=>> Building biology/libsbml build started at Sun Nov 9 07:34:28 EST 2025 port directory: /usr/ports/biology/libsbml package name: libsbml-5.20.5_1 building for: FreeBSD pkg.DaveG.ca 15.0-ALPHA3 FreeBSD 15.0-ALPHA3 1500064 amd64 maintained by: sunpoet@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 1841 Aug 6 08:11 /usr/ports/biology/libsbml/Makefile Ports top last git commit: ec159283c191 Ports top unclean checkout: no Port dir last git commit: 06efb072e502 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500068 Jail OSVERSION: 1500064 Job Id: 02 ---Begin Environment--- SHELL=/bin/sh OSVERSION=1500064 UNAME_v=FreeBSD 15.0-ALPHA3 1500064 UNAME_r=15.0-ALPHA3 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/freebsd_15_c_x64-HEAD-ALL/ref LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM=tmux-256color OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 PWD=/usr/local/poudriere/data/.m/freebsd_15_c_x64-HEAD-ALL/02/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=freebsd_15_c_x64-HEAD-ALL SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/freebsd_15_c_x64-HEAD-ALL/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 libsbml-5.20.5_1: EXAMPLES=on: Build and/or install examples PYTHON=on: Python bindings or support RUBY=off: Ruby bindings or support ====> XML format or parser support: you have to select exactly one of them EXPAT=off: XML parser support via Expat LIBXML2=on: XML parser support via libxml2 XERCES=off: XML parser support via Xerces ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- sunpoet@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON="/usr/local/bin/python3.11" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/libsbml/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/libsbml/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/libsbml/work/.cache HOME=/wrkdirs/usr/ports/biology/libsbml/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/libsbml/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/libsbml/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/biology/libsbml/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/libsbml/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/libsbml/work/.cache HOME=/wrkdirs/usr/ports/biology/libsbml/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/libsbml/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/libsbml/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/biology/libsbml/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-DLIBICONV_PLUG" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 " CXXSTD=c++98 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-- PORTVERSION=5.20.5 PORTEXAMPLES="" EXAMPLES="" NO_EXAMPLES="@comment " EXPAT="@comment " NO_EXPAT="" LIBXML2="" NO_LIBXML2="@comment " PYTHON="" NO_PYTHON="@comment " RUBY="@comment " NO_RUBY="" XERCES="@comment " NO_XERCES="" CMAKE_BUILD_TYPE="release" GTK2_VERSION="2.10.0" GTK3_VERSION="3.0.0" GTK4_VERSION="4.0.0" PYTHON_INCLUDEDIR=include/python3.11 PYTHON_LIBDIR=lib/python3.11 PYTHON_PLATFORM=freebsd15 PYTHON_SITELIBDIR=lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_BASESUFFIX=311 PYTHON_TAG=.cpython-311 PYTHON_SOABI=.cpython-311 PYTHON_VER=3.11 PYTHON_BASEVER=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/libsbml" EXAMPLESDIR="share/examples/libsbml" DATADIR="share/libsbml" WWWDIR="www/libsbml" ETCDIR="etc/libsbml" --End PLIST_SUB-- --SUB_LIST-- EXAMPLES="" NO_EXAMPLES="@comment " EXPAT="@comment " NO_EXPAT="" LIBXML2="" NO_LIBXML2="@comment " PYTHON="" NO_PYTHON="@comment " RUBY="@comment " NO_RUBY="" XERCES="@comment " NO_XERCES="" 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_BASESUFFIX=311 PYTHON_TAG=.cpython-311 PYTHON_SOABI=.cpython-311 PYTHON_VER=3.11 PYTHON_BASEVER=3.11 PYTHON_VERSION=python3.11 PYTHON2="@comment " PYTHON3="" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/libsbml DOCSDIR=/usr/local/share/doc/libsbml EXAMPLESDIR=/usr/local/share/examples/libsbml WWWDIR=/usr/local/www/libsbml ETCDIR=/usr/local/etc/libsbml --End SUB_LIST-- ---Begin make.conf--- DEFAULT_VERSIONS+=pgsql=15 DEFAULT_VERSIONS+=php=82 DISABLE_LICENSES=yes SELECTED_OPTIONS+=OPENBLAS ARCHDEF=AMD64K10h64SSE3 USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles FORCE_PACKAGE=yes PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### #### DEFAULT_VERSIONS+=pgsql=15 DEFAULT_VERSIONS+=php=82 DISABLE_LICENSES=yes SELECTED_OPTIONS+=OPENBLAS ARCHDEF=AMD64K10h64SSE3 WITH_CCACHE_BUILD=yes CCACHE_DIR=/root/.ccache #### 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 pipebuf (-y) unlimited --End resource limits-- =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> libsbml-5.20.5_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.4.2_1.pkg [pkg.DaveG.ca] Installing pkg-2.4.2_1... [pkg.DaveG.ca] Extracting pkg-2.4.2_1: .......... done ===> libsbml-5.20.5_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of libsbml-5.20.5_1 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by libsbml-5.20.5_1 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by libsbml-5.20.5_1 for building => SHA256 Checksum OK for sbmlteam-libsbml-v5.20.5_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 ===> Fetching all distfiles required by libsbml-5.20.5_1 for building ===> Extracting for libsbml-5.20.5_1 => SHA256 Checksum OK for sbmlteam-libsbml-v5.20.5_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 libsbml-5.20.5_1 ===> Applying FreeBSD patches for libsbml-5.20.5_1 from /usr/ports/biology/libsbml/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> libsbml-5.20.5_1 depends on executable: swig - not found ===> Installing existing package /packages/All/swig-4.3.1.pkg [pkg.DaveG.ca] Installing swig-4.3.1... [pkg.DaveG.ca] `-- Installing pcre2-10.46... [pkg.DaveG.ca] `-- Extracting pcre2-10.46: .......... done [pkg.DaveG.ca] Extracting swig-4.3.1: .......... done ===> libsbml-5.20.5_1 depends on executable: swig - found ===> Returning to build of libsbml-5.20.5_1 ===> libsbml-5.20.5_1 depends on file: /usr/local/bin/cmake - not found ===> Installing existing package /packages/All/cmake-core-3.31.9.pkg [pkg.DaveG.ca] Installing cmake-core-3.31.9... [pkg.DaveG.ca] `-- Installing expat-2.7.3... [pkg.DaveG.ca] `-- Extracting expat-2.7.3: .......... done [pkg.DaveG.ca] `-- Installing jsoncpp-1.9.6_1... [pkg.DaveG.ca] `-- Extracting jsoncpp-1.9.6_1: .......... done [pkg.DaveG.ca] `-- Installing libidn2-2.3.8... [pkg.DaveG.ca] | `-- Installing indexinfo-0.3.1_1... [pkg.DaveG.ca] | `-- Extracting indexinfo-0.3.1_1: . done [pkg.DaveG.ca] | `-- Installing libunistring-1.4.1... [pkg.DaveG.ca] | `-- Extracting libunistring-1.4.1: .......... done [pkg.DaveG.ca] `-- Extracting libidn2-2.3.8: .......... done [pkg.DaveG.ca] `-- Installing libuv-1.51.0... [pkg.DaveG.ca] `-- Extracting libuv-1.51.0: .......... done [pkg.DaveG.ca] `-- Installing rhash-1.4.4_1... [pkg.DaveG.ca] | `-- Installing gettext-runtime-0.23.1... [pkg.DaveG.ca] | `-- Extracting gettext-runtime-0.23.1: .......... done [pkg.DaveG.ca] `-- Extracting rhash-1.4.4_1: .......... done [pkg.DaveG.ca] Extracting cmake-core-3.31.9: .......... done ===> libsbml-5.20.5_1 depends on file: /usr/local/bin/cmake - found ===> Returning to build of libsbml-5.20.5_1 ===> libsbml-5.20.5_1 depends on executable: ninja - not found ===> Installing existing package /packages/All/ninja-1.13.1,4.pkg [pkg.DaveG.ca] Installing ninja-1.13.1,4... [pkg.DaveG.ca] `-- Installing python311-3.11.14... [pkg.DaveG.ca] | `-- Installing libffi-3.5.1... [pkg.DaveG.ca] | `-- Extracting libffi-3.5.1: .......... done [pkg.DaveG.ca] | `-- Installing