------------------------------------------------------------------------------- -- Phase: Environment ------------------------------------------------------------------------------- NO_DEPENDS=1 UNAME_r=6.5 UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=unknown UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 LANG=C HOME=/root USER=root TERM=dumb SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: showconfig ------------------------------------------------------------------------------- ===> The following configuration options are available for smoldyn-2.71: PYTHON=off: Python bindings or support ===> Use 'make config' to modify these settings SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ENV ------------------------------------------------------------------------------- PYTHON="/usr/local/bin/python3.9" XDG_DATA_HOME=/construction/science/smoldyn XDG_CONFIG_HOME=/construction/science/smoldyn XDG_CACHE_HOME=/construction/science/smoldyn/.cache HOME=/construction/science/smoldyn TMPDIR="/tmp" PATH=/construction/science/smoldyn/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/science/smoldyn/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 CMAKE_PREFIX_PATH="/usr/local" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ARGS ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ENV ------------------------------------------------------------------------------- XDG_DATA_HOME=/construction/science/smoldyn XDG_CONFIG_HOME=/construction/science/smoldyn XDG_CACHE_HOME=/construction/science/smoldyn/.cache HOME=/construction/science/smoldyn TMPDIR="/tmp" PATH=/construction/science/smoldyn/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/science/smoldyn/.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 CCVER=gcc80 PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ARGS ------------------------------------------------------------------------------- DESTDIR=/construction/science/smoldyn/stage SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: PLIST_SUB ------------------------------------------------------------------------------- PYTHON="@comment " NO_PYTHON="" CMAKE_BUILD_TYPE="release" PYTHON_INCLUDEDIR=include/python3.9 PYTHON_LIBDIR=lib/python3.9 PYTHON_PLATFORM=dragonfly6 PYTHON_SITELIBDIR=lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" OSREL=6.5 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/smoldyn" EXAMPLESDIR="share/examples/smoldyn" DATADIR="share/smoldyn" WWWDIR="www/smoldyn" ETCDIR="etc/smoldyn" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: SUB_LIST ------------------------------------------------------------------------------- PYTHON="@comment " NO_PYTHON="" PYTHON_INCLUDEDIR=/usr/local/include/python3.9 PYTHON_LIBDIR=/usr/local/lib/python3.9 PYTHON_PLATFORM=dragonfly6 PYTHON_SITELIBDIR=/usr/local/lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/smoldyn DOCSDIR=/usr/local/share/doc/smoldyn EXAMPLESDIR=/usr/local/share/examples/smoldyn WWWDIR=/usr/local/www/smoldyn ETCDIR=/usr/local/etc/smoldyn SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: /etc/make.conf ------------------------------------------------------------------------------- DPORTS_BUILDER=yes DISABLE_LICENSES=yes DEFAULT_VERSIONS=ssl=openssl FORCE_PACKAGE=yes DEVELOPER=yes DFLY_STING_XFAIL=yes USE_PACKAGE_DEPENDS_ONLY=yes PORTSDIR=/xports PORT_DBDIR=/options PKG_DBDIR=/var/db/pkg PKG_CACHEDIR=/var/cache/pkg PKG_COMPRESSION_FORMAT=.tgz DEVELOPER=1 WITH_CCACHE_BUILD=yes CCACHE_DIR=/ccache UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=600503 OSVERSION=9999999 OSREL=6.5 _OSRELEASE=6.5-SYNTH DISTDIR=/distfiles WRKDIRPREFIX=/construction BATCH=yes PACKAGE_BUILDING=yes PKG_CREATE_VERBOSE=yes MAKE_JOBS_NUMBER=13 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/expat-2.5.0.pkg Installing /packages/All/libuv-1.46.0.pkg Installing /packages/All/indexinfo-0.3.1.pkg Installing /packages/All/gettext-runtime-0.21.1.pkg Installing /packages/All/openssl-1.1.1u,1.pkg Installing /packages/All/rhash-1.4.3.pkg Installing /packages/All/pkg-1.19.2.pkg Installing /packages/All/liblz4-1.9.4,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/zstd-1.5.5.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libarchive-3.6.2,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/ncurses-6.4.