=>> Building science/smoldyn build started at Thu Mar 12 18:21:23 EDT 2026 port directory: /usr/ports/science/smoldyn package name: smoldyn-2.75 building for: FreeBSD pkg.DaveG.ca 14.4-RELEASE FreeBSD 14.4-RELEASE 1404000 amd64 maintained by: yuri@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 1621 Aug 25 2025 /usr/ports/science/smoldyn/Makefile Ports top last git commit: 26b198eb3ee3 Ports top unclean checkout: no Port dir last git commit: e7458c8b3da2 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500068 Jail OSVERSION: 1404000 Job Id: 10 ---Begin Environment--- SHELL=/bin/sh OSVERSION=1404000 UNAME_v=FreeBSD 14.4-RELEASE 1404000 UNAME_r=14.4-RELEASE 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_14_4_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_14_4_x64-HEAD-ALL/10/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=freebsd_14_4_x64-HEAD-ALL SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/freebsd_14_4_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 smoldyn-2.75: PYTHON=off: Python bindings or support ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- yuri@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON="/usr/local/bin/python3.11" XDG_DATA_HOME=/wrkdirs/usr/ports/science/smoldyn/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/smoldyn/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/smoldyn/work/.cache HOME=/wrkdirs/usr/ports/science/smoldyn/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/smoldyn/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/smoldyn/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CMAKE_PREFIX_PATH="/usr/local" --End CONFIGURE_ENV-- --MAKE_ENV-- NINJA_STATUS="[%p %s/%t] " XDG_DATA_HOME=/wrkdirs/usr/ports/science/smoldyn/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/smoldyn/work XDG_CACHE_HOME=/wrkdirs/usr/ports/science/smoldyn/work/.cache HOME=/wrkdirs/usr/ports/science/smoldyn/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/smoldyn/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/smoldyn/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES DESTDIR=/wrkdirs/usr/ports/science/smoldyn/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include " 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="@comment " NO_PYTHON="" CMAKE_BUILD_TYPE="release" PYTHON_INCLUDEDIR=include/python3.11 PYTHON_LIBDIR=lib/python3.11 PYTHON_PLATFORM=freebsd14 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=14.4 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/smoldyn" EXAMPLESDIR="share/examples/smoldyn" DATADIR="share/smoldyn" WWWDIR="www/smoldyn" ETCDIR="etc/smoldyn" --End PLIST_SUB-- --SUB_LIST-- PYTHON="@comment " NO_PYTHON="" PYTHON_INCLUDEDIR=/usr/local/include/python3.11 PYTHON_LIBDIR=/usr/local/lib/python3.11 PYTHON_PLATFORM=freebsd14 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/smoldyn DOCSDIR=/usr/local/share/doc/smoldyn EXAMPLESDIR=/usr/local/share/examples/smoldyn WWWDIR=/usr/local/www/smoldyn ETCDIR=/usr/local/etc/smoldyn --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 ===> smoldyn-2.75 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.6.2.pkg [pkg.DaveG.ca] Installing pkg-2.6.2... [pkg.DaveG.ca] Extracting pkg-2.6.2: .......... done ===> smoldyn-2.75 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of smoldyn-2.75 =========================================================================== =================================================== ===== 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 smoldyn-2.75 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by smoldyn-2.75 for building => SHA256 Checksum OK for smoldyn-2.75.tgz. =========================================================================== =================================================== ===== 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 smoldyn-2.75 for building ===> Extracting for smoldyn-2.75 => SHA256 Checksum OK for smoldyn-2.75.tgz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for smoldyn-2.75 ===> Applying FreeBSD patches for smoldyn-2.75 from /usr/ports/science/smoldyn/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> smoldyn-2.75 depends on file: /usr/local/bin/cmake - not found ===> Installing existing package /packages/All/cmake-core-3.31.10_1.pkg [pkg.DaveG.ca] Installing cmake-core-3.31.10_1... [pkg.DaveG.ca] `-- Installing expat-2.7.4... [pkg.DaveG.ca] `-- Extracting expat-2.7.4: .......... 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-1.4.2... [pkg.DaveG.ca] | `-- Extracting libunistring-1.4.2: .......... done [pkg.DaveG.ca] `-- Extracting libidn2-2.3.8: .......... done [pkg.DaveG.ca] `-- Installing libuv-1.52.0... [pkg.DaveG.ca] `-- Extracting libuv-1.52.0: .......... done [pkg.DaveG.ca] `-- Installing rhash-1.4.6... [pkg.DaveG.ca] | `-- Installing gettext-runtime-0.26... [pkg.DaveG.ca] | `-- Extracting gettext-runtime-0.26: .......... done [pkg.DaveG.ca] `-- Extracting rhash-1.4.6: .......... done [pkg.DaveG.ca] Extracting cmake-core-3.31.10_1: .......... done ===> smoldyn-2.75 depends on file: /usr/local/bin/cmake - found ===> Returning to build of smoldyn-2.75 ===> smoldyn-2.75 depends on executable: ninja - not found ===> Installing existing package /packages/All/ninja-1.13.2,4.pkg [pkg.DaveG.ca] Installing ninja-1.13.2,4... [pkg.DaveG.ca] `-- Installing python311-3.11.15... [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-8.3.3... [pkg.DaveG.ca] | `-- Extracting readline-8.3.3: .......... done [pkg.DaveG.ca] `-- Extracting python311-3.11.15: .......... done [pkg.DaveG.ca] Extracting ninja-1.13.2,4: ..... done ===== Message from python311-3.11.15: -- 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 ===> smoldyn-2.75 depends on executable: ninja - found ===> Returning to build of smoldyn-2.75 ===> smoldyn-2.75 depends on package: xorgproto>=0 - not found ===> Installing existing package /packages/All/xorgproto-2024.1.pkg [pkg.DaveG.ca] Installing xorgproto-2024.1... [pkg.DaveG.ca] Extracting xorgproto-2024.1: .......... done ===> smoldyn-2.75 depends on package: xorgproto>=0 - found ===> Returning to build of smoldyn-2.75 ===> smoldyn-2.75 depends on package: xorgproto>=0 - found ===> smoldyn-2.75 depends on file: /usr/local/libdata/pkgconfig/xi.pc - not found ===> Installing existing package /packages/All/libXi-1.8.2,1.pkg [pkg.DaveG.ca] Installing libXi-1.8.2,1... [pkg.DaveG.ca] `-- Installing libX11-1.8.12,1... [pkg.DaveG.ca] | `-- Installing libxcb-1.17.0... [pkg.DaveG.ca] | | `-- Installing libXau-1.0.12... [pkg.DaveG.ca] | | `-- Extracting libXau-1.0.12: .......... done [pkg.DaveG.ca] | | `-- Installing libXdmcp-1.1.5... [pkg.DaveG.ca] | | `-- Extracting libXdmcp-1.1.5: ...... done [pkg.DaveG.ca] | `-- Extracting libxcb-1.17.0: .......... done [pkg.DaveG.ca] `-- Extracting libX11-1.8.12,1: .......... done [pkg.DaveG.ca] `-- Installing libXext-1.3.6,1... [pkg.DaveG.ca] `-- Extracting libXext-1.3.6,1: .......... done [pkg.DaveG.ca] `-- Installing libXfixes-6.0.1... [pkg.DaveG.ca] `-- Extracting libXfixes-6.0.1: ....... done [pkg.DaveG.ca] Extracting libXi-1.8.2,1: .......... done ===> smoldyn-2.75 depends on file: /usr/local/libdata/pkgconfig/xi.pc - found ===> Returning to build of smoldyn-2.75 ===> smoldyn-2.75 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - not found ===> Installing existing package /packages/All/libXmu-1.1.4,1.pkg [pkg.DaveG.ca] Installing libXmu-1.1.4,1... [pkg.DaveG.ca] `-- Installing libXt-1.3.0,1... [pkg.DaveG.ca] | `-- Installing libICE-1.1.2,1... [pkg.DaveG.ca] | `-- Extracting libICE-1.1.2,1: .......... done [pkg.DaveG.ca] | `-- Installing libSM-1.2.6,1... [pkg.DaveG.ca] | `-- Extracting libSM-1.2.6,1: ........ done [pkg.DaveG.ca] `-- Extracting libXt-1.3.0,1: .......... done [pkg.DaveG.ca] Extracting libXmu-1.1.4,1: .......... done ===> smoldyn-2.75 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - found ===> Returning to build of smoldyn-2.75 ===> smoldyn-2.75 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. ===> smoldyn-2.75 depends on file: /usr/local/bin/ccache - found ===> Returning to build of smoldyn-2.75 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> smoldyn-2.75 depends on shared library: libtiff.so - not found ===> Installing existing package /packages/All/tiff-4.7.1.pkg [pkg.DaveG.ca] Installing tiff-4.7.1... [pkg.DaveG.ca] `-- Installing jbigkit-2.1_3... [pkg.DaveG.ca] `-- Extracting jbigkit-2.1_3: .......... done [pkg.DaveG.ca] `-- Installing jpeg-turbo-3.1.3... [pkg.DaveG.ca] `-- Extracting jpeg-turbo-3.1.3: .......... done [pkg.DaveG.ca] `-- Installing lerc-4.0.0... [pkg.DaveG.ca] `-- Extracting lerc-4.0.0: ..... done [pkg.DaveG.ca] `-- Installing libdeflate-1.25... [pkg.DaveG.ca] `-- Extracting libdeflate-1.25: .......... done [pkg.DaveG.ca] `-- Installing zstd-1.5.7_1... [pkg.DaveG.ca] `-- Extracting zstd-1.5.7_1: .......... done [pkg.DaveG.ca] Extracting tiff-4.7.1: .......... done ===> smoldyn-2.75 depends on shared library: libtiff.so - found (/usr/local/lib/libtiff.so) ===> Returning to build of smoldyn-2.75 ===> smoldyn-2.75 depends on shared library: libGL.so - not found ===> Installing existing package /packages/All/libglvnd-1.7.0.pkg [pkg.DaveG.ca] Installing libglvnd-1.7.0... [pkg.DaveG.ca] Extracting libglvnd-1.7.0: .......... done ===> smoldyn-2.75 depends on shared library: libGL.so - found (/usr/local/lib/libGL.so) ===> Returning to build of smoldyn-2.75 ===> smoldyn-2.75 depends on shared library: libGLU.so - not found ===> Installing existing package /packages/All/libGLU-9.0.3.pkg [pkg.DaveG.ca] Installing libGLU-9.0.3... [pkg.DaveG.ca] Extracting libGLU-9.0.3: ..... done ===> smoldyn-2.75 depends on shared library: libGLU.so - found (/usr/local/lib/libGLU.so) ===> Returning to build of smoldyn-2.75 ===> smoldyn-2.75 depends on shared library: libglut.so - not found ===> Installing existing package /packages/All/freeglut-3.2.1.pkg [pkg.DaveG.ca] Installing freeglut-3.2.1... [pkg.DaveG.ca] `-- Installing libXrandr-1.5.4... [pkg.DaveG.ca] | `-- Installing libXrender-0.9.12... [pkg.DaveG.ca] | `-- Extracting libXrender-0.9.12: ....... done [pkg.DaveG.ca] `-- Extracting libXrandr-1.5.4: .......... done [pkg.DaveG.ca] `-- Installing libXxf86vm-1.1.6... [pkg.DaveG.ca] `-- Extracting libXxf86vm-1.1.6: .......... done [pkg.DaveG.ca] Extracting freeglut-3.2.1: .......... done ===== Message from freeglut-3.2.1: -- Joystick support is untested and it is unknown if it works. Do not hesitate to contact x11@FreeBSD.org if this causes issues. ===> smoldyn-2.75 depends on shared library: libglut.so - found (/usr/local/lib/libglut.so) ===> Returning to build of smoldyn-2.75 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for smoldyn-2.75 ===> Performing out-of-source build /bin/mkdir -p /wrkdirs/usr/ports/science/smoldyn/work/.build -- The CXX compiler identification is Clang 19.1.7 -- The C compiler identification is Clang 19.1.7 -- 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 -- 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 -- Smoldyn version is set to: '' -- Compiling for Smoldyn: ON -- Compiling for Libsmoldyn: ON -- Option to compile Smoldyn for VCell: OFF -- Option to cross-compile for Windows using MinGW: OFF -- Option to include NextSubvolume: ON -- Option to include VTK: OFF -- Option to compile with static libraries: OFF -- Option to include OpenGL support: ON -- Option to include LibTiff: ON -- Option to include Zlib: OFF -- Option to incude Python module: false -- Option to run Libsmoldyn examples: OFF -- Option to build documentation: OFF -- Performing Test C_FLAG_EXISTS -- Performing Test C_FLAG_EXISTS - Success -- Performing Test CXX_FLAG_EXISTS -- Performing