From nobody Sat Nov 02 04:06:18 2024 X-Original-To: pkg-fallout@mlmmj.nyi.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mlmmj.nyi.freebsd.org (Postfix) with ESMTP id 4XgPL23Gy4z5bfJW for ; Sat, 02 Nov 2024 04:06:18 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256 client-signature RSA-PSS (4096 bits) client-digest SHA256) (Client CN "mxrelay.nyi.freebsd.org", Issuer "R10" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4XgPL20xKyz4JlQ for ; Sat, 2 Nov 2024 04:06:18 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1730520378; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc; bh=88Q/OjuIx0ZotJKPElma3k9lLHTU+qRYTtXyBGPZ0NQ=; b=tjNiXGsCOPcpvDA6wCYEK6TapJStNNxKFBlVXx58sE9BaJIAT7wezI0MKgmb3X8u1nZNYh y0+nk3fr0CA/hJk09/mfA8EnYYBw0aBmrQoyCrdT46ldRWVhAOQoaGyP2iOiR3P/jNoBez REuWXuCElu6ljGb5mT7S4ohLCYqvz7z5R1jY9x0a2JXIAVhdYJ1lzgsTlpTlLXjsvzl0Go DRj+WfOusYWxbcjn15X42chQ1peVnCLNRMDICI+mWtJn7D5ZgfcRcf8GydZgXK0lf9MYRt lMSPfkOJpQAGruS3dh7fefNflbnVj55xbPjSz47KmzpztZ8BLTR8GKOBiQe3WQ== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1730520378; a=rsa-sha256; cv=none; b=pghIeOXv2z3UQTkLY6zL8kcP9M00m5r43sofPZiStSEH4uQdm6O7KxbXc8xcMuvnc8rdQc OsGubAUTv+OhTYwW548UNIsCu6atV1mMIGuYX3U1lavcC/WwHpwtG6dRCm9X3EEc94UwBq MY6uv/2n48ly5IPUrqTLUS7GqxB0xUpjwNNIJ40D+92TEJJooZOUxTNiZV8pO1sD4qH7HK 6zhlqmwvaOFx3N0cX9x4K4rqZtgi4ioS7tFhgE4A4hO6u0nDjAB0LH3yAqeBlPZ6VXp47A CZPTxW2fzB3R6Z7VOrV1JWaNe6BLApjxiaCCbcJA5N0fZjMD0Vi0vPRk7/NIQw== Received: from ampere2.nyi.freebsd.org (ampere2.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:24]) by mxrelay.nyi.freebsd.org (Postfix) with ESMTP id 4XgPL207Hbzq3W for ; Sat, 2 Nov 2024 04:06:18 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from root (uid 0) (envelope-from pkg-fallout@FreeBSD.org) id f50 by ampere2.nyi.freebsd.org (DragonFly Mail Agent v0.13+ on ampere2.nyi.freebsd.org); Sat, 02 Nov 2024 04:06:18 +0000 To: pkg-fallout@FreeBSD.org Subject: [package - main-armv7-default][science/rdkit] Failed for rdkit-2024.03.6_1 in build Date: Sat, 02 Nov 2024 04:06:18 +0000 Message-Id: <6725a53a.f50.4748c490@ampere2.nyi.freebsd.org> From: List-Id: Fallout logs from package building List-Archive: https://lists.freebsd.org/archives/freebsd-pkg-fallout List-Help: List-Post: List-Subscribe: List-Unsubscribe: Sender: owner-freebsd-pkg-fallout@FreeBSD.org 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/ampere2/data/main-armv7-default/p711a2f7f1ca4_s0d965bc034/logs/rdkit-2024.03.6_1.log Build URL: https://pkg-status.freebsd.org/ampere2/build.html?mastername=main-armv7-default&build=p711a2f7f1ca4_s0d965bc034 Log: =>> Building science/rdkit build started at Sat Nov 2 04:05:48 UTC 2024 port directory: /usr/ports/science/rdkit package name: rdkit-2024.03.6_1 building for: FreeBSD main-armv7-default-job-13 15.0-CURRENT FreeBSD 15.0-CURRENT 1500026 arm maintained by: yuri@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 3121 Oct 6 01:01 /usr/ports/science/rdkit/Makefile Ports top last git commit: 711a2f7f1ca Ports top unclean checkout: no Port dir last git commit: 55cfbcf56c3 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500023 Jail OSVERSION: 1500026 Job Id: 13 !!! Jail is newer than host. (Jail: 1500026, Host: 1500023) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh OSVERSION=1500026 UNAME_v=FreeBSD 15.0-CURRENT 1500026 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 MAKE_OBJDIR_CHECK_WRITABLE=0 LOCALBASE=/usr/local USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.2 MASTERMNT=/usr/local/poudriere/data/.m/main-armv7-default/ref 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-armv7-default/13/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=main-armv7-default SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/main-armv7-default/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.2 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---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-2024.03.6_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/python3.11" 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 -D_GNU_SOURCE -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -D_GNU_SOURCE -fstack-protector-strong -fno-strict-aliasing -D_GNU_SOURCE " BSD_INSTALL_PROGRAM="install -s -m 555" BSD_I NSTALL_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=2024.03.6 PORTDOCS="" DOCS="" NO_DOCS="@comment " PGSQL="@comment " NO_PGSQL="" PYTHON="" NO_PYTHON="@comment " LITTLE_ENDIAN="" CMAKE_BUILD_TYPE="release" PYTHON_INCLUDEDIR=include/python3.11 PYTHON_LIBDIR=lib/python3.11 