: note: diagnostic msg: /tmp/Canon-3df105.cpp
c++: note: diagnostic msg: /tmp/Canon-3df105.sh
c++: note: diagnostic msg:
********************
[ 20% 131/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-str
ong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/AtomIterators.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/AtomIterators.cpp
[ 20% 131/640] /usr/bin/c++ -DBOOST_SERIALIZATION_DYN_LINK -DGraphMol_EXPORTS -DRDKIT_DYN_LINK -DRDKIT_GRAPHMOL_BUILD -DRDK_64BIT_BUILD -DRDK_BUILD_COORDGEN_SUPPORT -DRDK_BUILD_DESCRIPTORS3D -DRDK_BUILD_MAEPARSER_SUPPORT -DRDK_BUILD_THREADSAFE_SSS -DRDK_HAS_EIGEN3 -DRDK_TEST_MULTITHREADED -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code -I/usr/local/include -isystem /usr/local/include/eigen3 -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -mpopcntd -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -fstack-protector-str
ong -fno-strict-aliasing -DNDEBUG -std=gnu++17 -fPIC -pthread -MD -MT Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o -MF Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o.d -o Code/GraphMol/CMakeFiles/GraphMol.dir/MolPickler.cpp.o -c /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2023_09_1/Code/GraphMol/MolPickler.cpp
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