Test CXX_FLAG_EXISTS - Success -- [COMPILER] Adding -Wno-unused-parameter -- Build type: Release -- Compiling on a Linux computer -- CMAKE_CXX_FLAGS variable: '-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include' -- BioNetGen path: '/usr/local/bin/BioNetGen/BNG2.pl' -- Found OpenGL: /usr/local/lib/libOpenGL.so -- OpenGL found: '/usr/local/include', '/usr/local/lib/libGL.so;/usr/local/lib/libGLU.so' -- Found GLUT: /usr/local/lib/libglut.so -- Glut found: '/usr/local/include', '/usr/local/lib/libglut.so;/usr/local/lib/libXmu.so;/usr/local/lib/libXi.so' -- Found TIFF: /usr/local/lib/cmake/tiff (found version "4.7.1") -- Boost headers found: '/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include' -- Configuring done (1.6s) -- Generating done (0.0s) 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 Python3_EXECUTABLE Python_ADDITIONAL_VERSIONS Python_EXECUTABLE THREADS_HAVE_PTHREAD_ARG -- Build files have been written to: /wrkdirs/usr/ports/science/smoldyn/work/.build =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for smoldyn-2.75 [ 1% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -isystem /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/Io.cpp.o -MF source/NextSubVolume/CMakeFiles/nsv.dir/Io.cpp.o.d -o source/NextSubVolume/CMakeFiles/nsv.dir/Io.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/Io.cpp [ 3% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/Sphere.c.o -MF source/libSteve/CMakeFiles/Steve.dir/Sphere.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/Sphere.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/Sphere.c [ 5% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/parse.c.o -MF source/libSteve/CMakeFiles/Steve.dir/parse.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/parse.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/parse.c [ 6% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/random2.c.o -MF source/libSteve/CMakeFiles/Steve.dir/random2.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/random2.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/random2.c [ 8% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/RnSparse.c.o -MF source/libSteve/CMakeFiles/Steve.dir/RnSparse.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/RnSparse.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/RnSparse.c [ 10% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolwall.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolwall.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolwall.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolwall.c [ 11% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/queue.c.o -MF source/libSteve/CMakeFiles/Steve.dir/queue.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/queue.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/queue.c [ 13% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolport.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolport.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolport.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolport.c [ 15% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolrule.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolrule.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolrule.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolrule.c [ 16% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolport.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolport.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolport.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolport.c [ 18% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolwall.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolwall.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolwall.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolwall.c [ 20% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/List.c.o -MF source/libSteve/CMakeFiles/Steve.dir/List.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/List.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/List.c [ 22% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/SFMT/SFMT.c.o -MF source/libSteve/CMakeFiles/Steve.dir/SFMT/SFMT.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/SFMT/SFMT.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/SFMT/SFMT.c [ 23% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolrule.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolrule.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolrule.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolrule.c [ 25% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/math2.c.o -MF source/libSteve/CMakeFiles/Steve.dir/math2.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/math2.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/math2.c [ 27% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/opengl2.c.o -MF source/libSteve/CMakeFiles/Steve.dir/opengl2.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/opengl2.