=>> Building science/py-MDAnalysis build started at Sat Mar 30 18:41:24 GMT 2024 port directory: /usr/ports/science/py-MDAnalysis package name: py39-MDAnalysis-2.3.0_1 building for: FreeBSD pkg-builder.dan.net.uk 13.2-RELEASE-p10 FreeBSD 13.2-RELEASE-p10 amd64 maintained by: yuri@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 1507 Jun 29 2023 /usr/ports/science/py-MDAnalysis/Makefile Ports top last git commit: c2c35d895e Ports top unclean checkout: yes Port dir last git commit: 3d9a815d9c Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.99.20240122_1 Host OSVERSION: 1400097 Jail OSVERSION: 1302001 Job Id: 01 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1302001 UNAME_v=FreeBSD 13.2-RELEASE-p10 UNAME_r=13.2-RELEASE-p10 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 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=========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py39-MDAnalysis-2.3.0_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.20.9_1.pkg [pkg-builder.dan.net.uk] Installing pkg-1.20.9_1... [pkg-builder.dan.net.uk] Extracting pkg-1.20.9_1: .......... done ===> py39-MDAnalysis-2.3.0_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py39-MDAnalysis-2.3.0_1 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by py39-MDAnalysis-2.3.0_1 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by py39-MDAnalysis-2.3.0_1 for building => SHA256 Checksum OK for MDAnalysis-2.3.0.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by py39-MDAnalysis-2.3.0_1 for building ===> Extracting for py39-MDAnalysis-2.3.0_1 => SHA256 Checksum OK for MDAnalysis-2.3.0.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for py39-MDAnalysis-2.3.0_1 ===> Applying FreeBSD patches for py39-MDAnalysis-2.3.0_1 from /usr/ports/science/py-MDAnalysis/files =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-numpy>=1.16,1<1.26,1 - not found ===> Installing existing package /packages/All/py39-numpy-1.25.0_6,1.pkg [pkg-builder.dan.net.uk] Installing py39-numpy-1.25.0_6,1... [pkg-builder.dan.net.uk] `-- Installing gcc13-13.2.0_4... [pkg-builder.dan.net.uk] | `-- Installing binutils-2.40_5,1... [pkg-builder.dan.net.uk] | | `-- Installing gettext-runtime-0.22.3_1... [pkg-builder.dan.net.uk] | | `-- Installing indexinfo-0.3.1... [pkg-builder.dan.net.uk] | | `-- Extracting indexinfo-0.3.1: . done [pkg-builder.dan.net.uk] | | `-- Extracting gettext-runtime-0.22.3_1: .......... done [pkg-builder.dan.net.uk] | | `-- Installing zstd-1.5.5_1... [pkg-builder.dan.net.uk] | | `-- Installing liblz4-1.9.4_1,1... [pkg-builder.dan.net.uk] | | `-- Extracting liblz4-1.9.4_1,1: .......... done [pkg-builder.dan.net.uk] | | `-- Extracting zstd-1.5.5_1: .......... done [pkg-builder.dan.net.uk] | `-- Extracting binutils-2.40_5,1: .......... done [pkg-builder.dan.net.uk] | `-- Installing gmp-6.3.0... [pkg-builder.dan.net.uk] | `-- Extracting gmp-6.3.0: .......... done [pkg-builder.dan.net.uk] | `-- Installing mpc-1.3.1_1... [pkg-builder.dan.net.uk] | | `-- Installing mpfr-4.2.1,1... [pkg-builder.dan.net.uk] | | `-- Extracting mpfr-4.2.1,1: .......... done [pkg-builder.dan.net.uk] | `-- Extracting mpc-1.3.1_1: ...... done [pkg-builder.dan.net.uk] `-- Extracting gcc13-13.2.0_4: .......... done create symlink for gcc13 create symlink for gcc13 (world) create symlink for g++13 create symlink for g++13 (world) create symlink for cpp13 create symlink for cpp13 (world) [pkg-builder.dan.net.uk] `-- Installing openblas-0.3.25,2... [pkg-builder.dan.net.uk] `-- Extracting openblas-0.3.25,2: .......... done [pkg-builder.dan.net.uk] `-- Installing py39-setuptools-63.1.0_1... [pkg-builder.dan.net.uk] | `-- Installing python39-3.9.18_1... [pkg-builder.dan.net.uk] | | `-- Installing libffi-3.4.4_1... [pkg-builder.dan.net.uk] | | `-- Extracting libffi-3.4.4_1: .......... done [pkg-builder.dan.net.uk] | | `-- Installing mpdecimal-2.5.1... 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[pkg-builder.dan.net.uk] | | `-- Extracting suitesparse-colamd-3.3.2: .......... done [pkg-builder.dan.net.uk] | `-- Extracting suitesparse-cholmod-5.2.0: .......... done [pkg-builder.dan.net.uk] `-- Extracting suitesparse-umfpack-6.3.2: .......... done [pkg-builder.dan.net.uk] Extracting py39-numpy-1.25.0_6,1: .......... done ===== Message from gcc13-13.2.0_4: -- To ensure binaries built with this toolchain find appropriate versions of the necessary run-time libraries, you may want to link using -Wl,-rpath=/usr/local/lib/gcc13 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. ===== Message from python39-3.9.18_1: -- 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 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-numpy>=1.16,1<1.26,1 - found ===> Returning to build of py39-MDAnalysis-2.3.0_1 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-packaging>=2.0 - not found ===> Installing existing package /packages/All/py39-packaging-23.2.pkg [pkg-builder.dan.net.uk] Installing py39-packaging-23.2... [pkg-builder.dan.net.uk] Extracting py39-packaging-23.2: .......... done ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-packaging>=2.0 - found ===> Returning to build of py39-MDAnalysis-2.3.0_1 ===> py39-MDAnalysis-2.3.0_1 depends on executable: cython-3.9 - not found ===> Installing existing package /packages/All/py39-cython-0.29.37.pkg [pkg-builder.dan.net.uk] Installing py39-cython-0.29.37... [pkg-builder.dan.net.uk] Extracting py39-cython-0.29.37: .......... done ===> py39-MDAnalysis-2.3.0_1 depends on executable: cython-3.9 - found ===> Returning to build of py39-MDAnalysis-2.3.0_1 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-setuptools>=63.1.0 - found ===> py39-MDAnalysis-2.3.0_1 depends on file: /usr/local/bin/python3.9 - found =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for py39-MDAnalysis-2.3.0_1 Attempting to autodetect OpenMP support... Compiler supports OpenMP Will attempt to use Cython. Compiling MDAnalysis/lib/formats/libdcd.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. Compiling MDAnalysis/lib/c_distances.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. Compiling MDAnalysis/lib/c_distances_openmp.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. Compiling MDAnalysis/lib/qcprot.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. Compiling MDAnalysis/lib/formats/libmdaxdr.