mpdecimal-4.0.1... [pkg.DaveG.ca] | `-- Extracting mpdecimal-4.0.1: .......... done [pkg.DaveG.ca] | `-- Installing readline-8.3.1... [pkg.DaveG.ca] | `-- Extracting readline-8.3.1: .......... done [pkg.DaveG.ca] `-- Extracting python311-3.11.14: .......... done [pkg.DaveG.ca] Extracting ninja-1.13.1,4: ..... done ===== Message from python311-3.11.14: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py311-gdbm databases/py-gdbm@py311 py311-sqlite3 databases/py-sqlite3@py311 py311-tkinter x11-toolkits/py-tkinter@py311 ===> libsbml-5.20.5_1 depends on executable: ninja - found ===> Returning to build of libsbml-5.20.5_1 ===> libsbml-5.20.5_1 depends on file: /usr/local/bin/python3.11 - found ===> libsbml-5.20.5_1 depends on file: /usr/local/bin/ccache - not found ===> Installing existing package /packages/All/ccache-3.7.12_8.pkg [pkg.DaveG.ca] Installing ccache-3.7.12_8... [pkg.DaveG.ca] Extracting ccache-3.7.12_8: ......... done Create compiler links... create symlink for cc create symlink for cc (world) create symlink for c++ create symlink for c++ (world) create symlink for CC create symlink for CC (world) create symlink for clang create symlink for clang (world) create symlink for clang++ create symlink for clang++ (world) ===== Message from ccache-3.7.12_8: -- NOTE: Please read /usr/local/share/doc/ccache/ccache-howto-freebsd.txt for information on using ccache with FreeBSD ports and src. ===> libsbml-5.20.5_1 depends on file: /usr/local/bin/ccache - found ===> Returning to build of libsbml-5.20.5_1 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> libsbml-5.20.5_1 depends on shared library: libxml2.so - not found ===> Installing existing package /packages/All/libxml2-2.14.6.pkg [pkg.DaveG.ca] Installing libxml2-2.14.6... [pkg.DaveG.ca] Extracting libxml2-2.14.6: .......... done ===> libsbml-5.20.5_1 depends on shared library: libxml2.so - found (/usr/local/lib/libxml2.so) ===> Returning to build of libsbml-5.20.5_1 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for libsbml-5.20.5_1 ===> FreeBSD 10 autotools fix applied to /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/config/libtool.m4 ===> FreeBSD 10 autotools fix applied to /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/configure ===> Performing out-of-source build /bin/mkdir -p /wrkdirs/usr/ports/biology/libsbml/work/.build CMake Warning: Ignoring extra path from command line: "/wrkdirs/usr/ports/biology/libsbml/work/.build/WITH_SWIG" -- The C compiler identification is Clang 19.1.7 -- The CXX compiler identification is Clang 19.1.7 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/local/libexec/ccache/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/local/libexec/ccache/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Check for working C compiler: /usr/local/libexec/ccache/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Found SWIG: /usr/local/bin/swig (found version "4.3.1") -- Could NOT find PkgConfig (missing: PKG_CONFIG_EXECUTABLE) CMake Warning at CMakeModules/FindZLIB.cmake:89 (message): The chosen zlib library does not appear to be valid because it is missing certain required symbols. Please check that is the correct zlib library. For details about the error, please see /CMakeFiles/CMakeError.log Call Stack (most recent call first): CMakeModules/FindLIBXML.cmake:69 (find_package) CMakeLists.txt:458 (find_package) -- Looking for sin in m -- Looking for sin in m - found -- Performing Test LIBXML_LIBXML_TEST -- Performing Test LIBXML_LIBXML_TEST - Success -- LIBXML_LIBXML_TEST = 1 -- Found LIBXML: /usr/local/lib/libxml2.so (found version "2.14.6") -- Looking for BZ2_bzCompressInit in /usr/lib/libbz2.so -- Looking for BZ2_bzCompressInit in /usr/lib/libbz2.so - found -- Found BZ2: /usr/lib/libbz2.so (found version "1.0.8") -- Found ZLIB: /usr/lib/libz.so -- 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 CMake Warning (dev) at src/bindings/python/CMakeLists.txt:36 (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. -- Found PythonInterp: /usr/local/bin/python3.11 (found version "3.11.14") CMake Warning (dev) at src/bindings/python/CMakeLists.txt:41 (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. -- Found PythonLibs: /usr/local/lib/libpython3.11.so (found version "3.11.14") -- ---------------------------------------------------------------------- libSBML version 5.20.5 ---------------------------------------------------------------------- More information and the latest version are available online at https://sbml.org/software/libsbml/ Please report problems using the issue tracker at https://github.com/sbmlteam/libsbml/issues To contact the developers directly, email libsbml-team@googlegroups.com Configured on host 'pkg.DaveG.ca' host type = FreeBSD host operating system = FreeBSD 15.0-ALPHA3 host CPU architecture = amd64 General build flags: CC = /usr/local/libexec/ccache/cc CXX = /usr/local/libexec/ccache/c++ CPPFLAGS = -DLINUX CFLAGS = -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -fno-strict-aliasing -fPIC CXXFLAGS = -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC LDFLAGS = XML parser library configuration: XML library = libxml2 CPPFLAGS for XML = -I/usr/local/include/libxml2 LIBS for XML = /usr/local/lib/libxml2.so Other libSBML configuration settings: Installation $prefix = /usr/local -- Value of $LD_LIBRARY_PATH = -- Using SWIG = /usr/local/bin/swig (Version 4.3.1) -- Using Python = /usr/local/bin/python3.11 -- Using C++ namespace ('libsbml') = no -- -- Build examples = yes -- -- -- Support for SBML Level 3 Packages: -- SBML 'arrays' package = OFF -- SBML 'comp' package = OFF -- SBML 'distrib' package = OFF -- SBML 'dyn' package = OFF -- SBML 'fbc' package = OFF -- SBML 'groups' package = OFF -- SBML 'l3v2extendedmath' package = ON -- SBML 'layout' package = OFF -- SBML 'multi' package = OFF -- SBML 'qual' package = OFF -- SBML 'render' package = OFF -- 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 (6.9s) -- Generating done (0.2s) CMake Warning: Manually-specified variables were not used by the project: BOOST_PYTHON_SUFFIX CMAKE_COLOR_MAKEFILE CMAKE_MODULE_LINKER_FLAGS CMAKE_VERBOSE_MAKEFILE FETCHCONTENT_FULLY_DISCONNECTED ICONV_INCLUDE_DIR ICONV_LIBRARIES ICONV_LIBRARY LIBICONV_INCLUDE_DIR LIBICONV_LIBRARIES Python3_EXECUTABLE Python_EXECUTABLE THREADS_HAVE_PTHREAD_ARG -- Build files have been written to: /wrkdirs/usr/ports/biology/libsbml/work/.build =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for libsbml-5.20.5_1 [ 0% 64/635] /usr/local/libexec/ccache/c++ -DLIBSBML_COMPILED_IN_SRC -DLIBSBML_WITH_THREADSAFE_PARSER=1 -DLINUX -DUSE_BZ2 -DUSE_L3V2EXTENDEDMATH -DUSE_LIBXML -DUSE_ZLIB -Dsbml_EXPORTS 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[-Wswitch] 3730 | switch (mType) | ^~~~~ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/math/ASTNode.cpp:3749:15: warning: 154 enumeration values not handled in switch: 'AST_MINUS', 'AST_DIVIDE', 'AST_POWER'... [-Wswitch] 3749 | switch (mType) | ^~~~~ 2 warnings generated. 