From nobody Sun Jun 25 06:17:53 2023 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 4Qpgkp2dB6z4fsMY for ; Sun, 25 Jun 2023 06:17:54 +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 "R3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4Qpgkp0713z3mC5 for ; Sun, 25 Jun 2023 06:17:54 +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=1687673874; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:cc; bh=BYGZ7D8TG+4L9W4pXMZNYi8sWKBxZYll1uyOmh8xWQk=; b=DP+DmgL/0mmRes8XrnQ2A+B+9hdIM8P2FHF/zGREcM2NwBJ1FLxr2YmJI4FT58yYNwTXx5 7v+PUPhXjATGW5g+Gpk3mlrPkEjfBP8qYw6eEKcRDF7Pp/PHovdBL3Vdpjc1wo8hbloZ6C BNHJO1+dDl8FwLPv567emd+ebYZ4NZajUxuvzC2lHxiKVblvFzEUnUiGEmjWSjAqm9Y/RH fJYJ3JB518W3++5OQhsnLCoi8VNbLwA9ncOtKIAgvGWBkh/rfJKpYJVoWfcEUXdFhv2Gh/ ATrW7HMN8NMLj7Rva3E7bSkD/HJklDOCJk967QFo8pp0YzgjmqbXN4QaCIvndg== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1687673874; a=rsa-sha256; cv=none; b=VgZwG5nBijqCVNY/kFzdTvPP2+M78DIMoVzYQY7sy/R3hcd6TOuCjoRGjwSNXJUJn/sNxs BeEf7mPpt696N83dOy9rwa1Ybn5b8uTIytMhDlYNplijZtRbb9LKbDqlWosZ+ZlZXV5Aje SThomAY5cHfrPDi1JICU7/2qnRoz+XCZUpadE6eV7U6wQG4Eeu+zeBhS7izzBMKy76OF8P oKB3cwskbh7W31GBrEyXBezh6fB8XQUDH1hK0r3z3Zp6xjf9akWstlAXFfHc7/e7Ff87Wr z5g3aiSBcP0oS5k4PmCTazfOr/qUQGm5gl0/Su3ofcWzQTIpW9Vi+wI93RCh7g== Received: from beefy17.nyi.freebsd.org (beefy17.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:20]) by mxrelay.nyi.freebsd.org (Postfix) with ESMTP id 4Qpgkn6DD4zGkP for ; Sun, 25 Jun 2023 06:17:53 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from root (uid 0) (envelope-from pkg-fallout@FreeBSD.org) id 2692 by beefy17.nyi.freebsd.org (DragonFly Mail Agent v0.13+ on beefy17.nyi.freebsd.org); Sun, 25 Jun 2023 06:17:53 +0000 To: yuri@FreeBSD.org Subject: [package - main-i386-default][biology/py-python-libsbml] Failed for py39-python-libsbml-5.19.0 in build Cc: pkg-fallout@FreeBSD.org Date: Sun, 25 Jun 2023 06:17:53 +0000 Message-Id: <6497dc11.2692.36bcbd95@beefy17.nyi.freebsd.org> From: X-ThisMailContainsUnwantedMimeParts: N 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/beefy17/data/main-i386-default/p4785b313b958_se8efee297c/logs/py39-python-libsbml-5.19.0.log Build URL: https://pkg-status.freebsd.org/beefy17/build.html?mastername=main-i386-default&build=p4785b313b958_se8efee297c Log: =>> Building biology/py-python-libsbml build started at Sun Jun 25 06:17:28 UTC 2023 port directory: /usr/ports/biology/py-python-libsbml package name: py39-python-libsbml-5.19.0 building for: FreeBSD main-i386-default-job-01 14.0-CURRENT FreeBSD 14.0-CURRENT 1400091 i386 maintained by: yuri@FreeBSD.org Makefile ident: Poudriere version: 3.2.8-23-ga7f8d188 Host OSVERSION: 1400089 Jail OSVERSION: 1400091 Job Id: 01 !!! Jail is newer than host. (Jail: 1400091, Host: 1400089) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/sh UNAME_p=i386 UNAME_m=i386 OSVERSION=1400091 UNAME_v=FreeBSD 14.0-CURRENT 1400091 UNAME_r=14.0-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 USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-23-ga7f8d188 MASTERMNT=/usr/local/poudriere/data/.m/main-i386-default/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/main-i386-default/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=main-i386-default SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/main-i386-default/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=py39 DEPENDS_ARGS= MAKE_ARGS= FLAVOR=py39 ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ---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/biology/py-python-libsbml/work-py39 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39 XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/.cache HOME=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39 XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/.cache HOME=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/.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 LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= 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 " MA NPREFIX="/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-- PYTHON_INCLUDEDIR=include/python3.9 PYTHON_LIBDIR=lib/python3.9 PYTHON_PLATFORM=freebsd14 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=14.