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. Compiling MDAnalysis/lib/formats/cython_util.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. Compiling MDAnalysis/analysis/encore/cutils.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. Compiling MDAnalysis/analysis/encore/clustering/affinityprop.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. Compiling MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. Compiling MDAnalysis/lib/_cutil.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. Compiling MDAnalysis/lib/_augment.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. Compiling MDAnalysis/lib/nsgrid.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. Compiling MDAnalysis/coordinates/timestep.pyx because it depends on /usr/local/lib/python3.9/site-packages/Cython/Includes/libcpp/__init__.pxd. [ 1/13] Cythonizing MDAnalysis/coordinates/timestep.pyx [ 2/13] Cythonizing MDAnalysis/lib/_augment.pyx [ 3/13] Cythonizing MDAnalysis/lib/_cutil.pyx [ 4/13] Cythonizing MDAnalysis/lib/nsgrid.pyx [ 5/13] Cythonizing MDAnalysis/analysis/encore/clustering/affinityprop.pyx [ 6/13] Cythonizing MDAnalysis/analysis/encore/cutils.pyx [ 7/13] Cythonizing MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.pyx [ 8/13] Cythonizing MDAnalysis/lib/c_distances.pyx [ 9/13] Cythonizing MDAnalysis/lib/c_distances_openmp.pyx [10/13] Cythonizing MDAnalysis/lib/formats/cython_util.pyx [11/13] Cythonizing MDAnalysis/lib/formats/libdcd.pyx [12/13] Cythonizing MDAnalysis/lib/formats/libmdaxdr.pyx [13/13] Cythonizing MDAnalysis/lib/qcprot.pyx running config =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for py39-MDAnalysis-2.3.0_1 Attempting to autodetect OpenMP support... Compiler supports OpenMP Will attempt to use Cython. running build running build_py creating build creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39 creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis copying MDAnalysis/due.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis copying MDAnalysis/authors.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis copying MDAnalysis/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis copying MDAnalysis/version.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis copying MDAnalysis/exceptions.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis copying MDAnalysis/units.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/contacts.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/dielectric.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/polymer.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/waterdynamics.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/psa.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/diffusionmap.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/rdf.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/lineardensity.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/base.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/density.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/distances.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/helix_analysis.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/bat.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/msd.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/align.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/gnm.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/nuclinfo.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/nucleicacids.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/rms.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/leaflet.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/dihedrals.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis copying MDAnalysis/analysis/pca.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/tests copying MDAnalysis/tests/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/tests copying MDAnalysis/tests/datafiles.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/tests creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib copying MDAnalysis/lib/pkdtree.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib copying MDAnalysis/lib/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib copying MDAnalysis/lib/log.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib copying MDAnalysis/lib/distances.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib copying MDAnalysis/lib/transformations.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib copying MDAnalysis/lib/mdamath.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib copying MDAnalysis/lib/util.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib copying MDAnalysis/lib/picklable_file_io.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib copying MDAnalysis/lib/NeighborSearch.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib copying MDAnalysis/lib/correlations.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core copying MDAnalysis/core/topology.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core copying MDAnalysis/core/topologyobjects.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core copying MDAnalysis/core/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core copying MDAnalysis/core/_get_readers.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core copying MDAnalysis/core/selection.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core copying MDAnalysis/core/topologyattrs.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core copying MDAnalysis/core/accessors.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core copying MDAnalysis/core/groups.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core copying MDAnalysis/core/universe.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations copying MDAnalysis/transformations/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations copying MDAnalysis/transformations/base.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations copying MDAnalysis/transformations/positionaveraging.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations copying MDAnalysis/transformations/fit.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations copying MDAnalysis/transformations/boxdimensions.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations copying MDAnalysis/transformations/translate.