------------------------------------------------------------------------------- -- Phase: Environment ------------------------------------------------------------------------------- NO_DEPENDS=1 FLAVOR=py39 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 ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ENV ------------------------------------------------------------------------------- PYTHON="/usr/local/bin/python3.9" XDG_DATA_HOME=/construction/science/py-mmcif XDG_CONFIG_HOME=/construction/science/py-mmcif XDG_CACHE_HOME=/construction/science/py-mmcif/.cache HOME=/construction/science/py-mmcif TMPDIR="/tmp" PATH=/construction/science/py-mmcif/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/science/py-mmcif/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ARGS ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ENV ------------------------------------------------------------------------------- XDG_DATA_HOME=/construction/science/py-mmcif XDG_CONFIG_HOME=/construction/science/py-mmcif XDG_CACHE_HOME=/construction/science/py-mmcif/.cache HOME=/construction/science/py-mmcif TMPDIR="/tmp" PATH=/construction/science/py-mmcif/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/science/py-mmcif/.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 LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing " 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/py-mmcif/stage SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: PLIST_SUB ------------------------------------------------------------------------------- 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/py39-mmcif" EXAMPLESDIR="share/examples/py39-mmcif" DATADIR="share/py39-mmcif" WWWDIR="www/py39-mmcif" ETCDIR="etc/py39-mmcif" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: SUB_LIST ------------------------------------------------------------------------------- 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/py39-mmcif DOCSDIR=/usr/local/share/doc/py39-mmcif EXAMPLESDIR=/usr/local/share/examples/py39-mmcif WWWDIR=/usr/local/www/py39-mmcif ETCDIR=/usr/local/etc/py39-mmcif 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/indexinfo-0.3.1.pkg Installing /packages/All/libffi-3.4.4.pkg Installing /packages/All/expat-2.5.0.pkg Installing /packages/All/mpdecimal-2.5.1.pkg Installing /packages/All/ncurses-6.4.pkg ===== Message from ncurses-6.4: -- To get the terminfo database please install the terminfo-db package: pkg install terminfo-db Installing /packages/All/readline-8.2.1.pkg Installing /packages/All/gettext-runtime-0.21.1.pkg Installing /packages/All/openssl-1.1.1u,1.pkg Installing /packages/All/python39-3.9.17.pkg ===== Message from python39-3.9.17: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py39-gdbm databases/py-gdbm@py39 py39-sqlite3 databases/py-sqlite3@py39 py39-tkinter x11-toolkits/py-tkinter@py39 Installing /packages/All/py39-setuptools-63.1.0_1.pkg Installing /packages/All/py39-future-0.18.3.pkg Installing /packages/All/py39-msgpack-1.0.5_1.pkg Installing /packages/All/py39-certifi-2023.5.7.pkg Installing /packages/All/py39-charset-normalizer-3.1.0.pkg Installing /packages/All/py39-idna-3.4_1.pkg Installing /packages/All/py39-pysocks-1.7.1.pkg Installing /packages/All/py39-pycparser-2.21.pkg Installing /packages/All/py39-cffi-1.15.1.pkg Installing /packages/All/py39-cryptography-3.4.8_1,1.pkg Installing /packages/All/py39-six-1.16.0.pkg Installing /packages/All/py39-openssl-21.0.0,1.pkg Installing /packages/All/py39-urllib3-1.26.16,1.pkg ===== Message from py39-urllib3-1.26.16,1: -- Since version 1.25 HTTPS connections are now verified by default which is done via "cert_reqs = 'CERT_REQUIRED'". While certificate verification can be disabled via "cert_reqs = 'CERT_NONE'", it's highly recommended to leave it on. Various consumers of net/py-urllib3 already have implemented routines that either explicitly enable or disable HTTPS certificate verification (e.g. via configuration settings, CLI arguments, etc.). Yet it may happen that there are still some consumers which don't explicitly enable/disable certificate verification for HTTPS connections which could then lead to errors (as is often the case with self-signed certificates). In case of an error one should try first to temporarily disable certificate verification of the problematic urllib3 consumer to see if that approach will remedy the issue. Installing /packages/All/py39-requests-2.31.0.pkg Installing /packages/All/libuv-1.46.0.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/cmake-core-3.26.1_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libtextstyle-0.21.