PYTHON_PLATFORM=freebsd15 PYTHON_SITELIBDIR=lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_EXT_SUFFIX=.cpython-311 PYTHON_VER=3.11 PYTHON_VERSION=python3.11 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/python3.11 PYTHON_LIBDIR=/usr/local/lib/python3.11 PYTHON_PLATFORM=freebsd15 PYTHON_SITELIBDIR=/usr/local/lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_EXT_SUFFIX=.cpython-311 PYTHON_VER=3.11 PYTHON_VERSION=python3.11 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--- # 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 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-- ulimit: can't get limit: Invalid argument cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 524288 stack size (kbytes, -s) 65536 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-- =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD3CLAUSE accepted by the user =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> rdkit-2024.03.6_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.21.3.pkg [main-armv7-default-job-13] Installing pkg-1.21.3... [main-armv7-default-job-13] Extracting pkg-1.21.3: .......... done ===> rdkit-2024.03.6_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of rdkit-2024.03.6_1 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by rdkit-2024.03.6_1 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by rdkit-2024.03.6_1 for building => SHA256 Checksum OK for rdkit-2024.03.6/ComicNeue-Regular.ttf. => SHA256 Checksum OK for rdkit-2024.03.6/rdkit-rdkit-Release_2024_03_6_GH0.tar.gz. => SHA256 Checksum OK for rdkit-2024.03.6/rareylab-RingDecomposerLib-v1.1.3_rdkit_GH0.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by rdkit-2024.03.6_1 for building ===> Extracting for rdkit-2024.03.6_1 => SHA256 Checksum OK for rdkit-2024.03.6/ComicNeue-Regular.ttf. => SHA256 Checksum OK for rdkit-2024.03.6/rdkit-rdkit-Release_2024_03_6_GH0.tar.gz. => SHA256 Checksum OK for rdkit-2024.03.6/rareylab-RingDecomposerLib-v1.1.3_rdkit_GH0.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for rdkit-2024.03.6_1 ===> Applying FreeBSD patches for rdkit-2024.03.6_1 from /usr/ports/science/rdkit/files =========================================================================== =================================================== [main-armv7-default-job-13] `-- Installing jsoncpp-1.9.6_1... [main-armv7-default-job-13] `-- Extracting jsoncpp-1.9.6_1: .......... done [main-armv7-default-job-13] `-- Installing libuv-1.49.1... [main-armv7-default-job-13] `-- Extracting libuv-1.49.1: .......... done [main-armv7-default-job-13] `-- Installing rhash-1.4.4_1... [main-armv7-default-job-13] `-- Extracting rhash-1.4.4_1: .......... done [main-armv7-default-job-13] Extracting cmake-core-3.30.5: .......... done ===> rdkit-2024.03.6_1 depends on file: /usr/local/bin/cmake - found ===> Returning to build of rdkit-2024.03.6_1 ===> rdkit-2024.03.6_1 depends on executable: ninja - not found ===> Installing existing package /packages/All/ninja-1.11.1,4.pkg [main-armv7-default-job-13] Installing ninja-1.11.1,4... [main-armv7-default-job-13] Extracting ninja-1.11.1,4: ........ done ===> rdkit-2024.03.6_1 depends on executable: ninja - found ===> Returning to build of rdkit-2024.03.6_1 ===> rdkit-2024.03.6_1 depends on file: /usr/local/libdata/pkgconfig/eigen3.pc - not found ===> Installing existing package /packages/All/eigen-3.4.0_3.pkg [main-armv7-default-job-13] Installing eigen-3.4.0_3... [main-armv7-default-job-13] `-- Installing blas-3.12.0_1... [main-armv7-default-job-13] `-- Extracting blas-3.12.0_1: ........ done [main-armv7-default-job-13] `-- Installing lapack-3.12.0_2... [main-armv7-default-job-13] `-- Extracting lapack-3.12.0_2: .......... done [main-armv7-default-job-13] Extracting eigen-3.4.0_3: .......... done ===> rdkit-2024.03.6_1 depends on file: /usr/local/libdata/pkgconfig/eigen3.pc - found ===> Returning to build of rdkit-2024.03.6_1 ===> rdkit-2024.03.6_1 depends on file: /usr/local/bin/python3.11 - found =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> rdkit-2024.03.6_1 depends on shared library: libboost_system.so - not found ===> Installing existing package /packages/All/boost-libs-1.85.0.pkg [main-armv7-default-job-13] Installing boost-libs-1.85.0... [main-armv7-default-job-13] `-- Installing icu-74.2_1,1... [main-armv7-default-job-13] `-- Extracting icu-74.2_1,1: .......... done [main-armv7-default-job-13] Extracting boost-libs-1.85.0: .......... done ===== Message from boost-libs-1.85.0: -- You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===> rdkit-2024.03.6_1 