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations copying MDAnalysis/transformations/rotate.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations copying MDAnalysis/transformations/wrap.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/PSFParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/LAMMPSParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/GSDParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/DLPolyParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/XYZParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/PDBQTParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/HoomdXMLParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/MinimalParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/TPRParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/base.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/GMSParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/CRDParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/PQRParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/guessers.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/tables.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/TOPParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/PDBParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/ParmEdParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/MMTFParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/ExtendedPDBParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/MOL2Parser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/GROParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/core.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/TXYZParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/ITPParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/FHIAIMSParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology copying MDAnalysis/topology/DMSParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/visualization copying MDAnalysis/visualization/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/visualization copying MDAnalysis/visualization/streamlines.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/visualization copying MDAnalysis/visualization/streamlines_3D.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/visualization creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections copying MDAnalysis/selections/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections copying MDAnalysis/selections/jmol.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections copying MDAnalysis/selections/base.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections copying MDAnalysis/selections/pymol.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections copying MDAnalysis/selections/vmd.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections copying MDAnalysis/selections/gromacs.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections copying MDAnalysis/selections/charmm.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/FHIAIMS.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/null.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/H5MD.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/DCD.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/XTC.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/MOL2.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/MMTF.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/memory.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/chain.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/DMS.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/GRO.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/base.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/ParmEd.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/DLPoly.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/LAMMPS.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/CRD.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/PDBQT.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/GSD.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/GMS.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/INPCRD.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/PDB.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/chemfiles.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/TRJ.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/XDR.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/TRR.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/core.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/TXYZ.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/TRZ.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/PQR.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/XYZ.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates copying MDAnalysis/coordinates/NAMDBIN.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters copying MDAnalysis/converters/RDKitParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters copying MDAnalysis/converters/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters copying MDAnalysis/converters/OpenMMParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters copying MDAnalysis/converters/ParmEd.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters copying MDAnalysis/converters/OpenMM.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters copying MDAnalysis/converters/RDKit.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters copying MDAnalysis/converters/ParmEdParser.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/auxiliary copying MDAnalysis/auxiliary/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/auxiliary copying MDAnalysis/auxiliary/base.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/auxiliary copying MDAnalysis/auxiliary/XVG.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/auxiliary copying MDAnalysis/auxiliary/core.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/auxiliary creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/legacy copying MDAnalysis/analysis/legacy/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/legacy copying MDAnalysis/analysis/legacy/x3dna.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/legacy creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore copying MDAnalysis/analysis/encore/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore copying MDAnalysis/analysis/encore/similarity.