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/python-libsbml" EXAMPLESDIR="share/examples/python-libsbml" DATADIR="share/python-libsbml" WWWDIR="www/python-libsbml" ETCDIR="etc/python-libsbml" --End PLIST_SUB-- --SUB_LIST-- PYTHON_INCLUDEDIR=/usr/local/include/python3.9 PYTHON_LIBDIR=/usr/local/lib/python3.9 PYTHON_PLATFORM=freebsd14 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/python-libsbml DOCSDIR=/usr/local/share/doc/python-libsbml EXAMPLESDIR=/usr/local/share/examples/python-libsbml WWWDIR=/usr/local/www/python-libsbml ETCDIR=/usr/local/etc/python-libsbml --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 MACHINE=i386 MACHINE_ARCH=i386 ARCH=${MACHINE_ARCH} #### /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=FreeBSD clang version 16.0.6 (https://github.com/llvm/llvm-project.git llvmorg-16.0.6-0-g7cbf1a259152) Target: i386-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin _ALTCCVERSION_921dbbb2=none _CXXINTERNAL_acaad9ca=FreeBSD clang version 16.0.6 (https://github.com/llvm/llvm-project.git llvmorg-16.0.6-0-g7cbf1a259152) Target: i386-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin "/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--hash-style=both" "--enable-new-dtags" "-m" "elf_i386_fbsd" "-o" "a.out" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "/dev/null" "-lc++" "-lm" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "-lc" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "/usr/lib/crtend.o" "/usr/lib/crtn.o" CC_OUTPUT_921dbbb2_58173849=yes CC_OUTPUT_921dbbb2_9bdba57c=yes CC_OUTPUT_921dbbb2_6a4fe7f5=yes CC_OUTPUT_921dbbb2_6bcac02b=yes CC_OUTPUT_921dbbb2_67d20829=yes CC_OUTPUT_921dbbb2_bfa62e83=yes CC_OUTPUT_921dbbb2_f0b4d593=yes CC_OUTPUT_921dbbb2_308abb44=yes CC_OUTPUT_921dbbb2_f00456e5=yes CC_OUTPUT_921dbbb2_65ad290d=yes CC_OUTPUT_921dbbb2_f2776b26=yes CC_OUTPUT_921dbbb2_53255a77=yes CC_OUTPUT_921dbbb2_911cfe02=yes CC_OUTPUT_921dbbb2_b2657cc3=yes CC_OUTPUT_921dbbb2_380987f7=yes CC_OUTPUT_921dbbb2_160933ec=yes CC_OUTPUT_921dbbb2_fb62803b=yes CC_OUTPUT_921dbbb2_af59ad06=yes CC_OUTPUT_921dbbb2_a15f3fcf=yes _OBJC_CCVERSION_921dbbb2=FreeBSD clang version 16.0.6 (https://github.com/llvm/llvm-project.git llvmorg-16.0.6-0-g7cbf1a259152) Target: i386-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin _OBJC_ALTCCVERSION_921dbbb2=none ARCH=i386 OPSYS=FreeBSD _OSRELEASE=14.0-CURRENT OSREL=14.0 OSVERSION=1400091 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) 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) 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-- =================================================== ===> License LGPL21 accepted by the user =========================================================================== =================================================== ===> py39-python-libsbml-5.19.0 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.19.1_1.pkg [main-i386-default-job-01] Installing pkg-1.19.1_1... [main-i386-default-job-01] Extracting pkg-1.19.1_1: .......... done ===> py39-python-libsbml-5.19.0 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py39-python-libsbml-5.19.0 =========================================================================== =================================================== =========================================================================== =================================================== ===> License LGPL21 accepted by the user ===> Fetching all distfiles required by py39-python-libsbml-5.19.0 for building =========================================================================== =================================================== ===> License LGPL21 accepted by the user ===> Fetching all distfiles required by py39-python-libsbml-5.19.0 for building => SHA256 Checksum OK for python-libsbml-5.19.0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License LGPL21 accepted by the user ===> Fetching all distfiles required by py39-python-libsbml-5.19.0 for building ===> Extracting for py39-python-libsbml-5.19.0 => SHA256 Checksum OK for python-libsbml-5.19.0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for py39-python-libsbml-5.19.0 =========================================================================== =================================================== ===> py39-python-libsbml-5.19.0 depends on executable: cmake - not found ^ 20 warnings generated. [ 92%] Building C object zlib/CMakeFiles/zlib.dir/source/uncompr.c.o /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_dependencies/zlib/source/uncompr.c:26:13: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] int