depends on shared library: libboost_system.so - found (/usr/local/lib/libboost_system.so) ===> Returning to build of rdkit-2024.03.6_1 ===> rdkit-2024.03.6_1 depends on shared library: libcoordgen.so - not found ===> Installing existing package /packages/All/coordgenlibs-3.0.2.pkg [main-armv7-default-job-13] Installing coordgenlibs-3.0.2... [main-armv7-default-job-13] `-- Installing maeparser-1.3.1_4... [main-armv7-default-job-13] `-- Extracting maeparser-1.3.1_4: .......... done [main-armv7-default-job-13] Extracting coordgenlibs-3.0.2: .......... done ===> rdkit-2024.03.6_1 depends on shared library: libcoordgen.so - found (/usr/local/lib/libcoordgen.so) ===> Returning to build of rdkit-2024.03.6_1 ===> rdkit-2024.03.6_1 depends on shared library: libfreetype.so - not found ===> Installing existing package /packages/All/freetype2-2.13.3.pkg [main-armv7-default-job-13] Installing freetype2-2.13.3... [main-armv7-default-job-13] `-- Installing brotli-1.1.0,1... [main-armv7-default-job-13] `-- Extracting brotli-1.1.0,1: .......... done [main-armv7-default-job-13] `-- Installing png-1.6.44... [main-armv7-default-job-13] `-- Extracting png-1.6.44: .......... done [main-armv7-default-job-13] Extracting freetype2-2.13.3: .......... done ===== Message from freetype2-2.13.3: -- 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/index.html, if documentation was installed). ===> rdkit-2024.03.6_1 depends on shared library: libfreetype.so - found (/usr/local/lib/libfreetype.so) ===> Returning to build of rdkit-2024.03.6_1 ===> rdkit-2024.03.6_1 depends on shared library: libmaeparser.so - found (/usr/local/lib/libmaeparser.so) ===> rdkit-2024.03.6_1 depends on shared library: libboost_python311.so - not found ===> Installing existing package /packages/All/py311-boost-libs-1.85.0.pkg [main-armv7-default-job-13] Installing py311-boost-libs-1.85.0... [main-armv7-default-job-13] Extracting py311-boost-libs-1.85.0: .......... done ===== Message from py311-boost-libs-1.85.0: -- You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===> rdkit-2024.03.6_1 depends on shared library: libboost_python311.so - found (/usr/local/lib/libboost_python311.so) ===> Returning to build of rdkit-2024.03.6_1 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for rdkit-2024.03.6_1 ===> Performing out-of-source build /bin/mkdir -p /wrkdirs/usr/ports/science/rdkit/work/.build -- The C compiler identification is Clang 19.1.2 -- The CXX compiler identification is Clang 19.1.2 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - 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/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Warning at /usr/local/share/cmake/Modules/FetchContent.cmake:2111 (message): FETCHCONTENT_FULLY_DISCONNECTED is set to true, which requires the source directory for dependency Catch2 to already be populated. This generally means it must not be set to true the first time CMake is run in a build directory. The following source directory should already be populated, but it doesn't exist: /wrkdirs/usr/ports/science/rdkit/work/.build/_deps/catch2-src Policy CMP0170 controls enforcement of this requirement. Call Stack (most recent call first): /usr/local/share/cmake/Modules/FetchContent.cmake:2384 (__FetchContent_Populate) CMakeLists.txt:163 (FetchContent_MakeAvailable) -- Found Python3: /usr/local/bin/python3.11 (found version "3.11.10") found components: Interpreter Development NumPy Development.Module Development.Embed Python Install directory /usr/local/lib/python3.11/site-packages nbval not found, disabling the jupyter tests -- Found Eigen3: /usr/local/include/eigen3 (Required is at least version "2.91.0") -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE == Using strict rotor definition -- maeparser include dir set as '/usr/local/include' -- maeparser libraries set as '/usr/local/lib/libmaeparser.so' -- coordgen include dir set as /usr/local/include -- coordgen libraries set as '/usr/local/lib/libcoordgen.so' -- Found RingDecomposerLib source in /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -- Found Python3: /usr/local/bin/python3.11 (found version "3.11.10") found components: Interpreter /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/Data/Fonts/ComicNeue-Regular.ttf already there, skipping the download -- Found Freetype: /usr/local/lib/libfreetype.so (found version "2.13.3") -- Found RapidJSON source in /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/External -- Configuring done (6.3s) -- Generating done (1.6s) CMake