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-I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/packages/l3v2extendedmath/validator/constraints -isystem /usr/local/include/libxml2 -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -fPIC -MD -MT src/CMakeFiles/sbml.dir/sbml/compress/ioapi_mem.c.o -MF src/CMakeFiles/sbml.dir/sbml/compress/ioapi_mem.c.o.d -o src/CMakeFiles/sbml.dir/sbml/compress/ioapi_mem.c.o -c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:35:18: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 35 | voidpf ZCALLBACK fopen_mem_func (opaque, filename, mode) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:62:18: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 62 | voidpf ZCALLBACK fopendisk_mem_func (opaque, stream, number_disk, mode) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:72:17: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 72 | uLong ZCALLBACK fread_mem_func (opaque, stream, buf, size) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:90:17: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 90 | uLong ZCALLBACK fwrite_mem_func (opaque, stream, buf, size) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:126:16: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 126 | long ZCALLBACK ftell_mem_func (opaque, stream) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:134:16: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 134 | long ZCALLBACK fseek_mem_func (opaque, stream, offset, origin) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:163:15: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 163 | int ZCALLBACK fclose_mem_func (opaque, stream) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:171:15: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 171 | int ZCALLBACK ferror_mem_func (opaque, stream) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:179:6: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 179 | void fill_memory_filefunc (pzlib_filefunc_def, ourmem) | ^ 9 warnings generated. 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-fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -std=gnu++11 -MD -MT src/CMakeFiles/sbml-static.dir/sbml/math/ASTNode.cpp.o -MF src/CMakeFiles/sbml-static.dir/sbml/math/ASTNode.cpp.o.d -o src/CMakeFiles/sbml-static.dir/sbml/math/ASTNode.cpp.o -c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/math/ASTNode.cpp /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/math/ASTNode.cpp:3730:13: warning: 152 enumeration values not handled in switch: 'AST_TIMES', 'AST_PLUS', 'AST_INTEGER'... [-Wswitch] 3730 | switch (mType) | ^~~~~ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/math/ASTNode.cpp:3749:15: warning: 154 enumeration values not handled in switch: 'AST_MINUS', 'AST_DIVIDE', 'AST_POWER'... [-Wswitch] 3749 | switch (mType) | ^~~~~ 2 warnings generated. 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/usr/local/include/libxml2 -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -std=gnu++11 -MD -MT src/CMakeFiles/sbml-static.dir/sbml/validator/constraints/LambdaMathCheck.cpp.o -MF src/CMakeFiles/sbml-static.dir/sbml/validator/constraints/LambdaMathCheck.cpp.o.d -o src/CMakeFiles/sbml-static.dir/sbml/validator/constraints/LambdaMathCheck.cpp.o -c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/validator/constraints/LambdaMathCheck.cpp [ 60% 449/635] /usr/local/libexec/ccache/c++ -DLIBSBML_COMPILED_IN_SRC -DLIBSBML_WITH_THREADSAFE_PARSER=1 -DLINUX -DUSE_BZ2 -DUSE_L3V2EXTENDEDMATH -DUSE_LIBXML -DUSE_ZLIB -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/src/sbml -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/src -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src 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src/CMakeFiles/sbml-static.dir/sbml/validator/constraints/LogicalArgsMathCheck.cpp.o -MF src/CMakeFiles/sbml-static.dir/sbml/validator/constraints/LogicalArgsMathCheck.cpp.o.d -o src/CMakeFiles/sbml-static.dir/sbml/validator/constraints/LogicalArgsMathCheck.cpp.o -c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/validator/constraints/LogicalArgsMathCheck.cpp [ 60% 450/635] /usr/local/libexec/ccache/c++ -DLIBSBML_COMPILED_IN_SRC -DLIBSBML_WITH_THREADSAFE_PARSER=1 -DLINUX -DUSE_BZ2 -DUSE_L3V2EXTENDEDMATH -DUSE_LIBXML -DUSE_ZLIB -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/src/sbml -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/src -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/packages/l3v2extendedmath/common 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-I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/packages/l3v2extendedmath/validator/constraints -isystem /usr/local/include/libxml2 -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DNDEBUG -MD -MT src/CMakeFiles/sbml-static.dir/sbml/compress/ioapi_mem.c.o -MF src/CMakeFiles/sbml-static.dir/sbml/compress/ioapi_mem.c.o.d -o src/CMakeFiles/sbml-static.dir/sbml/compress/ioapi_mem.c.o -c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:35:18: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 35 | voidpf ZCALLBACK fopen_mem_func (opaque, filename, mode) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:62:18: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 62 | voidpf ZCALLBACK fopendisk_mem_func (opaque, stream, number_disk, mode) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:72:17: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 72 | uLong ZCALLBACK fread_mem_func (opaque, stream, buf, size) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:90:17: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 90 | uLong ZCALLBACK fwrite_mem_func (opaque, stream, buf, size) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:126:16: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 126 | long ZCALLBACK ftell_mem_func (opaque, stream) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:134:16: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 134 | long ZCALLBACK fseek_mem_func (opaque, stream, offset, origin) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:163:15: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 163 | int ZCALLBACK fclose_mem_func (opaque, stream) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:171:15: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 171 | int ZCALLBACK ferror_mem_func (opaque, stream) | ^ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/compress/ioapi_mem.c:179:6: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype] 179 | void fill_memory_filefunc (pzlib_filefunc_def, ourmem) | ^ 9 warnings generated. 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/usr/local/include/libxml2 -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -std=gnu++11 -MD -MT src/CMakeFiles/sbml-static.dir/sbml/validator/constraints/CompartmentOutsideCycles.cpp.o -MF src/CMakeFiles/sbml-static.dir/sbml/validator/constraints/CompartmentOutsideCycles.cpp.o.d -o src/CMakeFiles/sbml-static.dir/sbml/validator/constraints/CompartmentOutsideCycles.cpp.o -c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/validator/constraints/CompartmentOutsideCycles.cpp [ 61% 453/635] /usr/local/libexec/ccache/c++ -DLIBSBML_COMPILED_IN_SRC -DLIBSBML_WITH_THREADSAFE_PARSER=1 -DLINUX -DUSE_BZ2 -DUSE_L3V2EXTENDEDMATH -DUSE_LIBXML -DUSE_ZLIB -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/src/sbml -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/src 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-I/wrkdirs/usr/ports/biology/libsbml/work/.build/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/examples/c++ -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/include -isystem /usr/local/include/libxml2 -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -std=gnu++11 -MD -MT examples/c++/CMakeFiles/example_cpp_stripPackage.dir/stripPackage.cpp.o -MF examples/c++/CMakeFiles/example_cpp_stripPackage.dir/stripPackage.cpp.o.d -o examples/c++/CMakeFiles/example_cpp_stripPackage.dir/stripPackage.cpp.o -c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/examples/c++/stripPackage.cpp [ 96% 624/635] : && /usr/local/libexec/ccache/c++ -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -Xlinker --dependency-file=examples/c++/CMakeFiles/example_cpp_printRegisteredPackages.dir/link.d