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore copying MDAnalysis/analysis/encore/confdistmatrix.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore copying MDAnalysis/analysis/encore/covariance.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore copying MDAnalysis/analysis/encore/utils.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore copying MDAnalysis/analysis/encore/bootstrap.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hbonds copying MDAnalysis/analysis/hbonds/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hbonds copying MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hbonds creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hole2 copying MDAnalysis/analysis/hole2/templates.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hole2 copying MDAnalysis/analysis/hole2/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hole2 copying MDAnalysis/analysis/hole2/hole.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hole2 copying MDAnalysis/analysis/hole2/utils.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hole2 creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/data copying MDAnalysis/analysis/data/filenames.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/data copying MDAnalysis/analysis/data/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/data creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hydrogenbonds copying MDAnalysis/analysis/hydrogenbonds/hbond_analysis.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hydrogenbonds copying MDAnalysis/analysis/hydrogenbonds/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hydrogenbonds copying MDAnalysis/analysis/hydrogenbonds/hbond_autocorrel.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hydrogenbonds copying MDAnalysis/analysis/hydrogenbonds/wbridge_analysis.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hydrogenbonds creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction copying MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction copying MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction copying MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/clustering copying MDAnalysis/analysis/encore/clustering/cluster.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/clustering copying MDAnalysis/analysis/encore/clustering/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/clustering copying MDAnalysis/analysis/encore/clustering/ClusterCollection.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/clustering copying MDAnalysis/analysis/encore/clustering/ClusteringMethod.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/clustering creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats copying MDAnalysis/lib/formats/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats creating build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/tpr copying MDAnalysis/topology/tpr/__init__.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/tpr copying MDAnalysis/topology/tpr/obj.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/tpr copying MDAnalysis/topology/tpr/utils.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/tpr copying MDAnalysis/topology/tpr/setting.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/tpr copying MDAnalysis/analysis/data/rama_ref_data.npy -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/data copying MDAnalysis/analysis/data/janin_ref_data.npy -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/data running build_ext building 'MDAnalysis.lib.formats.libdcd' extension creating build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39 creating build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis creating build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib creating build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats/include -I/usr/local/include/python3.9 -c MDAnalysis/lib/formats/libdcd.c -o build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/libdcd.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros In file included from MDAnalysis/lib/formats/libdcd.c:784: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it with " \ ^ MDAnalysis/lib/formats/libdcd.c:28813:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ MDAnalysis/lib/formats/libdcd.c:377:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ MDAnalysis/lib/formats/libdcd.c:28824:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ MDAnalysis/lib/formats/libdcd.c:377:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ MDAnalysis/lib/formats/libdcd.c:29307:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ MDAnalysis/lib/formats/libdcd.c:377:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ MDAnalysis/lib/formats/libdcd.c:29318:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ MDAnalysis/lib/formats/libdcd.c:377:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ 5 warnings generated. cc -shared -s -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/libdcd.o -L/usr/local/lib -o build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/libdcd.cpython-39.so building 'MDAnalysis.lib.c_distances' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/include -I/usr/local/include/python3.9 -c MDAnalysis/lib/c_distances.c -o build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/c_distances.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros In file included from MDAnalysis/lib/c_distances.c:786: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it with " \ ^ MDAnalysis/lib/c_distances.c:28699:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ MDAnalysis/lib/c_distances.c:378:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ MDAnalysis/lib/c_distances.c:28710:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ MDAnalysis/lib/c_distances.c:378:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ 3 warnings generated. cc -shared -s -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/c_distances.o -L/usr/local/lib -lm -o build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/c_distances.cpython-39.so building 'MDAnalysis.lib.c_distances_openmp' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -DPARALLEL -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/include -I/usr/local/include/python3.9 -c MDAnalysis/lib/c_distances_openmp.c -o build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/c_distances_openmp.o -fopenmp -std=c99 -ffast-math -funroll-loops -fsigned-zeros In file included from MDAnalysis/lib/c_distances_openmp.c:797: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it with " \ ^ 1 warning generated. cc -shared -s -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/c_distances_openmp.o -L/usr/local/lib -lm -lgomp -o build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/c_distances_openmp.cpython-39.so -fopenmp building 'MDAnalysis.lib.qcprot' extension cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MDAnalysis/lib/qcprot.c -o build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/qcprot.