Warning: Manually-specified variables were not used by the project: BOOST_PYTHON_SUFFIX CATCH_DIR CMAKE_COLOR_MAKEFILE CMAKE_VERBOSE_MAKEFILE Python_ADDITIONAL_VERSIONS Python_EXECUTABLE RDK_OPTIMIZE_NATIVE -- Build files have been written to: /wrkdirs/usr/ports/science/rdkit/work/.build =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for rdkit-2024.03.6_1 [ 0% 3/647] 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_2024_03_6/External/INCHI-API/python/noinchi.py /wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/rdkit/Chem/inchi.py [ 0% 4/647] /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_32BIT_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_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DrdCoordGen_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/lib/python3.11/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/Code -isystem /usr/local/include -isystem /usr/l ocal/include/python3.11 -isystem /usr/local/include/eigen3 -isystem /usr -O2 -pipe -D_GNU_SOURCE -fstack-protector-strong -fno-strict-aliasing -D_GNU_SOURCE -mpopcnt -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -D_GNU_SOURCE -fstack-protector-strong -fno-strict-aliasing -D_GNU_SOURCE -DNDEBUG -std=gnu++17 -fPIC -pthread -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_2024_03_6/External/CoordGen/Wrap/rdCoordGen.cpp FAILED: External/CoordGen/Wrap/CMakeFiles/rdCoordGen.dir/rdCoordGen.cpp.o /usr/bin/c++ -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_NUMPY_DYN_LINK -DBOOST_NUMPY_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DIN_COORDGEN -DIN_MAEPARSER -DRDKIT_DYN_LINK -DRDK_32BIT_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_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DrdCoordGen_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/lib/python3.11/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/Code -isystem /usr/local/include -isystem /usr/local/include/ python3.11 -isystem /usr/local/include/eigen3 -isystem /usr -O2 -pipe -D_GNU_SOURCE -fstack-protector-strong -fno-strict-aliasing -D_GNU_SOURCE -mpopcnt -Wall -Wextra -Wno-deprecated -Wno-unused-function -fno-strict-aliasing -Wno-format -Wno-logical-op-parentheses -fPIC -O2 -pipe -D_GNU_SOURCE -fstack-protector-strong -fno-strict-aliasing -D_GNU_SOURCE -DNDEBUG -std=gnu++17 -fPIC -pthread -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_2024_03_6/External/CoordGen/Wrap/rdCoordGen.cpp c++: error: unsupported option '-mpopcnt' for target 'armv7-unknown-freebsd15.0-gnueabihf' [ 0% 4/647] /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DRDKIT_DYN_LINK -DRDK_32BIT_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_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DRingDecomposerLib_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.11 -I/usr/local/lib/python3.11/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/Code -isystem /usr/local/include/eigen3 -isystem /usr/local/include -O2 -pipe -D_GNU_SOURCE -fstack-protector-strong -fno-strict -aliasing -Wno-array-bounds -fPIC -Wno-parentheses -Wno-logical-op-parentheses -Wno-format -O2 -pipe -D_GNU_SOURCE -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fPIC -pthread -MD -MT External/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_2024_03_6/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib/RDLbitset.c [ 0% 4/647] /usr/bin/cc -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_SERIALIZATION_DYN_LINK -DBOOST_SERIALIZATION_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DRDKIT_DYN_LINK -DRDK_32BIT_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_IOSTREAMS -DRDK_USE_BOOST_SERIALIZATION -DRDK_USE_STRICT_ROTOR_DEFINITION -DRDK_USE_URF -DRingDecomposerLib_EXPORTS -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/External -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib -I/usr/local/include/python3.11 -I/usr/local/lib/python3.11/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/rdkit/work/rdkit-Release_2024_03_6/Code -isystem /usr/local/include/eigen3 -isystem /usr/local/include -O2 -pipe -D_GNU_SOURCE -fstack-protector-strong -fno-strict -aliasing -Wno-array-bounds -fPIC -Wno-parentheses -Wno-logical-op-parentheses -Wno-format -O2 -pipe -D_GNU_SOURCE -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fPIC -pthread -MD -MT External/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_2024_03_6/External/RingFamilies/RingDecomposerLib/src/RingDecomposerLib/RDLapsp.c 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 making "build" in /usr/ports/science/rdkit