ZEXPORT uncompress (dest, destLen, source, sourceLen) ^ 1 warning generated. [ 96%] Building C object zlib/CMakeFiles/zlib.dir/source/zutil.c.o /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_dependencies/zlib/source/zutil.c:133:22: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] const char * ZEXPORT zError(err) ^ /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_dependencies/zlib/source/zutil.c:300:8: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] voidpf zcalloc (opaque, items, size) ^ /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_dependencies/zlib/source/zutil.c:310:7: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype] void zcfree (opaque, ptr) ^ 3 warnings generated. [100%] Linking C static library libzlib.a [100%] Built target zlib Install the project... -- Install configuration: "Release" -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libbz2.a -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/include/bzlib.h -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/include/bzip2/bzlib.h -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libexpat.a -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/include/expat.h -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/include/expat_external.h -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libzlib.a -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/include/zconf.h -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/include/zlib.h -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/include/zlib/zconf.h -- Installing: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/include/zlib/zlib.h cmake /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_source -DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_PARALLEL_LEVEL=4 -DWITH_STATIC_RUNTIME=ON -DWITH_EXPAT=ON -DWITH_LIBXML=OFF -DWITH_SWIG=ON -DWITH_ZLIB=ON -DWITH_PYTHON=ON -DPYTHON_EXECUTABLE=/usr/local/bin/python3.9 -DPYTHON_INCLUDE_DIR=/usr/local/include/python3.9 -DENABLE_COMP=ON -DENABLE_FBC=ON -DENABLE_LAYOUT=ON -DENABLE_QUAL=ON -DENABLE_GROUPS=ON -DENABLE_MULTI=ON -DENABLE_RENDER=ON -DPYTHON_USE_DYNAMIC_LOOKUP=ON -DLIBSBML_DEPENDENCY_DIR=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386 -DLIBEXPAT_INCLUDE_DIR=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/include -DLIBEXPAT_LIBRARY=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libexpat.a -DLIBZ_LIBRARY =/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libzlib.a -DLIBBZ_LIBRARY=/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libbz2.a CMake Deprecation Warning at CMakeLists.txt:34 (cmake_minimum_required): Compatibility with CMake < 2.8.12 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The C compiler identification is Clang 16.0.6 -- The CXX compiler identification is Clang 16.0.6 -- 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 Deprecation Warning at CMakeLists.txt:42 (cmake_policy): The OLD behavior for policy CMP0058 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Found SWIG: /usr/local/bin/swig (found version "4.1.1") -- Looking for BZ2_bzCompressInit in /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libbz2.a -- Looking for BZ2_bzCompressInit in /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libbz2.a - found -- Looking for gzopen in /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libzlib.a -- Looking for gzopen in /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libzlib.a - found -- Looking for include file check.h -- Looking for include file check.h - not found -- Looking for include file expat.h -- Looking for include file expat.h - not found -- Looking for include file errno.h -- Looking for include file errno.h - found -- Looking for include file ieeefp.h -- Looking for include file ieeefp.h - found -- Looking for include file math.h -- Looking for include file math.h - found -- Looking for include file sys/types.h -- Looking for include file sys/types.h - found -- Looking for include file float.h -- Looking for include file float.h - found -- Looking for sqrt in m -- Looking for sqrt in m - found -- Found PythonInterp: /usr/local/bin/python3.9 (found version "3.9.17") -- Found PythonLibs: /usr/local/lib/libpython3.9.so (found version "3.9.17") -- ---------------------------------------------------------------------- libSBML