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros In file included from MDAnalysis/lib/qcprot.c:780: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it with " \ ^ MDAnalysis/lib/qcprot.c:2385:35: warning: comparison of integers of different signs: 'unsigned int' and 'int' [-Wsign-compare] for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { ~~~~~~~~~ ^ ~~~~~~~~~ MDAnalysis/lib/qcprot.c:2593:35: warning: comparison of integers of different signs: 'unsigned int' and 'int' [-Wsign-compare] for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { ~~~~~~~~~ ^ ~~~~~~~~~ 3 warnings generated. cc -shared -s -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/qcprot.o -L/usr/local/lib -o build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/qcprot.cpython-39.so building 'MDAnalysis.lib._transformations' extension creating build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/src creating build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/src/transformations cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include/python3.9 -c MDAnalysis/lib/src/transformations/transformations.c -o build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/src/transformations/transformations.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros In file included from MDAnalysis/lib/src/transformations/transformations.c:73: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it with " \ ^ MDAnalysis/lib/src/transformations/transformations.c:2122:35: warning: 'PyUnicode_GetSize' is deprecated [-Wdeprecated-declarations] if (PyUnicode_Check(axes) && (PyUnicode_GetSize(axes) == 4)) { ^ /usr/local/include/python3.9/unicodeobject.h:177:1: note: 'PyUnicode_GetSize' has been explicitly marked deprecated here Py_DEPRECATED(3.3) PyAPI_FUNC(Py_ssize_t) PyUnicode_GetSize( ^ /usr/local/include/python3.9/pyport.h:508:54: note: expanded from macro 'Py_DEPRECATED' #define Py_DEPRECATED(VERSION_UNUSED) __attribute__((__deprecated__)) ^ 2 warnings generated. cc -shared -s -fstack-protector-strong -O2 -pipe -fstack-protector-strong -fno-strict-aliasing build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/src/transformations/transformations.o -L/usr/local/lib -lm -o build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/_transformations.cpython-39.so building 'MDAnalysis.lib.formats.libmdaxdr' extension creating build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/src cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats/include -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats -I/usr/local/include/python3.9 -c MDAnalysis/lib/formats/libmdaxdr.c -o build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/libmdaxdr.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros In file included from MDAnalysis/lib/formats/libmdaxdr.c:807: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12: In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it with " \ ^ In file included from MDAnalysis/lib/formats/libmdaxdr.c:816: /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: '/*' within block comment [-Wcomment] /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- ^ In file included from MDAnalysis/lib/formats/libmdaxdr.c:817: /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: '/*' within block comment [-Wcomment] /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- ^ In file included from MDAnalysis/lib/formats/libmdaxdr.c:818: /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: '/*' within block comment [-Wcomment] /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- ^ MDAnalysis/lib/formats/libmdaxdr.c:28469:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ MDAnalysis/lib/formats/libmdaxdr.c:400:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ MDAnalysis/lib/formats/libmdaxdr.c:28480:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ MDAnalysis/lib/formats/libmdaxdr.c:400:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ MDAnalysis/lib/formats/libmdaxdr.c:29345:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ MDAnalysis/lib/formats/libmdaxdr.c:400:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ MDAnalysis/lib/formats/libmdaxdr.c:29356:21: warning: fallthrough annotation in unreachable code [-Wunreachable-code-fallthrough] CYTHON_FALLTHROUGH; ^ MDAnalysis/lib/formats/libmdaxdr.c:400:34: note: expanded from macro 'CYTHON_FALLTHROUGH' #define CYTHON_FALLTHROUGH __attribute__((fallthrough)) ^ 8 warnings generated. cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats/include -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats -I/usr/local/include/python3.9 -c MDAnalysis/lib/formats/src/trr_seek.c -o build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/src/trr_seek.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros In file included from MDAnalysis/lib/formats/src/trr_seek.c:30: /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: '/*' within block comment [-Wcomment] /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- ^ In file included from MDAnalysis/lib/formats/src/trr_seek.c:31: /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: '/*' within block comment [-Wcomment] /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- ^ 2 warnings generated. cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats/include -I/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats -I/usr/local/include/python3.9 -c MDAnalysis/lib/formats/src/xdrfile.c -o build/temp.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/src/xdrfile.