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required ===== Message from ncurses-6.4: -- To get the terminfo database please install the terminfo-db package: pkg install terminfo-db Installing /packages/All/cmake-core-3.26.1_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/xorgproto-2022.1_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXau-1.0.9.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXdmcp-1.1.3.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libxcb-1.15_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libX11-1.8.6,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXext-1.3.4,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXfixes-6.0.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXi-1.8,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libICE-1.1.0_1,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libSM-1.2.3,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXt-1.2.1,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXmu-1.1.3,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/ccache-3.7.12_4.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required 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 gcc create symlink for gcc (world) create symlink for g++ create symlink for g++ (world) ===== Message from ccache-3.7.12_4: -- NOTE: Please read /usr/local/share/doc/ccache/ccache-howto-freebsd.txt for information on using ccache with FreeBSD ports and src. Installing /packages/All/libdeflate-1.18.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/jbigkit-2.1_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/jpeg-turbo-2.1.5.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/tiff-4.4.0_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libglvnd-1.6.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libGLU-9.0.2_2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXrender-0.9.10_2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXrandr-1.5.2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXxf86vm-1.1.4_3.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/freeglut-3.2.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required ===== 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. SUCCEEDED 00:00:13 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> smoldyn-2.71 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> smoldyn-2.71 depends on file: /usr/local/sbin/pkg - found => smoldyn-2.71.tgz doesn't seem to exist in /distfiles/. => Attempting to fetch https://www.smoldyn.org/smoldyn-2.71.tgz smoldyn-2.71.tgz 0% of 32 MB 0 Bps smoldyn-2.71.tgz 17% of 32 MB 7835 kBps smoldyn-2.71.tgz 42% of 32 MB 8010 kBps smoldyn-2.71.tgz 53% of 32 MB 3660 kBps 02s smoldyn-2.71.tgz 63% of 32 MB 3021 kBps 02s smoldyn-2.71.tgz 72% of 32 MB 2891 kBps 01s smoldyn-2.71.tgz 84% of 32 MB 4737 kBps 01s smoldyn-2.71.tgz 90% of 32 MB 1892 kBps 07s smoldyn-2.71.tgz 98% of 32 MB 2535 kBps 08s smoldyn-2.71.tgz 32 MB 4066 kBps 08s ===> Fetching all distfiles required by smoldyn-2.71 for building SUCCEEDED 00:00:09 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> smoldyn-2.71 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by smoldyn-2.71 for building => SHA256 Checksum OK for smoldyn-2.71.tgz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> smoldyn-2.71 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by smoldyn-2.71 for building ===> Extracting for smoldyn-2.71 => SHA256 Checksum OK for smoldyn-2.71.tgz. Extracted Memory Use: 71.15M SUCCEEDED 00:00:02 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for smoldyn-2.71 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> smoldyn-2.71 depends on file: /usr/local/bin/cmake - found ===> smoldyn-2.71 depends on package: xorgproto>=0 - found ===> smoldyn-2.71 depends on package: xorgproto>=0 - found ===> smoldyn-2.71 depends on file: /usr/local/libdata/pkgconfig/xi.pc - found ===> smoldyn-2.71 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - found ===> smoldyn-2.71 depends on file: /usr/local/bin/ccache - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- ===> smoldyn-2.71 depends on shared library: libtiff.so - found (/usr/local/lib/libtiff.so) ===> smoldyn-2.71 depends on shared library: libGL.so - found (/usr/local/lib/libGL.so) ===> smoldyn-2.71 depends on shared library: libGLU.so - found (/usr/local/lib/libGLU.so) ===> smoldyn-2.71 depends on shared library: libglut.so - found (/usr/local/lib/libglut.so) SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> smoldyn-2.71 depends on file: /usr/local/bin/cmake - found ===> smoldyn-2.71 depends on package: xorgproto>=0 - found ===> smoldyn-2.71 depends on package: xorgproto>=0 - found ===> smoldyn-2.71 depends on file: /usr/local/libdata/pkgconfig/xi.pc - found ===> smoldyn-2.71 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - found ===> smoldyn-2.71 depends on file: /usr/local/bin/ccache - found ===> smoldyn-2.71 depends on shared library: libtiff.so - found (/usr/local/lib/libtiff.so) ===> smoldyn-2.71 depends on shared library: libGL.so - found (/usr/local/lib/libGL.so) ===> smoldyn-2.71 depends on shared library: libGLU.so - found (/usr/local/lib/libGLU.so) ===> smoldyn-2.71 depends on shared library: libglut.so - found (/usr/local/lib/libglut.so) ===> Configuring for smoldyn-2.71 ===> Performing out-of-source build /bin/mkdir -p /construction/science/smoldyn/.build -- The CXX compiler identification is GNU 8.3.0 -- The C compiler identification is GNU 8.3.0 -- 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: ' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14' -- 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/libtiff.so (found version "4.4.0") -- Found Libtiff: '/usr/local/include', '/usr/local/lib/libtiff.so' -- Boost headers found: '/construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/boost_include' -- Configuring done (4.3s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: BOOST_PYTHON_SUFFIX CMAKE_MODULE_LINKER_FLAGS FETCHCONTENT_FULLY_DISCONNECTED Python_ADDITIONAL_VERSIONS THREADS_HAVE_PTHREAD_ARG -- Build files have been written to: /construction/science/smoldyn/.build SUCCEEDED 00:00:05 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for smoldyn-2.71 /usr/local/bin/cmake -S/construction/science/smoldyn/smoldyn-2.71 -B/construction/science/smoldyn/.build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/local/bin/cmake -E cmake_progress_start /construction/science/smoldyn/.build/CMakeFiles /construction/science/smoldyn/.build//CMakeFiles/progress.marks /usr/bin/make -f CMakeFiles/Makefile2 all --- source/libSteve/CMakeFiles/Steve.dir/all --- --- source/NextSubVolume/CMakeFiles/nsv.dir/all --- --- source/libSteve/CMakeFiles/Steve.dir/all --- /usr/bin/make -f source/libSteve/CMakeFiles/Steve.dir/build.make source/libSteve/CMakeFiles/Steve.dir/depend --- source/NextSubVolume/CMakeFiles/nsv.dir/all --- /usr/bin/make -f source/NextSubVolume/CMakeFiles/nsv.dir/build.make source/NextSubVolume/CMakeFiles/nsv.dir/depend --- source/NextSubVolume/CMakeFiles/nsv.dir/depend --- cd /construction/science/smoldyn/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/science/smoldyn/smoldyn-2.71 /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume /construction/science/smoldyn/.build /construction/science/smoldyn/.build/source/NextSubVolume /construction/science/smoldyn/.build/source/NextSubVolume/CMakeFiles/nsv.dir/DependInfo.cmake /usr/bin/make -f source/NextSubVolume/CMakeFiles/nsv.dir/build.make source/NextSubVolume/CMakeFiles/nsv.dir/build --- source/libSteve/CMakeFiles/Steve.dir/all --- --- source/libSteve/CMakeFiles/Steve.dir/depend --- cd /construction/science/smoldyn/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/science/smoldyn/smoldyn-2.71 /construction/science/smoldyn/smoldyn-2.71/source/libSteve /construction/science/smoldyn/.build /construction/science/smoldyn/.build/source/libSteve /construction/science/smoldyn/.build/source/libSteve/CMakeFiles/Steve.dir/DependInfo.cmake --- source/NextSubVolume/CMakeFiles/nsv.dir/all --- --- 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 --- --- source/NextSubVolume/CMakeFiles/nsv.dir/Kairos.cpp.o --- [ 3%] Building CXX object source/NextSubVolume/CMakeFiles/nsv.dir/Kairos.cpp.o --- source/NextSubVolume/CMakeFiles/nsv.dir/Geometry.cpp.o --- [ 3%] Building CXX object source/NextSubVolume/CMakeFiles/nsv.dir/Geometry.cpp.o --- source/NextSubVolume/CMakeFiles/nsv.dir/nsvc.cpp.o --- [ 6%] Building CXX object source/NextSubVolume/CMakeFiles/nsv.dir/nsvc.cpp.o --- source/NextSubVolume/CMakeFiles/nsv.dir/ReactionEquation.cpp.o --- [ 6%] Building CXX object source/NextSubVolume/CMakeFiles/nsv.dir/ReactionEquation.cpp.o --- source/NextSubVolume/CMakeFiles/nsv.dir/Geometry.cpp.o --- cd /construction/science/smoldyn/.build/source/NextSubVolume && /usr/local/libexec/ccache/c++ -I/construction/science/smoldyn/smoldyn-2.71/source/libSteve -I/construction/science/smoldyn/smoldyn-2.71/source/Smoldyn -I/construction/science/smoldyn/.build -isystem /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/boost_include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/Geometry.cpp.o -MF CMakeFiles/nsv.dir/Geometry.cpp.o.d -o CMakeFiles/nsv.dir/Geometry.cpp.o -c /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/Geometry.cpp --- source/NextSubVolume/CMakeFiles/nsv.dir/Kairos.cpp.o --- --- source/libSteve/CMakeFiles/Steve.dir/all --- /usr/bin/make -f source/libSteve/CMakeFiles/Steve.dir/build.make source/libSteve/CMakeFiles/Steve.dir/build --- source/NextSubVolume/CMakeFiles/nsv.dir/all --- cd /construction/science/smoldyn/.build/source/NextSubVolume && /usr/local/libexec/ccache/c++ -I/construction/science/smoldyn/smoldyn-2.71/source/libSteve -I/construction/science/smoldyn/smoldyn-2.71/source/Smoldyn -I/construction/science/smoldyn/.build -isystem /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/boost_include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/Kairos.cpp.o -MF CMakeFiles/nsv.dir/Kairos.cpp.o.d -o CMakeFiles/nsv.dir/Kairos.cpp.o -c /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/Kairos.cpp --- source/NextSubVolume/CMakeFiles/nsv.dir/Io.cpp.o --- [ 8%] Building CXX object source/NextSubVolume/CMakeFiles/nsv.dir/Io.cpp.o --- source/NextSubVolume/CMakeFiles/nsv.dir/nsvc.cpp.o --- cd /construction/science/smoldyn/.build/source/NextSubVolume && /usr/local/libexec/ccache/c++ -I/construction/science/smoldyn/smoldyn-2.71/source/libSteve -I/construction/science/smoldyn/smoldyn-2.71/source/Smoldyn -I/construction/science/smoldyn/.build -isystem /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/boost_include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/nsvc.cpp.o -MF CMakeFiles/nsv.dir/nsvc.cpp.o.d -o CMakeFiles/nsv.dir/nsvc.cpp.o -c /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/nsvc.cpp --- source/NextSubVolume/CMakeFiles/nsv.dir/Species.cpp.o --- [ 10%] Building CXX object source/NextSubVolume/CMakeFiles/nsv.dir/Species.cpp.o cd /construction/science/smoldyn/.build/source/NextSubVolume && /usr/local/libexec/ccache/c++ -I/construction/science/smoldyn/smoldyn-2.71/source/libSteve -I/construction/science/smoldyn/smoldyn-2.71/source/Smoldyn -I/construction/science/smoldyn/.build -isystem /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/boost_include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/Species.cpp.o -MF CMakeFiles/nsv.dir/Species.cpp.o.d -o CMakeFiles/nsv.dir/Species.cpp.o -c /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/Species.cpp --- source/NextSubVolume/CMakeFiles/nsv.dir/ReactionEquation.cpp.o --- cd /construction/science/smoldyn/.build/source/NextSubVolume && /usr/local/libexec/ccache/c++ -I/construction/science/smoldyn/smoldyn-2.71/source/libSteve -I/construction/science/smoldyn/smoldyn-2.71/source/Smoldyn -I/construction/science/smoldyn/.build -isystem /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/boost_include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT source/NextSubVolume/CMakeFiles/nsv.dir/ReactionEquation.cpp.o -MF CMakeFiles/nsv.dir/ReactionEquation.cpp.o.d -o CMakeFiles/nsv.dir/ReactionEquation.cpp.o -c /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/ReactionEquation.cpp --- source/NextSubVolume/CMakeFiles/nsv.dir/NextSubvolumeMethod.cpp.o --- [ 11%] Building CXX object source/NextSubVolume/CMakeFiles/nsv.dir/NextSubvolumeMethod.cpp.o --- source/NextSubVolume/CMakeFiles/nsv.dir/Io.cpp.o --- cd /construction/science/smoldyn/.build/source/NextSubVolume && /usr/local/libexec/ccache/c++ -I/construction/science/smoldyn/smoldyn-2.71/source/libSteve -I/construction/science/smoldyn/smoldyn-2.71/source/Smoldyn -I/construction/science/smoldyn/.build -isystem /construction/science/smoldyn/smoldyn-2.71/source/NextSubVolume/boost_include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -DNDEBUG -fPIC -Wno-unused-parameter -Wall -Wextra -MD -MT 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CMakeFiles/smoldyn.dir/relink.txt --verbose=1 /usr/local/libexec/ccache/c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++14 -DNDEBUG -L/usr/local/lib CMakeFiles/smoldyn.dir/source/Smoldyn/smoldyn.cpp.o -o CMakeFiles/CMakeRelink.dir/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 Installing the project stripped... /usr/local/bin/cmake -DCMAKE_INSTALL_DO_STRIP=1 -P cmake_install.cmake -- Install configuration: "Release" -- Installing: /construction/science/smoldyn/stage/usr/local/bin/smoldyn -- Installing: /construction/science/smoldyn/stage/usr/local/lib/libsmoldyn_shared.so -- Installing: /construction/science/smoldyn/stage/usr/local/lib/libsmoldyn_static.a -- Installing: /construction/science/smoldyn/stage/usr/local/include/libsmoldyn.h -- Installing: /construction/science/smoldyn/stage/usr/local/include/smoldyn.h -- Installing: /construction/science/smoldyn/stage/usr/local/include/smoldynconfigure.h ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libX11.so.6 from x11/libX11 but it is not declared as a dependency Warning: you need USE_XORG+=x11 Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libXrandr.so.2 from x11/libXrandr but it is not declared as a dependency Warning: you need USE_XORG+=xrandr Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libXxf86vm.so.1 from x11/libXxf86vm but it is not declared as a dependency Warning: you need USE_XORG+=xxf86vm Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libXt.so.6 from x11-toolkits/libXt but it is not declared as a dependency Warning: you need USE_XORG+=xt Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libXext.so.6 from x11/libXext but it is not declared as a dependency Warning: you need USE_XORG+=xext Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libzstd.so.1 from archivers/zstd but it is not declared as a dependency Warning: you need LIB_DEPENDS+=libzstd.so:archivers/zstd Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libjbig.so.2 from graphics/jbigkit but it is not declared as a dependency Warning: you need LIB_DEPENDS+=libjbig.so:graphics/jbigkit Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libjpeg.so.8 from graphics/jpeg-turbo but it is not declared as a dependency Warning: you need USES+=jpeg Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libdeflate.so.0 from archivers/libdeflate but it is not declared as a dependency Warning: you need LIB_DEPENDS+=libdeflate.so:archivers/libdeflate Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libxcb.so.1 from x11/libxcb but it is not declared as a dependency Warning: you need USE_XORG+=xcb Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libXrender.so.1 from x11/libXrender but it is not declared as a dependency Warning: you need USE_XORG+=xrender Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libSM.so.6 from x11/libSM but it is not declared as a dependency Warning: you need USE_XORG+=sm Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libICE.so.6 from x11/libICE but it is not declared as a dependency Warning: you need USE_XORG+=ice Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libXau.so.6 from x11/libXau but it is not declared as a dependency Warning: you need USE_XORG+=xau Error: /usr/local/lib/libsmoldyn_shared.so is linked to /usr/local/lib/libXdmcp.so.6 from x11/libXdmcp but it is not declared as a dependency Warning: you need USE_XORG+=xdmcp Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:02 ------------------------------------------------------------------------------- -- Phase: check-plist ------------------------------------------------------------------------------- ====> Checking for pkg-plist issues (check-plist) ===> Parsing plist ===> Checking for items in STAGEDIR missing from pkg-plist ===> Checking for items in pkg-plist which are not in STAGEDIR ===> No pkg-plist issues found (check-plist) SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for smoldyn-2.71 file sizes/checksums [6]: 0% file sizes/checksums [6]: 100% Service unavailablepacking files [6]: 0% packing files [6]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:01 TOTAL TIME 00:00:51