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/opengl2.c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/opengl2.c:278:27: warning: unused parameter 'filename' [-Wunused-parameter] 278 | int WriteTIFF(const char *filename,const char *description,int x,int y,int width,int height,int compression) { | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/opengl2.c:278:48: warning: unused parameter 'description' [-Wunused-parameter] 278 | int WriteTIFF(const char *filename,const char *description,int x,int y,int width,int height,int compression) { | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/opengl2.c:278:64: warning: unused parameter 'x' [-Wunused-parameter] 278 | int WriteTIFF(const char *filename,const char *description,int x,int y,int width,int height,int compression) { | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/opengl2.c:278:70: warning: unused parameter 'y' [-Wunused-parameter] 278 | int WriteTIFF(const char *filename,const char *description,int x,int y,int width,int height,int compression) { | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/opengl2.c:278:76: warning: unused parameter 'width' [-Wunused-parameter] 278 | int WriteTIFF(const char *filename,const char *description,int x,int y,int width,int height,int compression) { | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/opengl2.c:278:86: warning: unused parameter 'height' [-Wunused-parameter] 278 | int WriteTIFF(const char *filename,const char *description,int x,int y,int width,int height,int compression) { | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/opengl2.c:278:97: warning: unused parameter 'compression' [-Wunused-parameter] 278 | int WriteTIFF(const char *filename,const char *description,int x,int y,int width,int height,int compression) { | ^ 7 warnings generated. [ 28% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn.dir/source/Smoldyn/smoldyn.cpp.o -MF CMakeFiles/smoldyn.dir/source/Smoldyn/smoldyn.cpp.o.d -o CMakeFiles/smoldyn.dir/source/Smoldyn/smoldyn.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smoldyn.cpp [ 30% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolcomparts.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolcomparts.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolcomparts.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolcomparts.c [ 32% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/rxnparam.c.o -MF source/libSteve/CMakeFiles/Steve.dir/rxnparam.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/rxnparam.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/rxnparam.c [ 33% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolcomparts.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolcomparts.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolcomparts.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolcomparts.c [ 35% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/Zn.c.o -MF source/libSteve/CMakeFiles/Steve.dir/Zn.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/Zn.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/Zn.c [ 37% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/SurfaceParam.c.o -MF source/libSteve/CMakeFiles/Steve.dir/SurfaceParam.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/SurfaceParam.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/SurfaceParam.c [ 38% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/RnSort.c.o -MF source/libSteve/CMakeFiles/Steve.dir/RnSort.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/RnSort.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/RnSort.c [ 40% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolgraphics.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolgraphics.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolgraphics.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolgraphics.c [ 42% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolgraphics.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolgraphics.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolgraphics.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolgraphics.c [ 44% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolboxes.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolboxes.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolboxes.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolboxes.c [ 45% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/SimCommand.c.o -MF source/libSteve/CMakeFiles/Steve.dir/SimCommand.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/SimCommand.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/SimCommand.c [ 47% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smollattice.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smollattice.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smollattice.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smollattice.c [ 49% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smollattice.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smollattice.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smollattice.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smollattice.c [ 50% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolbng.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolbng.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolbng.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolbng.c [ 52% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolboxes.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolboxes.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolboxes.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolboxes.c [ 54% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolbng.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolbng.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolbng.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolbng.c [ 55% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/Rn.c.o -MF source/libSteve/CMakeFiles/Steve.dir/Rn.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/Rn.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/Rn.c [ 57% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/Geometry.c.o -MF source/libSteve/CMakeFiles/Steve.dir/Geometry.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/Geometry.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/Geometry.c [ 59% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/libsmoldyn.cpp.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/libsmoldyn.cpp.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/libsmoldyn.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/libsmoldyn.cpp [ 61% 56/59] /usr/local/libexec/ccache/c++ -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/libsmoldyn.cpp.