examples/c++/CMakeFiles/example_cpp_printRegisteredPackages.dir/printRegisteredPackages.cpp.o examples/c++/CMakeFiles/example_cpp_printRegisteredPackages.dir/util.c.o -o examples/c++/printRegisteredPackages -Wl,-rpath,/usr/local/lib src/libsbml-static.a /usr/lib/libbz2.so /usr/local/lib/libxml2.so /usr/lib/libz.so -lc -lm && : [ 96% 624/635] /usr/local/libexec/ccache/c++ -DLIBSBML_COMPILED_IN_SRC -DLIBSBML_WITH_THREADSAFE_PARSER=1 -DLINUX -DUSE_BZ2 -DUSE_L3V2EXTENDEDMATH -DUSE_LIBXML -DUSE_ZLIB -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/examples/c++ -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/include 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[ 97% 629/635] : && /usr/local/libexec/ccache/c++ -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -Xlinker --dependency-file=examples/c++/CMakeFiles/example_cpp_stripPackage.dir/link.d examples/c++/CMakeFiles/example_cpp_stripPackage.dir/stripPackage.cpp.o examples/c++/CMakeFiles/example_cpp_stripPackage.dir/util.c.o -o examples/c++/stripPackage -Wl,-rpath,/usr/local/lib src/libsbml-static.a /usr/lib/libbz2.so /usr/local/lib/libxml2.so /usr/lib/libz.so -lc -lm && : [ 97% 629/635] : && /usr/local/libexec/ccache/c++ -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -Xlinker 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-DLIBSBML_WITH_THREADSAFE_PARSER=1 -DLINUX -DUSE_BZ2 -DUSE_L3V2EXTENDEDMATH -DUSE_LIBXML -DUSE_ZLIB -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/examples/c++ -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/include -isystem /usr/local/include/libxml2 -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -std=gnu++11 -MD -MT examples/c++/CMakeFiles/example_cpp_translateMath.dir/translateMath.cpp.o -MF examples/c++/CMakeFiles/example_cpp_translateMath.dir/translateMath.cpp.o.d -o examples/c++/CMakeFiles/example_cpp_translateMath.dir/translateMath.cpp.o -c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/examples/c++/translateMath.cpp /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/examples/c++/translateMath.cpp:87:12: warning: comparison of array 'line' not equal to a null pointer is always true [-Wtautological-pointer-compare] 87 | while (line != 0) | ^~~~ ~ /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/examples/c++/translateMath.cpp:113:12: warning: comparison of array 'line' not equal to a null pointer is always true [-Wtautological-pointer-compare] 113 | } while (line != 0); | ^~~~ ~ 2 warnings generated. [ 99% 632/635] : && /usr/local/libexec/ccache/c++ -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -Xlinker --dependency-file=examples/c++/CMakeFiles/example_cpp_rngvalidator.dir/link.d examples/c++/CMakeFiles/example_cpp_rngvalidator.dir/rngvalidator.cpp.o examples/c++/CMakeFiles/example_cpp_rngvalidator.dir/util.c.o -o examples/c++/rngvalidator -Wl,-rpath,/usr/local/lib src/libsbml-static.a /usr/local/lib/libxml2.so -lc -lm /usr/lib/libbz2.so /usr/lib/libz.so && : [ 99% 632/635] : && /usr/local/libexec/ccache/c++ -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -Xlinker --dependency-file=examples/c++/CMakeFiles/example_cpp_translateMath.dir/link.d examples/c++/CMakeFiles/example_cpp_translateMath.dir/translateMath.cpp.o examples/c++/CMakeFiles/example_cpp_translateMath.dir/util.c.o -o examples/c++/translateMath -Wl,-rpath,/usr/local/lib src/libsbml-static.a /usr/lib/libbz2.so /usr/local/lib/libxml2.so /usr/lib/libz.so -lc -lm && : [ 99% 632/635] /usr/local/libexec/ccache/c++ -DLIBSBML_COMPILED_IN_SRC -DLIBSBML_WITH_THREADSAFE_PARSER=1 -DLINUX -DUSE_BZ2 -DUSE_L3V2EXTENDEDMATH -DUSE_LIBXML -DUSE_ZLIB -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/examples/c++ -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/include -isystem /usr/local/include/libxml2 -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -std=gnu++11 -MD -MT examples/c++/CMakeFiles/example_cpp_validateSBML.dir/validateSBML.cpp.o -MF examples/c++/CMakeFiles/example_cpp_validateSBML.dir/validateSBML.cpp.o.d -o examples/c++/CMakeFiles/example_cpp_validateSBML.dir/validateSBML.cpp.o -c /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/examples/c++/validateSBML.cpp [ 99% 633/635] : && /usr/local/libexec/ccache/c++ -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -Xlinker --dependency-file=examples/c++/CMakeFiles/example_cpp_validateSBML.dir/link.d examples/c++/CMakeFiles/example_cpp_validateSBML.dir/validateSBML.cpp.o examples/c++/CMakeFiles/example_cpp_validateSBML.dir/util.c.o -o examples/c++/validateSBML -Wl,-rpath,/usr/local/lib src/libsbml-static.a /usr/lib/libbz2.so /usr/local/lib/libxml2.so /usr/lib/libz.so -lc -lm && : [ 99% 633/635] cd /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python && /usr/local/bin/python3.11 /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/../swig/swigdoc.py --language python --top /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5 --master /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/../swig/libsbml.i --output /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/pydoc-doxygen.i --define USE_L3V2EXTENDEDMATH --define USE_L3V2EXTENDEDMATH && /usr/local/bin/python3.11 /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/generate-class-name-list.py /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src > /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/class-list.txt && /usr/local/bin/python3.11 /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/generate-converters-list.py /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/class-list.txt > /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/libsbml-converters.txt && /usr/local/bin/python3.11 /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/doc-converter/rewrite_pydoc.py -f /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/pydoc-doxygen.i -o /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/pydoc-normal.i -i /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/../../../docs/src/common-text -g /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/../../../docs/src/common-graphics && /usr/local/bin/cmake -E rename pydoc-doxygen.i pydoc.i && /usr/local/bin/swig -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/../swig/ -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/include -DGENERATING_DOCS -c++ -python -DLIBSBML_COMPILED_IN_SRC -DUSE_LIBXML -DUSE_BZ2 -DUSE_ZLIB -DUSE_L3V2EXTENDEDMATH -DUSE_L3V2EXTENDEDMATH -o /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/libsbml_wrap.cpp /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/libsbml.i && /usr/local/bin/cmake -E rename pydoc.i pydoc-doxygen.i && /usr/local/bin/cmake -E rename libsbml.py libsbml-doxygen.py && /usr/local/bin/cmake -E rename pydoc-normal.i pydoc.i && /usr/local/bin/swig -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/../swig/ -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/include -c++ -python -DLIBSBML_COMPILED_IN_SRC -DUSE_LIBXML -DUSE_BZ2 -DUSE_ZLIB -DUSE_L3V2EXTENDEDMATH -DUSE_L3V2EXTENDEDMATH -o /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/libsbml_wrap.cpp /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/libsbml.i && /usr/local/bin/cmake -E rename pydoc.i pydoc-normal.i && /usr/local/bin/cmake -DCUR_BIN_DIRECTORY="/wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python" -DVERSION="5.20.5" -P /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/add_version.cmake && /usr/local/bin/cmake -DBIN_DIRECTORY="/wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python" -DSRC_DIRECTORY="/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python" -DPYTHON_USE_API2_WARNINGS="OFF" -P /wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/patch-python.cmake Warning: unable to expand @htmlinclude 'pkg-marker-l3v2extendedmath.html' Warning: unable to expand @htmlinclude 'pkg-marker-l3v2extendedmath.html' Warning: unable to expand @htmlinclude 'pkg-marker-l3v2extendedmath.html' Warning: unable to expand @htmlinclude 'pkg-marker-l3v2extendedmath.html' Python: Add Version to generated file -- Patching Python wrapper [ 99% 634/635] /usr/local/libexec/ccache/c++ -DLIBSBML_COMPILED_IN_SRC -DLIBSBML_WITH_THREADSAFE_PARSER=1 -DLINUX -DUSE_BZ2 -DUSE_L3V2EXTENDEDMATH -DUSE_LIBXML -DUSE_ZLIB -Dbinding_python_lib_EXPORTS -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/src/sbml -I/wrkdirs/usr/ports/biology/libsbml/work/.build/src/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/packages/l3v2extendedmath/common -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/packages/l3v2extendedmath/extension -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/packages/l3v2extendedmath/sbml -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/packages/l3v2extendedmath/validator -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/sbml/packages/l3v2extendedmath/validator/constraints -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/src/bindings/python/../swig -I/wrkdirs/usr/ports/biology/libsbml/work/libsbml-5.20.5/include -I/usr/local/include/python3.11 -isystem /usr/local/include/libxml2 -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -std=gnu++11 -fPIC -MD -MT src/bindings/python/CMakeFiles/binding_python_lib.dir/libsbml_wrap.cpp.o -MF src/bindings/python/CMakeFiles/binding_python_lib.dir/libsbml_wrap.cpp.o.d -o src/bindings/python/CMakeFiles/binding_python_lib.dir/libsbml_wrap.cpp.o -c /wrkdirs/usr/ports/biology/libsbml/work/.build/src/bindings/python/libsbml_wrap.cpp [100% 635/635] : && /usr/local/libexec/ccache/c++ -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -fno-strict-aliasing -fPIC -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -fno-strict-aliasing -DLIBICONV_PLUG -std=c++98 -DNDEBUG -Xlinker --dependency-file=src/bindings/python/CMakeFiles/binding_python_lib.dir/link.d -shared -Wl,-soname,_libsbml.so -o src/bindings/python/_libsbml.so src/bindings/python/CMakeFiles/binding_python_lib.dir/libsbml_wrap.cpp.o -Wl,-rpath,/usr/local/lib: src/libsbml-static.a /usr/local/lib/libpython3.11.so /usr/lib/libbz2.so /usr/local/lib/libxml2.so /usr/lib/libz.so -lc -lm && : =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> libsbml-5.20.5_1 depends on file: /usr/local/bin/python3.11 - found =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Staging for libsbml-5.20.5_1 ===> Generating temporary packing list [ 0% 1/1] cd /wrkdirs/usr/ports/biology/libsbml/work/.build && /usr/local/bin/cmake -DCMAKE_INSTALL_DO_STRIP=1 -P cmake_install.cmake -- Install configuration: "Release" -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/cmake/Modules/FindLIBSBML.cmake -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/common/L3v2extendedmathExtensionTypes.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/common/l3v2extendedmathfwd.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/extension/L3v2extendedmathASTPlugin.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/extension/L3v2extendedmathExtension.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/extension/L3v2extendedmathSBMLDocumentPlugin.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/validator/L3v2extendedmathMathMLConsistencyValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/validator/L3v2extendedmathSBMLError.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/validator/L3v2extendedmathSBMLErrorTable.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/validator/L3v2extendedmathUnitConsistencyValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/validator/L3v2extendedmathValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/validator/constraints/L3v2EMArgumentsUnitsCheck.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/packages/l3v2extendedmath/validator/constraints/L3v2EMNumberArgsMathCheck.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/annotation/CVTerm.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/annotation/Date.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/annotation/ModelCreator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/annotation/ModelHistory.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/annotation/RDFAnnotation.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/annotation/RDFAnnotationParser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/common-documentation.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/common-sbmlerror-codes.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/common.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/extern.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/libsbml-config.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/libsbml-version.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/operationReturnValues.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/sbmlfwd.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/CompressCommon.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/InputDecompressor.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/OutputCompressor.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/bzfstream.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/crypt.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/ioapi.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/ioapi_mem.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/iowin32.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/unzip.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/zfstream.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/zip.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/compress/zipfstream.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/ConversionOption.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/ConversionProperties.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/ExpressionAnalyser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLConverterRegister.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLConverterRegistry.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLConverterTypes.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLFunctionDefinitionConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLIdConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLInferUnitsConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLInitialAssignmentConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLLevel1Version1Converter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLLevelVersionConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLLocalParameterConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLRateOfConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLRateRuleConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLReactionConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLRuleConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLStripPackageConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/conversion/SBMLUnitsConverter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/ASTBasePlugin.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/ISBMLExtensionNamespaces.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBMLDocumentPlugin.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBMLDocumentPluginNotRequired.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBMLExtension.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBMLExtensionException.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBMLExtensionNamespaces.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBMLExtensionRegister.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBMLExtensionRegistry.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBaseExtensionPoint.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBasePlugin.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBasePluginCreator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/SBasePluginCreatorBase.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/html2md/html2md.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/html2md/table.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/blockparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/breaklineparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/checklistparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/codeblockparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/emphasizedparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/headlineparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/horizontallineparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/htmlparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/imageparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/inlinecodeparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/italicparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/latexblockparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/lineparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/linkparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/orderedlistparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/paragraphparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/parser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/parserconfig.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/quoteparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/strikethroughparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/strongparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/tableparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/maddy/unorderedlistparser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/math/ASTNode.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/math/ASTNodeType.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/math/DefinitionURLRegistry.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/math/FormulaFormatter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/math/FormulaParser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/math/FormulaTokenizer.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/math/L3FormulaFormatter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/math/L3Parser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/math/L3ParserSettings.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/math/MathML.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/units/FormulaUnitsData.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/units/UnitFormulaFormatter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/units/UnitKindList.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/CallbackRegistry.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/ElementFilter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/IdFilter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/IdList.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/IdentifierTransformer.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/List.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/MathFilter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/MetaIdFilter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/PrefixTransformer.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/Stack.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/StringBuffer.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/memory.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/util/util.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/ConsistencyValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/ConstraintMacros.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/IdentifierConsistencyValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/InternalConsistencyValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/L1CompatibilityValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/L2v1CompatibilityValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/L2v2CompatibilityValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/L2v3CompatibilityValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/L2v4CompatibilityValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/L3v1CompatibilityValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/L3v2CompatibilityValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/MathMLConsistencyValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/ModelingPracticeValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/OverdeterminedValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/SBMLExternalValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/SBMLInternalValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/SBMLValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/SBOConsistencyValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/StrictUnitConsistencyValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/UnitConsistencyValidator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/VConstraint.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/validator/Validator.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/ExpatAttributes.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/ExpatHandler.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/ExpatParser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/LibXMLAttributes.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/LibXMLHandler.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/LibXMLNamespaces.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/LibXMLParser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/LibXMLTranscode.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLAttributes.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLBuffer.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLConstructorException.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLError.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLErrorLog.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLExtern.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLFileBuffer.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLHandler.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLInputStream.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLLogOverride.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLMemoryBuffer.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLNamespaces.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLNode.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLOutputStream.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLParser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLToken.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLTokenizer.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XMLTriple.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XercesAttributes.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XercesHandler.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XercesNamespaces.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XercesParser.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/xml/XercesTranscode.