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros In file included from MDAnalysis/lib/formats/src/xdrfile.c:62: /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/MDAnalysis-2.3.0/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: '/*' within block comment [-Wcomment] /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- ^ MDAnalysis/lib/formats/src/xdrfile.c:501:17: warning: comparison of integers of different signs: 'int' and 'unsigned int' [-Wsign-compare] while (size >= num && num_of_bits < 32) ~~~~ ^ ~~~ MDAnalysis/lib/formats/src/xdrfile.c:547:32: warning: comparison of integers of different signs: 'unsigned int' and 'int' [-Wsign-compare] while (bytes[num_of_bytes] >= num) ~~~~~~~~~~~~~~~~~~~ ^ ~~~ MDAnalysis/lib/formats/src/xdrfile.c:656:21: warning: comparison of integers of different signs: 'int' and 'unsigned int' [-Wsign-compare] if (num_of_bits >= num_of_bytes * 8) ~~~~~~~~~~~ ^ ~~~~~~~~~~~~~~~~ MDAnalysis/lib/formats/src/xdrfile.c:658:17: warning: comparison of integers of different signs: 'int' and 'unsigned int' [-Wsign-compare] for (i = 0; i < num_of_bytes; i++) ~ ^ ~~~~~~~~~~~~ MDAnalysis/lib/formats/src/xdrfile.c:666:17: warning: comparison of integers of different signs: 'int' and 'unsigned int' [-Wsign-compare] for (i = 0; i < num_of_bytes-1; i++) ~ ^ ~~~~~~~~~~~~~~ MDAnalysis/lib/formats/src/xdrfile.c:706:16: warning: comparison of integers of different signs: 'unsigned int' and 'int' [-Wsign-compare] if (lastbits < num_of_bits) ~~~~~~~~ ^ ~~~~~~~~~~~ MDAnalysis/lib/formats/src/xdrfile.c:816:10: warning: comparison of integers of different signs: 'unsigned int' and 'int' [-Wsign-compare] if(size3>xfp->buf1size) ~~~~~^~~~~~~~~~~~~~ MDAnalysis/lib/formats/src/xdrfile.c:868:19: warning: comparison of integers of different signs: 'unsigned long' and 'int' [-Wsign-compare] maxidx = (LASTIDXxfp->buf1size) ~~~~~^~~~~~~~~~~~~~ MDAnalysis/lib/formats/src/xdrfile.c:1109:49: warning: implicit conversion from 'int' to 'float' changes value from 2147483645 to 2147483648 [-Wimplicit-const-int-float-conversion] (float)maxint[2] - (float)minint[2] >= INT_MAX-2) { ~~ ~~~~~~~^~ MDAnalysis/lib/formats/src/xdrfile.c:1108:49: warning: implicit conversion from 'int' to 'float' changes value from 2147483645 to 2147483648 [-Wimplicit-const-int-float-conversion] (float)maxint[1] - (float)minint[1] >= INT_MAX-2 || ~~ ~~~~~~~^~ MDAnalysis/lib/formats/src/xdrfile.c:1107:52: warning: implicit conversion from 'int' to 'float' changes value from 2147483645 to 2147483648 [-Wimplicit-const-int-float-conversion] if ((float)maxint[0] - (float)minint[0] >= INT_MAX-2 || ~~ ~~~~~~~^~ MDAnalysis/lib/formats/src/xdrfile.c:1135:18: warning: comparison of integers of different signs: 'int' and 'unsigned long' [-Wsign-compare] while (smallidx < LASTIDX && magicints[smallidx] < mindiff) ~~~~~~~~ ^ ~~~~~~~ MDAnalysis/lib/formats/src/xdrfile.c:1141:19: warning: comparison of integers of different signs: 'unsigned long' and 'int' [-Wsign-compare] maxidx = (LASTIDXxfp->buf1size) ~~~~~^~~~~~~~~~~~~~ MDAnalysis/lib/formats/src/xdrfile.c:1368:19: warning: comparison of integers of different signs: 'unsigned long' and 'int' [-Wsign-compare] maxidx = (LASTIDXxfp->buf1size) { ~~~~~^~~~~~~~~~~~~~ MDAnalysis/lib/formats/src/xdrfile.c:1596:49: warning: implicit conversion from 'int' to 'float' changes value from 2147483645 to 2147483648 [-Wimplicit-const-int-float-conversion] (float)maxint[2] - (float)minint[2] >= INT_MAX-2) { ~~ ~~~~~~~^~ MDAnalysis/lib/formats/src/xdrfile.c:1595:49: warning: implicit conversion from 'int' to 'float' changes value from 2147483645 to 2147483648 [-Wimplicit-const-int-float-conversion] (float)maxint[1] - (float)minint[1] >= INT_MAX-2 || ~~ ~~~~~~~^~ MDAnalysis/lib/formats/src/xdrfile.c:1594:52: warning: implicit conversion from 'int' to 'float' changes value from 2147483645 to 2147483648 [-Wimplicit-const-int-float-conversion] if ((float)maxint[0] - (float)minint[0] >= INT_MAX-2 || ~~ ~~~~~~~^~ MDAnalysis/lib/formats/src/xdrfile.c:1619:18: warning: comparison of integers of different signs: 'int' and 'unsigned long' [-Wsign-compare] while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { ~~~~~~~~ ^ ~~~~~~~ MDAnalysis/lib/formats/src/xdrfile.c:1624:19: warning: comparison of integers of different signs: 'unsigned long' and 'int' [-Wsign-compare] maxidx = (LASTIDX============================ ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-numpy>=1.16,1<1.26,1 - found ===> py39-MDAnalysis-2.3.0_1 depends on executable: clustalw2 - not found ===> Installing existing package /packages/All/clustalw-2.1_3.pkg [pkg-builder.dan.net.uk] Installing clustalw-2.1_3... 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[pkg-builder.dan.net.uk] | | `-- Extracting libfontenc-1.1.8: ...... done [pkg-builder.dan.net.uk] | | `-- Extracting mkfontscale-1.2.3: .... done [pkg-builder.dan.net.uk] | `-- Extracting adobe-cmaps-20051217_4: .......... done [pkg-builder.dan.net.uk] `-- Extracting py39-reportlab-4.1.0: .......... done [pkg-builder.dan.net.uk] Extracting rdkit-2023.09.6: .......... done ==> Running trigger: fontconfig.ucl Running fc-cache to build fontconfig cache... ==> Running trigger: gio-modules.ucl Generating GIO modules cache ==> Running trigger: glib-schemas.ucl Compiling glib schemas No schema files found: doing nothing. ===== Message from boost-libs-1.84.0: -- You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===== Message from freetype2-2.13.2: -- The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as the default, emulating a modern version of ClearType. This change inevitably leads to different rendering results, and you might change port's options to adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment variable). The environment variable "FREETYPE_PROPERTIES" can be used to control the driver properties. Example: FREETYPE_PROPERTIES=truetype:interpreter-version=35 \ cff:no-stem-darkening=1 \ autofitter:warping=1 This allows to select, say, the subpixel hinting mode at runtime for a given application. If LONG_PCF_NAMES port's option was enabled, the PCF family names may include the foundry and information whether they contain wide characters. For example, "Sony Fixed" or "Misc Fixed Wide", instead of "Fixed". This can be disabled at run time with using pcf:no-long-family-names