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/m4-1.4.19,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/bison-3.8.2,1.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. SUCCEEDED 00:00:06 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> py39-mmcif-0.81 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> py39-mmcif-0.81 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-mmcif-0.81 for building SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> py39-mmcif-0.81 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-mmcif-0.81 for building => SHA256 Checksum OK for mmcif-0.81.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> py39-mmcif-0.81 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-mmcif-0.81 for building ===> Extracting for py39-mmcif-0.81 => SHA256 Checksum OK for mmcif-0.81.tar.gz. Extracted Memory Use: 7.43M SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for py39-mmcif-0.81 ===> Applying ports patches for py39-mmcif-0.81 from /xports/science/py-mmcif/files SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> py39-mmcif-0.81 depends on package: py39-future>0 - found ===> py39-mmcif-0.81 depends on package: py39-msgpack>0 - found ===> py39-mmcif-0.81 depends on package: py39-requests>=2.25 - found ===> py39-mmcif-0.81 depends on package: py39-six>0 - found ===> py39-mmcif-0.81 depends on executable: cmake - found ===> py39-mmcif-0.81 depends on executable: bison - found ===> py39-mmcif-0.81 depends on package: py39-setuptools>=63.1.0 - found ===> py39-mmcif-0.81 depends on file: /usr/local/bin/python3.9 - found ===> py39-mmcif-0.81 depends on file: /usr/local/bin/ccache - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> py39-mmcif-0.81 depends on package: py39-future>0 - found ===> py39-mmcif-0.81 depends on package: py39-msgpack>0 - found ===> py39-mmcif-0.81 depends on package: py39-requests>=2.25 - found ===> py39-mmcif-0.81 depends on package: py39-six>0 - found ===> py39-mmcif-0.81 depends on executable: cmake - found ===> py39-mmcif-0.81 depends on executable: bison - found ===> py39-mmcif-0.81 depends on package: py39-setuptools>=63.1.0 - found ===> py39-mmcif-0.81 depends on file: /usr/local/bin/python3.9 - found ===> py39-mmcif-0.81 depends on file: /usr/local/bin/ccache - found ===> Configuring for py39-mmcif-0.81 running config SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for py39-mmcif-0.81 running build running build_py creating build creating build/lib.dragonfly-6.5-x86_64-cpython-39 creating build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif copying mmcif/__init__.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif creating build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/DataCategory.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/DataCategoryBase.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/DataCategoryFormatted.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/DataCategoryTyped.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/DictMethodRunner.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/DictionaryApi.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/DictionaryInclude.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/Method.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/MethodUtils.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/PdbxContainers.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api copying mmcif/api/__init__.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/api creating build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/core copying mmcif/core/__init__.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/core creating build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/BinaryCifReader.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/BinaryCifWriter.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/BuildDictionaryExec.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/CifFile.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/IoAdapterBase.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/IoAdapterCore.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/IoAdapterPy.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/PdbxExceptions.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/PdbxReader.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/PdbxWriter.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io copying mmcif/io/__init__.