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/AlgebraicRule.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/AssignmentRule.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Compartment.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/CompartmentType.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Constraint.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Delay.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Event.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/EventAssignment.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/ExpectedAttributes.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/FunctionDefinition.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/InitialAssignment.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/KineticLaw.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/ListOf.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/LocalParameter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Model.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/ModifierSpeciesReference.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Parameter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Priority.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/RateRule.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Reaction.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Rule.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLConstructorException.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLDocument.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLError.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLErrorLog.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLErrorTable.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLNamespaces.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLReader.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLTransforms.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLTypeCodes.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLTypes.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLVisitor.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBMLWriter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBO.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SBase.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SimpleSpeciesReference.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Species.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SpeciesReference.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SpeciesType.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/StoichiometryMath.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/SyntaxChecker.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Trigger.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/Unit.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/UnitDefinition.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/UnitKind.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/libsbml-config-common.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/libsbml-config-packages.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/libsbml-namespace.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/libsbml-package.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/common/libsbml-version.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/include/sbml/extension/RegisterExtensions.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/libsbml.so.5.20.5 -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/libsbml.so.5 -- Set non-toolchain portion of runtime path of "/wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/libsbml.so.5.20.5" to "/usr/local/lib" -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/libsbml.so -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/cmake/sbml-targets.cmake -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/cmake/sbml-targets-release.cmake -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/cmake/sbml-config-version.cmake -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/cmake/sbml-config.cmake -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/libsbml-static.a -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/cmake/sbml-static-targets.cmake -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/cmake/sbml-static-targets-release.cmake -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/cmake/sbml-static-config-version.cmake -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/cmake/sbml-static-config.cmake -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/python3.11/site-packages/libsbml/_libsbml.so -- Set non-toolchain portion of runtime path of "/wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/python3.11/site-packages/libsbml/_libsbml.so" to "/usr/local/lib" -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/python3.11/site-packages/libsbml.pth -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/python3.11/site-packages/libsbml/libsbml.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/README.txt -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/FormulaGraphvizFormatter.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/addCVTerms.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/addModelHistory.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/addingEvidenceCodes_1.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/addingEvidenceCodes_2.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/appendAnnotation.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/convertSBML.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/createExampleSBML.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/drawMath.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/echoSBML.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/evaluateMath.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/printAnnotation.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/printMath.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/printNotes.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/printRegisteredPackages.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/printSBML.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/printSupported.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/printUnits.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/promoteParameters.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/readSBML.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/stripPackage.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/translateL3Math.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/translateMath.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/unsetAnnotation.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/unsetNotes.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/util.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/util.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c/validateSBML.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/addCVTerms.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/addCustomValidator.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/addModelHistory.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/addingEvidenceCodes_1.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/addingEvidenceCodes_2.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/appendAnnotation.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/callExternalValidator.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/convertReactions.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/convertSBML.