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/libsmoldyn.cpp.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/libsmoldyn.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/libsmoldyn.cpp [ 62% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolfilament.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolfilament.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolfilament.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolfilament.c [ 64% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/../Smoldyn -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/libSteve/CMakeFiles/Steve.dir/string2.c.o -MF source/libSteve/CMakeFiles/Steve.dir/string2.c.o.d -o source/libSteve/CMakeFiles/Steve.dir/string2.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve/string2.c [ 66% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolfilament.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolfilament.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolfilament.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolfilament.c [ 67% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolreact.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolreact.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolreact.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolreact.c [ 69% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolreact.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolreact.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolreact.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolreact.c [ 71% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolmolec.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolmolec.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolmolec.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolmolec.c [ 72% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolcmd.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolcmd.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolcmd.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolcmd.c [ 74% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolmolec.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolmolec.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolmolec.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolmolec.c [ 76% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -isystem /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/Geometry.cpp.o -MF source/NextSubVolume/CMakeFiles/nsv.dir/Geometry.cpp.o.d -o source/NextSubVolume/CMakeFiles/nsv.dir/Geometry.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/Geometry.cpp [ 77% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -isystem /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/StructuredGrid.cpp.o -MF source/NextSubVolume/CMakeFiles/nsv.dir/StructuredGrid.cpp.o.d -o source/NextSubVolume/CMakeFiles/nsv.dir/StructuredGrid.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/StructuredGrid.cpp [ 79% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -isystem /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/Species.cpp.o -MF source/NextSubVolume/CMakeFiles/nsv.dir/Species.cpp.o.d -o source/NextSubVolume/CMakeFiles/nsv.dir/Species.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/Species.cpp [ 81% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -isystem /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/ReactionEquation.cpp.o -MF source/NextSubVolume/CMakeFiles/nsv.dir/ReactionEquation.cpp.o.d -o source/NextSubVolume/CMakeFiles/nsv.dir/ReactionEquation.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/ReactionEquation.cpp [ 83% 56/59] /usr/local/libexec/ccache/cc -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolsurface.c.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolsurface.c.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolsurface.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolsurface.c [ 84% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolcmd.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolcmd.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolcmd.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolcmd.c [ 86% 56/59] /usr/local/libexec/ccache/cc -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DNDEBUG -std=gnu11 -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolsurface.c.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolsurface.c.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolsurface.c.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolsurface.c [ 88% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -isystem /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/Kairos.cpp.o -MF source/NextSubVolume/CMakeFiles/nsv.dir/Kairos.cpp.o.d -o source/NextSubVolume/CMakeFiles/nsv.dir/Kairos.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/Kairos.cpp In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/Kairos.cpp:26: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/Kairos.h:29: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/NextSubvolumeMethod.h:35: /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:55:51: warning: 'rebind>' is deprecated [-Wdeprecated-declarations] 55 | typedef typename allocator_argument::template rebind::other allocator_type; | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:124:21: note: in instantiation of template class 'boost::heap::detail::make_fibonacci_heap_base' requested here 124 | private detail::make_fibonacci_heap_base' requested here 67 | typedef boost::heap::fibonacci_heap::handle_type HeapHandle; | ^ /usr/include/c++/v1/__memory/allocator.h:144:10: note: 'rebind>' has been explicitly marked deprecated here 144 | struct _LIBCPP_DEPRECATED_IN_CXX17 rebind { | ^ /usr/include/c++/v1/__config:748:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' 748 | # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | ^ /usr/include/c++/v1/__config:713:49: note: expanded from macro '_LIBCPP_DEPRECATED' 713 | # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) | ^ 1 warning generated. [ 89% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolsim.cpp.o -MF CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolsim.cpp.o.d -o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolsim.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolsim.cpp [ 91% 56/59] /usr/local/libexec/ccache/c++ -Dsmoldyn_shared_EXPORTS -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolsim.cpp.o -MF CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolsim.cpp.o.d -o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolsim.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn/smolsim.cpp [ 93% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -isystem /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/nsvc.cpp.o -MF source/NextSubVolume/CMakeFiles/nsv.dir/nsvc.cpp.o.d -o source/NextSubVolume/CMakeFiles/nsv.dir/nsvc.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/nsvc.cpp In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/nsvc.cpp:26: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/nsvc.h:36: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/Kairos.h:29: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/NextSubvolumeMethod.h:35: /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:55:51: warning: 'rebind>' is deprecated [-Wdeprecated-declarations] 55 | typedef typename allocator_argument::template rebind::other allocator_type; | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:124:21: note: in instantiation of template class 'boost::heap::detail::make_fibonacci_heap_base' requested here 124 | private detail::make_fibonacci_heap_base' requested here 67 | typedef boost::heap::fibonacci_heap::handle_type HeapHandle; | ^ /usr/include/c++/v1/__memory/allocator.h:144:10: note: 'rebind>' has been explicitly marked deprecated here 144 | struct _LIBCPP_DEPRECATED_IN_CXX17 rebind { | ^ /usr/include/c++/v1/__config:748:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' 748 | # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | ^ /usr/include/c++/v1/__config:713:49: note: expanded from macro '_LIBCPP_DEPRECATED' 713 | # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) | ^ In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/nsvc.cpp:26: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/nsvc.h:36: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/Kairos.h:29: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/NextSubvolumeMethod.h:35: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:19: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/detail/heap_node.hpp:14: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/list.hpp:20: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/list_hook.hpp:20: /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/detail/list_node.hpp:64:19: warning: 'iterator, long, const boost::heap::detail::heap_node_base<> *, const boost::heap::detail::heap_node_base<> &>' is deprecated [-Wdeprecated-declarations] 64 | : public std::iterator | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/list.hpp:752:22: note: in instantiation of template class 'boost::intrusive::list_iterator, boost::intrusive::list_node_traits, boost::intrusive::safe_link, boost::intrusive::default_tag, 1>, unsigned long, true>>, true>' requested here 752 | const_iterator it(this->begin()), itend(this->end()); | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:310:15: note: in instantiation of function template specialization 'boost::intrusive::list_impl, boost::intrusive::list_node_traits, boost::intrusive::safe_link, boost::intrusive::default_tag, 1>, unsigned long, true>>::clear_and_dispose, boost::heap::detail::heap_node_base<>, std::allocator>>>' requested here 310 | roots.clear_and_dispose(disposer(*this)); | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:276:9: note: in instantiation of member function 'boost::heap::fibonacci_heap::clear' requested here 276 | clear(); | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/NextSubvolumeMethod.h:137:7: note: in instantiation of member function 'boost::heap::fibonacci_heap::~fibonacci_heap' requested here 137 | class NextSubvolumeMethod | ^ /usr/include/c++/v1/__iterator/iterator.h:23:29: note: 'iterator, long, const boost::heap::detail::heap_node_base<> *, const boost::heap::detail::heap_node_base<> &>' has been explicitly marked deprecated here 23 | struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator { | ^ /usr/include/c++/v1/__config:748:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' 748 | # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | ^ /usr/include/c++/v1/__config:713:49: note: expanded from macro '_LIBCPP_DEPRECATED' 713 | # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) | ^ 2 warnings generated. [ 94% 56/59] /usr/local/libexec/ccache/c++ -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/libSteve -I/wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/Smoldyn -I/wrkdirs/usr/ports/science/smoldyn/work/.build -isystem /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/NextSubvolumeMethod.cpp.o -MF source/NextSubVolume/CMakeFiles/nsv.dir/NextSubvolumeMethod.cpp.o.d -o source/NextSubVolume/CMakeFiles/nsv.dir/NextSubvolumeMethod.cpp.o -c /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/NextSubvolumeMethod.cpp In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/NextSubvolumeMethod.cpp:8: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/NextSubvolumeMethod.h:35: /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:55:51: warning: 'rebind>' is deprecated [-Wdeprecated-declarations] 