property, if needed. Example: FREETYPE_PROPERTIES=pcf:no-long-family-names=1 How to recreate fontconfig cache with using such environment variable, if needed: # env FREETYPE_PROPERTIES=pcf:no-long-family-names=1 fc-cache -fsv The controllable properties are listed in the section "Controlling FreeType Modules" in the reference's table of contents (/usr/local/share/doc/freetype2/reference/index.html, if documentation was installed). ===== Message from py39-boost-libs-1.84.0: -- You have built the Boost library with thread support. Don't forget to add -pthread to your linker options when linking your code. ===== 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. ===> py39-MDAnalysis-2.3.0_1 depends on package: rdkit>0 - found ===> Returning to build of py39-MDAnalysis-2.3.0_1 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-biopython>=1.71 - not found ===> Installing existing package /packages/All/py39-biopython-1.81_1.pkg [pkg-builder.dan.net.uk] Installing py39-biopython-1.81_1... [pkg-builder.dan.net.uk] Extracting py39-biopython-1.81_1: .......... done ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-biopython>=1.71 - found ===> Returning to build of py39-MDAnalysis-2.3.0_1 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-GridDataFormats>=0.4.0 - not found ===> Installing existing package /packages/All/py39-GridDataFormats-1.0.2.pkg [pkg-builder.dan.net.uk] Installing py39-GridDataFormats-1.0.2... [pkg-builder.dan.net.uk] `-- Installing py39-mrcfile-1.5.0... 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[pkg-builder.dan.net.uk] Extracting py39-joblib-1.3.2_1: .......... done ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-joblib>0 - found ===> Returning to build of py39-MDAnalysis-2.3.0_1 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-matplotlib>=1.5.1 - found ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-mmtf-python>=1.0.0 - not found ===> Installing existing package /packages/All/py39-mmtf-python-1.1.3_1.pkg [pkg-builder.dan.net.uk] Installing py39-mmtf-python-1.1.3_1... [pkg-builder.dan.net.uk] `-- Installing py39-msgpack-1.0.8... 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[pkg-builder.dan.net.uk] `-- Extracting py39-yaml-6.0.1: .......... done [pkg-builder.dan.net.uk] Extracting py39-networkx-3.2,1: .......... done ==> Running trigger: fontconfig.ucl Running fc-cache to build fontconfig cache... ===== Message from postgresql15-client-15.6: -- The PostgreSQL port has a collection of "side orders": postgresql-docs For all of the html documentation p5-Pg A perl5 API for client access to PostgreSQL databases. postgresql-tcltk If you want tcl/tk client support. postgresql-jdbc For Java JDBC support. postgresql-odbc For client access from unix applications using ODBC as access method. Not needed to access unix PostgreSQL servers from Win32 using ODBC. See below. ruby-postgres, py-psycopg2 For client access to PostgreSQL databases using the ruby & python languages. postgresql-plperl, postgresql-pltcl & postgresql-plruby For using perl5, tcl & ruby as procedural languages. postgresql-contrib Lots of contributed utilities, postgresql functions and datatypes. There you find pg_standby, pgcrypto and many other cool things. etc... ===== Message from py39-pandas-2.0.3_1,1: -- Install math/py-statsmodels to enable parts of pandas.stats. Install devel/py-xarray to enable the to_xarray() function. ===== Message from dejavu-2.37_3: -- Make sure that the freetype module is loaded. If it is not, add the following line to the "Modules" section of your X Windows configuration file: Load "freetype" Add the following line to the "Files" section of X Windows configuration file: FontPath "/usr/local/share/fonts/dejavu/" Note: your X Windows configuration file is typically /etc/X11/XF86Config if you are using XFree86, and /etc/X11/xorg.conf if you are using X.Org. ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-networkx>=2.0 - found ===> Returning to build of py39-MDAnalysis-2.3.0_1 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-scipy>=1.5.0 - found ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-seaborn>0 - not found ===> Installing existing package /packages/All/py39-seaborn-0.13.0.pkg [pkg-builder.dan.net.uk] Installing py39-seaborn-0.13.0... [pkg-builder.dan.net.uk] `-- Installing py39-patsy-0.5.6... [pkg-builder.dan.net.uk] `-- Extracting py39-patsy-0.5.6: .......... done [pkg-builder.dan.net.uk] `-- Installing py39-statsmodels-0.14.1... [pkg-builder.dan.net.uk] `-- Extracting py39-statsmodels-0.14.1: .......... done [pkg-builder.dan.net.uk] Extracting py39-seaborn-0.13.0: .......... done ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-seaborn>0 - found ===> Returning to build of py39-MDAnalysis-2.3.0_1 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-six>=1.4.0 - found ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-tqdm>=4.43.0 - not found ===> Installing existing package /packages/All/py39-tqdm-4.66.2.pkg [pkg-builder.dan.net.uk] Installing py39-tqdm-4.66.2... [pkg-builder.dan.net.uk] Extracting py39-tqdm-4.66.2: .......... done ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-tqdm>=4.43.0 - found ===> Returning to build of py39-MDAnalysis-2.3.0_1 ===> py39-MDAnalysis-2.3.0_1 depends on package: py39-setuptools>=63.1.0 - found ===> py39-MDAnalysis-2.3.0_1 depends on file: /usr/local/bin/python3.9 - found =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Staging for py39-MDAnalysis-2.3.0_1 ===> Generating temporary packing list Attempting to autodetect OpenMP support... Compiler supports OpenMP Will attempt to use Cython. running install /usr/local/lib/python3.9/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py copying MDAnalysis/authors.py -> build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis running build_ext running install_lib creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9 creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/due.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/authors.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/contacts.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/dielectric.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/polymer.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/waterdynamics.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/psa.