version 5.19.0 ---------------------------------------------------------------------- More information and the latest version are available online at http://sbml.org/Software/libSBML Please report problems using the issue tracker at http://sbml.org/Software/libsbml/issue-tracker To contact the developers directly, email libsbml-team@googlegroups.com Configured on host 'main-i386-default-job-01' host type = FreeBSD host operating system = FreeBSD 14.0-CURRENT host CPU architecture = i386 General build flags: CC = /usr/bin/cc CXX = /usr/bin/c++ CPPFLAGS = -DLINUX CFLAGS = -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fno-strict-aliasing -fPIC CXXFLAGS = -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fno-strict-aliasing -fPIC LDFLAGS = -fstack-protector-strong XML parser library configuration: XML library = expat CPPFLAGS for XML = -I/wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/include LIBS for XML = /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/install_dependencies_freebsd-14.0-CURRENT-i386/lib/libexpat.a Other libSBML configuration settings: Installation $prefix = /usr/local -- Value of $LD_LIBRARY_PATH = -- Using SWIG = /usr/local/bin/swig (Version 4.1.1) -- Using Python = /usr/local/bin/python3.9 -- Using C++ namespace ('libsbml') = no -- -- Build examples = no -- -- -- Support for SBML Level 3 Packages: -- SBML 'arrays' package = OFF -- SBML 'comp' package = ON -- SBML 'distrib' package = OFF -- SBML 'dyn' package = OFF -- SBML 'fbc' package = ON -- SBML 'groups' package = ON -- SBML 'l3v2extendedmath' package = ON -- SBML 'layout' package = ON -- SBML 'multi' package = ON -- SBML 'qual' package = ON -- SBML 'render' package = ON -- SBML 'req' package = OFF -- SBML 'spatial' package = OFF -- -- Other potentially important settings: -- Compression support is enabled for .zip and .gz files -- Compression support is enabled for .bz2 files -- ---------------------------------------------------------------------- -- Configuring done (2.2s) -- Generating done (0.5s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_BUILD_PARALLEL_LEVEL WITH_STATIC_RUNTIME -- Build files have been written to: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/build/temp.freebsd-14.0-CURRENT-i386-cpython-39 cmake --build . --target binding_python_lib --config Release -- [ 0%] Building CXX object src/CMakeFiles/sbml-static.dir/sbml/packages/comp/extension/CompExtension.cpp.o In file included from /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_source/src/sbml/packages/comp/extension/CompExtension.cpp:36: In file included from /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_source/src/sbml/extension/SBMLExtensionRegister.h:64: In file included from /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_source/src/sbml/extension/SBMLExtension.h:143: In file included from /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_source/src/sbml/extension/SBasePluginCreatorBase.h:57: In file included from /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_source/src/sbml/SBMLDocument.h:307: In file included from /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_source/src/sbml/SBMLTransforms.h:57: In file included from /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_source/src/sbml/FunctionDefinition.h:141: /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/libsbml_source/src/sbml/ListOf.h:116:27: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'? struct IdEq : public std::unary_function ~~~~~^~~~~~~~~~~~~~ __unary_function /usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>; ^ 1 error generated. *** Error code 1 Stop. make[4]: stopped in /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/build/temp.freebsd-14.0-CURRENT-i386-cpython-39 *** Error code 1 Stop. make[3]: stopped in /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/build/temp.freebsd-14.0-CURRENT-i386-cpython-39 *** Error code 1 Stop. make[2]: stopped in /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/build/temp.freebsd-14.0-CURRENT-i386-cpython-39 *** Error code 1 Stop. make[1]: stopped in /wrkdirs/usr/ports/biology/py-python-libsbml/work-py39/python-libsbml-5.19.0/build/temp.freebsd-14.0-CURRENT-i386-cpython-39 error: command '/usr/local/bin/cmake' failed with exit code 1 *** Error code 1 Stop. make: stopped in /usr/ports/biology/py-python-libsbml