55 | typedef typename allocator_argument::template rebind::other allocator_type; | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:124:21: note: in instantiation of template class 'boost::heap::detail::make_fibonacci_heap_base' requested here 124 | private detail::make_fibonacci_heap_base' requested here 67 | typedef boost::heap::fibonacci_heap::handle_type HeapHandle; | ^ /usr/include/c++/v1/__memory/allocator.h:144:10: note: 'rebind>' has been explicitly marked deprecated here 144 | struct _LIBCPP_DEPRECATED_IN_CXX17 rebind { | ^ /usr/include/c++/v1/__config:748:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' 748 | # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | ^ /usr/include/c++/v1/__config:713:49: note: expanded from macro '_LIBCPP_DEPRECATED' 713 | # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) | ^ In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/NextSubvolumeMethod.cpp:8: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/NextSubvolumeMethod.h:35: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:19: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/detail/heap_node.hpp:14: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/list.hpp:20: In file included from /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/list_hook.hpp:20: /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/detail/list_node.hpp:64:19: warning: 'iterator, long, const boost::heap::detail::heap_node_base<> *, const boost::heap::detail::heap_node_base<> &>' is deprecated [-Wdeprecated-declarations] 64 | : public std::iterator | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/list.hpp:752:22: note: in instantiation of template class 'boost::intrusive::list_iterator, boost::intrusive::list_node_traits, boost::intrusive::safe_link, boost::intrusive::default_tag, 1>, unsigned long, true>>, true>' requested here 752 | const_iterator it(this->begin()), itend(this->end()); | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/list.hpp:730:16: note: in instantiation of function template specialization 'boost::intrusive::list_impl, boost::intrusive::list_node_traits, boost::intrusive::safe_link, boost::intrusive::default_tag, 1>, unsigned long, true>>::clear_and_dispose' requested here 730 | this->clear_and_dispose(detail::null_disposer()); | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/detail/clear_on_destructor_base.hpp:26:36: note: in instantiation of member function 'boost::intrusive::list_impl, boost::intrusive::list_node_traits, boost::intrusive::safe_link, boost::intrusive::default_tag, 1>, unsigned long, true>>::clear' requested here 26 | static_cast(this)->clear(); | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/list.hpp:205:4: note: in instantiation of member function 'boost::intrusive::detail::clear_on_destructor_base, boost::intrusive::list_node_traits, boost::intrusive::safe_link, boost::intrusive::default_tag, 1>, unsigned long, true>>>::~clear_on_destructor_base' requested here 205 | list_impl(const value_traits &v_traits = value_traits()) | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/intrusive/list.hpp:1496:10: note: in instantiation of member function 'boost::intrusive::list_impl, boost::intrusive::list_node_traits, boost::intrusive::safe_link, boost::intrusive::default_tag, 1>, unsigned long, true>>::list_impl' requested here 1496 | : Base(v_traits) | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/boost_include/boost/heap/fibonacci_heap.hpp:216:14: note: in instantiation of member function 'boost::intrusive::list>::list' requested here 216 | explicit fibonacci_heap(value_compare const & cmp = value_compare()): | ^ /wrkdirs/usr/ports/science/smoldyn/work/smoldyn-2.75/source/NextSubVolume/NextSubvolumeMethod.cpp:192:22: note: in instantiation of member function 'boost::heap::fibonacci_heap::fibonacci_heap' requested here 192 | NextSubvolumeMethod::NextSubvolumeMethod(StructuredGrid& subvolumes): | ^ /usr/include/c++/v1/__iterator/iterator.h:23:29: note: 'iterator, long, const boost::heap::detail::heap_node_base<> *, const boost::heap::detail::heap_node_base<> &>' has been explicitly marked deprecated here 23 | struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX17 iterator { | ^ /usr/include/c++/v1/__config:748:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX17' 748 | # define _LIBCPP_DEPRECATED_IN_CXX17 _LIBCPP_DEPRECATED | ^ /usr/include/c++/v1/__config:713:49: note: expanded from macro '_LIBCPP_DEPRECATED' 713 | # define _LIBCPP_DEPRECATED __attribute__((__deprecated__)) | ^ 2 warnings generated. [ 96% 58/59] : && /usr/local/bin/cmake -E rm -f libsmoldyn_static.a && /usr/bin/llvm-ar qc libsmoldyn_static.a source/libSteve/CMakeFiles/Steve.dir/Geometry.c.o source/libSteve/CMakeFiles/Steve.dir/List.c.o source/libSteve/CMakeFiles/Steve.dir/math2.c.o source/libSteve/CMakeFiles/Steve.dir/opengl2.c.o source/libSteve/CMakeFiles/Steve.dir/parse.c.o source/libSteve/CMakeFiles/Steve.dir/queue.c.o source/libSteve/CMakeFiles/Steve.dir/random2.c.o source/libSteve/CMakeFiles/Steve.dir/Rn.c.o source/libSteve/CMakeFiles/Steve.dir/RnSort.c.o source/libSteve/CMakeFiles/Steve.dir/RnSparse.c.o source/libSteve/CMakeFiles/Steve.dir/rxnparam.c.o source/libSteve/CMakeFiles/Steve.dir/SimCommand.c.o source/libSteve/CMakeFiles/Steve.dir/Sphere.c.o source/libSteve/CMakeFiles/Steve.dir/string2.c.o source/libSteve/CMakeFiles/Steve.dir/SurfaceParam.c.o source/libSteve/CMakeFiles/Steve.dir/Zn.c.o source/libSteve/CMakeFiles/Steve.dir/SFMT/SFMT.c.o source/NextSubVolume/CMakeFiles/nsv.dir/StructuredGrid.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/Species.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/ReactionEquation.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/NextSubvolumeMethod.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/Kairos.