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/convertToL1V1.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/createExampleSBML.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/echoSBML.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/getAllElementsWithNotes.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/inferReactions.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/inferUnits.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/inlineFunctionDefintions.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/printAnnotation.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/printMath.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/printNotes.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/printRegisteredPackages.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/printSBML.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/printSupported.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/printUnits.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/promoteParameters.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/readSBML.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/renameSId.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/rngvalidator.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/setAnnotation.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/setIdFromNames.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/setNamesFromIds.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/stripPackage.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/translateL3Math.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/translateMath.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/unsetAnnotation.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/unsetNotes.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/util.c -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/util.h -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/c++/validateSBML.cpp -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/addCVTerms.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/addCustomValidator.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/addModelHistory.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/add_function_definition.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/addingEvidenceCodes_1.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/addingEvidenceCodes_2.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/appendAnnotation.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/append_to_note.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/callExternalValidator.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/convertSBML.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/createExampleSBML.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/createSimpleModel.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/echoSBML.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/evaluateCustomMath.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/getAllElementsWithNotes.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/inlineFunctionDefinitions.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/inlineInitialAssignments.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/printAnnotation.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/printMath.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/printNotes.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/printRegisteredPackages.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/printSBML.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/printUnits.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/printsupported.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/promoteParameters.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/readSBML.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/renameSId.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/replaceOneFD.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/setIdFromNames.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/setNamesFromIds.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/stringInput.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/stripPackage.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/translateMath.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/unsetAnnotation.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/unsetNotes.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/validateSBML.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/python/validateSBMLWithCallback.py -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/algebraicrules.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/assignmentrules.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/boundarycondition.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/delay.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/dimerization.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/enzymekinetics.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/events.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/functiondef.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/multicomp.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/overdetermined.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/twodimensional.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-2/units.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/algebraicrules.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/assignmentrules.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/boundarycondition.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/conversionfactor1.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/conversionfactor2.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/delay.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/dimerization.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/enzymekineticext.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/enzymekinetics.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/events.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/fullydeterminedevent.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/functiondef.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/membrane.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/multicomp.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/overdetermined.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/twoalgebraicrules.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples/sample-models/from-spec/level-3/twodimensional.xml -- Installing: /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/lib/pkgconfig/libsbml.pc /bin/mv /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/libsbmlexamples /wrkdirs/usr/ports/biology/libsbml/work/stage/usr/local/share/examples/libsbml ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===== env: 'PKG_NOTES=build_timestamp ports_top_git_hash ports_top_checkout_unclean port_git_hash port_checkout_unclean built_by' 'PKG_NOTE_build_timestamp=2025-11-09T12:34:28+0000' 'PKG_NOTE_ports_top_git_hash=ec159283c191' 'PKG_NOTE_ports_top_checkout_unclean=no' 'PKG_NOTE_port_git_hash=06efb072e502' 'PKG_NOTE_port_checkout_unclean=no' 'PKG_NOTE_built_by=poudriere-git-3.4.2' NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building packages for libsbml-5.20.5_1 ===> Building libsbml-5.20.5_1 =========================================================================== =>> Cleaning up wrkdir ===> Cleaning for libsbml-5.20.5_1 build of biology/libsbml | libsbml-5.20.5_1 ended at Sun Nov 9 07:37:53 EST 2025 build time: 00:03:25