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/io running build_ext ------------- setup.py ----------------- Extension source path /construction/science/py-mmcif/mmcif-0.81 CMAKE_ARGS ['-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/construction/science/py-mmcif/mmcif-0.81/build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/core', '-DPYTHON_EXECUTABLE=/usr/local/bin/python3.9', '-DPYTHON_LIBRARY=/usr/local/lib/libpython3.9.so', '-DPYTHON_INCLUDE_DIR=/usr/local/include/python3.9', '-DCMAKE_BUILD_TYPE=Release'] self.build_temp build/temp.dragonfly-6.5-x86_64-cpython-39 extdir /construction/science/py-mmcif/mmcif-0.81/build/lib.dragonfly-6.5-x86_64-cpython-39/mmcif/core ext.name mmcif.core.mmciflib sys.executable /usr/local/bin/python3.9 sys.exec_prefix /usr/local CXXFLAGS -pipe -O2 -fno-strict-aliasing -DVERSION_INFO=\"0.81\" -- The C compiler identification is GNU 8.3.0 -- The CXX compiler identification is GNU 8.3.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/local/libexec/ccache/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/local/libexec/ccache/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found PythonInterp: /usr/local/bin/python3.9 (found version "3.9.17") -- Found PythonLibs: /usr/local/lib/libpython3.9.so (found version "3.9.17") -- Python include path set to /usr/local/include/python3.9 -- pybind11 v2.10.1 -- Found PythonInterp: /usr/local/bin/python3.9 (found suitable version "3.9.17", minimum required is "3.6") -- Found PythonLibs: /usr/local/lib/libpython3.9.so -- Performing Test HAS_FLTO -- Performing Test HAS_FLTO - Success -- Compiler flags -Wall -Wno-unused-variable -Wno-unused-value -Wno-unused-but-set-variable -Wno-deprecated-declarations -DBIG_ENDIAN_PLATFORM -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -fno-common -fvisibility=hidden -fvisibility-inlines-hidden -std=c++11 -flto -- ---CMAKE MODULE PATH - -- ---CMAKE SOURCE DIR - /construction/science/py-mmcif/mmcif-0.81 -- ---CMAKE PROJECT DIR - /construction/science/py-mmcif/mmcif-0.81 -- Found FLEX: /usr/bin/flex (found version "2.6.4") -- Found BISON: /usr/local/bin/bison (found version "3.8.2") STATUS,---ALL DONE WITH CMAKE -- Configuring done (2.0s) -- Generating done (0.0s) -- Build files have been written to: /construction/science/py-mmcif/mmcif-0.81/build/temp.dragonfly-6.5-x86_64-cpython-39 [ 1%] Building CXX object CMakeFiles/tables.dir/modules/cpp-tables/src/ISTable.C.o [ 3%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/RcsbPlatform.C.o [ 4%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/RcsbFile.C.o [ 6%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/BlockIO.C.o [ 8%] Building CXX object CMakeFiles/tables.dir/modules/cpp-tables/src/ITTable.C.o [ 9%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/CifString.C.o [ 11%] Building CXX object CMakeFiles/tables.dir/modules/cpp-tables/src/TTable.C.o [ 13%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/Serializer.C.o [ 14%] Building CXX object CMakeFiles/tables.dir/modules/cpp-tables/src/TableFile.C.o [ 16%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/GenString.C.o [ 18%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/GenCont.C.o [ 18%] Built target tables [ 19%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/Exceptions.C.o [ 21%] Building C object CMakeFiles/regex.dir/modules/cc-regex/src/regcomp.c.o [ 22%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/DataInfo.C.o [ 24%] Building C object CMakeFiles/regex.dir/modules/cc-regex/src/regexec.c.o [ 26%] Building C object CMakeFiles/regex.dir/modules/cc-regex/src/regerror.c.o [ 27%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/mapped_vector.C.o [ 29%] Building C object CMakeFiles/regex.dir/modules/cc-regex/src/regfree.c.o [ 31%] Building CXX object CMakeFiles/common.dir/modules/cpp-common/src/mapped_ptr_vector.C.o [ 31%] Built target regex [ 31%] Built target common [ 32%] Building CXX object CMakeFiles/cif-file.dir/modules/cpp-cif-file/src/CifFile.C.o [ 34%] Building CXX object CMakeFiles/cif-file-util.dir/modules/cpp-cif-file-util/src/CifFileUtil.C.o [ 36%] Building CXX object CMakeFiles/cif-file.dir/modules/cpp-cif-file/src/DicFile.C.o [ 37%] Building CXX object CMakeFiles/cif-file-util.dir/modules/cpp-cif-file-util/src/CifCorrector.C.o [ 39%] Building CXX object CMakeFiles/cif-file.dir/modules/cpp-cif-file/src/ParentChild.C.o [ 39%] Built target cif-file-util [ 40%] Building CXX object CMakeFiles/cif-file.dir/modules/cpp-cif-file/src/CifParentChild.C.o [ 42%] Building CXX object CMakeFiles/cif-file.dir/modules/cpp-cif-file/src/CifDataInfo.C.o [ 44%] Building CXX object CMakeFiles/dict-obj-file.dir/modules/cpp-dict-obj-file/src/DictObjFileCreator.C.o [ 45%] Building CXX object CMakeFiles/cif-file.dir/modules/cpp-cif-file/src/CifExcept.C.o [ 47%] Building CXX object CMakeFiles/dict-obj-file.dir/modules/cpp-dict-obj-file/src/DictObjFileReader.C.o [ 47%] Built target cif-file [ 49%] Building CXX object CMakeFiles/dict-obj-file.dir/modules/cpp-dict-obj-file/src/DictObjContInfo.C.o [ 50%] [BISON][bisontarget1] Building parser with bison 3.8.2 [ 52%] Building CXX object CMakeFiles/dict-obj-file.dir/modules/cpp-dict-obj-file/src/DictObjCont.C.o [ 54%] Building CXX object CMakeFiles/dict-obj-file.dir/modules/cpp-dict-obj-file/src/DictObjFile.C.o [ 55%] [FLEX][flextarget1] Building scanner with flex 2.6.4 [ 57%] Building CXX object CMakeFiles/dict-obj-file.dir/modules/cpp-dict-obj-file/src/DictDataInfo.C.o [ 59%] [BISON][bisontarget2] Building parser with bison 3.8.2 [ 60%] Building CXX object CMakeFiles/dict-obj-file.dir/modules/cpp-dict-obj-file/src/DictParentChild.C.o [ 60%] Built target dict-obj-file [ 62%] [FLEX][flextarget2] Building scanner with flex 2.6.4 [ 65%] Building CXX object CMakeFiles/cif-parser.dir/modules/cpp-cif-parser/src/CifFileReadDef.C.o [ 65%] Building CXX object CMakeFiles/cif-parser.dir/modules/cpp-cif-parser/src/CifScannerBase.C.o [ 67%] Building CXX object CMakeFiles/cif-parser.dir/modules/cpp-cif-parser/src/CifParserBase.C.o [ 68%] Building CXX object CMakeFiles/cif-parser.dir/modules/cpp-cif-parser/src/DICScannerBase.C.o [ 70%] Building CXX object CMakeFiles/cif-parser.dir/modules/cpp-cif-parser/src/DICParserBase.C.o [ 72%] Building C object CMakeFiles/cif-parser.dir/src/CifParser.c.o [ 73%] Building C object CMakeFiles/cif-parser.dir/src/DICParser.c.o [ 75%] Building C object CMakeFiles/cif-parser.dir/src/CifScanner.c.o [ 77%] Building C object CMakeFiles/cif-parser.dir/src/DICScanner.c.o [ 77%] Built target cif-parser [ 78%] Linking CXX static library lib/libmmciflib-all.a Error running link command: No such file or directory --- lib/libmmciflib-all.a --- *** [lib/libmmciflib-all.a] Error code 2 make[3]: stopped in /construction/science/py-mmcif/mmcif-0.81/build/temp.dragonfly-6.5-x86_64-cpython-39 1 error make[3]: stopped in /construction/science/py-mmcif/mmcif-0.81/build/temp.dragonfly-6.5-x86_64-cpython-39 --- CMakeFiles/mmciflib-all.dir/all --- *** [CMakeFiles/mmciflib-all.dir/all] Error code 2 make[2]: stopped in /construction/science/py-mmcif/mmcif-0.81/build/temp.dragonfly-6.5-x86_64-cpython-39 1 error make[2]: stopped in /construction/science/py-mmcif/mmcif-0.81/build/temp.dragonfly-6.5-x86_64-cpython-39 *** [all] Error code 2 make[1]: stopped in /construction/science/py-mmcif/mmcif-0.81/build/temp.dragonfly-6.5-x86_64-cpython-39 1 error make[1]: stopped in /construction/science/py-mmcif/mmcif-0.81/build/temp.dragonfly-6.5-x86_64-cpython-39 Traceback (most recent call last): File "", line 1, in File "setup.py", line 136, in setup( File "/usr/local/lib/python3.9/site-packages/setuptools/__init__.py", line 87, in setup return distutils.core.setup(**attrs) File "/usr/local/lib/python3.9/site-packages/setuptools/_distutils/core.py", line 177, in setup return run_commands(dist) File "/usr/local/lib/python3.9/site-packages/setuptools/_distutils/core.py", line 193, in run_commands dist.run_commands() File "/usr/local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 968, in run_commands self.run_command(cmd) File "/usr/local/lib/python3.9/site-packages/setuptools/dist.py", line 1217, in run_command super().run_command(command) File "/usr/local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 987, in run_command cmd_obj.run() File "/usr/local/lib/python3.9/site-packages/setuptools/command/build.py", line 24, in run super().run() File "/usr/local/lib/python3.9/site-packages/setuptools/_distutils/command/build.py", line 131, in run self.run_command(cmd_name) File "/usr/local/lib/python3.9/site-packages/setuptools/_distutils/cmd.py", line 317, in run_command self.distribution.run_command(command) File "/usr/local/lib/python3.9/site-packages/setuptools/dist.py", line 1217, in run_command super().run_command(command) File "/usr/local/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 987, in run_command cmd_obj.run() File "setup.py", line 40, in run self.build_extension(ext) File "setup.py", line 111, in build_extension subprocess.check_call(["cmake", "--build", "."] + buildArgs, cwd=self.build_temp) File "/usr/local/lib/python3.9/subprocess.py", line 373, in check_call raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command '['cmake', '--build', '.', '--config', 'Release', '--', '-j2']' returned non-zero exit status 2. *** Error code 1 Stop. make: stopped in /xports/science/py-mmcif FAILED 00:00:06