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/Io.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/Geometry.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/nsvc.cpp.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolbng.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolboxes.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolcmd.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolcomparts.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolfilament.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolgraphics.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolmolec.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolport.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smollattice.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolreact.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolrule.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolsim.cpp.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolsurface.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/smolwall.c.o CMakeFiles/smoldyn_static.dir/source/Smoldyn/libsmoldyn.cpp.o && /usr/bin/llvm-ranlib libsmoldyn_static.a && : [ 98% 59/59] : && /usr/local/libexec/ccache/c++ -fPIC -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -L/usr/local/lib -Xlinker --dependency-file=CMakeFiles/smoldyn_shared.dir/link.d -shared -Wl,-soname,libsmoldyn_shared.so -o libsmoldyn_shared.so source/libSteve/CMakeFiles/Steve.dir/Geometry.c.o source/libSteve/CMakeFiles/Steve.dir/List.c.o source/libSteve/CMakeFiles/Steve.dir/math2.c.o source/libSteve/CMakeFiles/Steve.dir/opengl2.c.o source/libSteve/CMakeFiles/Steve.dir/parse.c.o source/libSteve/CMakeFiles/Steve.dir/queue.c.o source/libSteve/CMakeFiles/Steve.dir/random2.c.o source/libSteve/CMakeFiles/Steve.dir/Rn.c.o source/libSteve/CMakeFiles/Steve.dir/RnSort.c.o source/libSteve/CMakeFiles/Steve.dir/RnSparse.c.o source/libSteve/CMakeFiles/Steve.dir/rxnparam.c.o source/libSteve/CMakeFiles/Steve.dir/SimCommand.c.o source/libSteve/CMakeFiles/Steve.dir/Sphere.c.o source/libSteve/CMakeFiles/Steve.dir/string2.c.o source/libSteve/CMakeFiles/Steve.dir/SurfaceParam.c.o source/libSteve/CMakeFiles/Steve.dir/Zn.c.o source/libSteve/CMakeFiles/Steve.dir/SFMT/SFMT.c.o source/NextSubVolume/CMakeFiles/nsv.dir/StructuredGrid.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/Species.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/ReactionEquation.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/NextSubvolumeMethod.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/Kairos.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/Io.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/Geometry.cpp.o source/NextSubVolume/CMakeFiles/nsv.dir/nsvc.cpp.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolbng.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolboxes.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolcmd.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolcomparts.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolfilament.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolgraphics.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolmolec.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolport.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smollattice.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolreact.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolrule.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolsim.cpp.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolsurface.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/smolwall.c.o CMakeFiles/smoldyn_shared.dir/source/Smoldyn/libsmoldyn.cpp.o /usr/local/lib/libGL.so /usr/local/lib/libGLU.so /usr/local/lib/libglut.so /usr/local/lib/libXmu.so /usr/local/lib/libXi.so /usr/local/lib/libtiff.so.6.2.0 && : [100% 59/59] : && /usr/local/libexec/ccache/c++ -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -DNDEBUG -L/usr/local/lib -Xlinker --dependency-file=CMakeFiles/smoldyn.dir/link.d CMakeFiles/smoldyn.dir/source/Smoldyn/smoldyn.cpp.o -o smoldyn libsmoldyn_static.a /usr/local/lib/libGL.so /usr/local/lib/libGLU.so /usr/local/lib/libglut.so /usr/local/lib/libXmu.so /usr/local/lib/libXi.so /usr/local/lib/libtiff.so.6.2.0 && : =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> smoldyn-2.75 depends on file: /usr/local/libdata/pkgconfig/xi.pc - found ===> smoldyn-2.75 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - found =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Staging for smoldyn-2.75 ===> Generating temporary packing list [ 0% 1/1] cd /wrkdirs/usr/ports/science/smoldyn/work/.build && /usr/local/bin/cmake -DCMAKE_INSTALL_DO_STRIP=1 -P cmake_install.cmake -- Install configuration: "Release" -- Installing: /wrkdirs/usr/ports/science/smoldyn/work/stage/usr/local/bin/smoldyn -- Installing: /wrkdirs/usr/ports/science/smoldyn/work/stage/usr/local/lib/libsmoldyn_shared.so -- Installing: /wrkdirs/usr/ports/science/smoldyn/work/stage/usr/local/lib/libsmoldyn_static.a -- Installing: /wrkdirs/usr/ports/science/smoldyn/work/stage/usr/local/include/libsmoldyn.h -- Installing: /wrkdirs/usr/ports/science/smoldyn/work/stage/usr/local/include/smoldyn.h -- Installing: /wrkdirs/usr/ports/science/smoldyn/work/stage/usr/local/include/smoldynconfigure.h ====> 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=2026-03-12T22:21:23+0000' 'PKG_NOTE_ports_top_git_hash=26b198eb3ee3' 'PKG_NOTE_ports_top_checkout_unclean=no' 'PKG_NOTE_port_git_hash=e7458c8b3da2' '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 smoldyn-2.75 ===> Building smoldyn-2.75 =========================================================================== =>> Cleaning up wrkdir ===> Cleaning for smoldyn-2.75 build of science/smoldyn | smoldyn-2.75 ended at Thu Mar 12 18:21:42 EDT 2026 build time: 00:00:19