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/legacy copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/legacy/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/legacy copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/legacy/x3dna.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/legacy copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/diffusionmap.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/rdf.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/lineardensity.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/cutils.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/similarity.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/confdistmatrix.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/dimensionality_reduction copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/dimensionality_reduction copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/dimensionality_reduction copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/dimensionality_reduction copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/dimensionality_reduction creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/clustering copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/clustering/cluster.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/clustering copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/clustering/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/clustering copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/clustering/ClusterCollection.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/clustering copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/clustering/affinityprop.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/clustering copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/clustering/ClusteringMethod.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/clustering copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/covariance.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/utils.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/encore/bootstrap.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hbonds copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hbonds/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hbonds copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hbonds copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/base.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/density.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/distances.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/helix_analysis.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/bat.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/msd.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/align.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/gnm.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hole2 copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hole2/templates.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hole2 copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hole2/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hole2 copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hole2/hole.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hole2 copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hole2/utils.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hole2 copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/nuclinfo.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/nucleicacids.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/data copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/data/rama_ref_data.npy -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/data copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/data/filenames.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/data copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/data/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/data copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/data/janin_ref_data.npy -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/data copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/rms.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/leaflet.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/dihedrals.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/pca.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hydrogenbonds copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hydrogenbonds/hbond_analysis.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hydrogenbonds copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hydrogenbonds/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hydrogenbonds copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hydrogenbonds/hbond_autocorrel.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hydrogenbonds copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/analysis/hydrogenbonds/wbridge_analysis.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hydrogenbonds creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/tests copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/tests/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/tests copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/tests/datafiles.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/tests creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/nsgrid.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/pkdtree.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/log.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/_augment.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/qcprot.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/distances.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/transformations.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/mdamath.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/_transformations.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/c_distances_openmp.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/c_distances.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/util.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/_cutil.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/formats copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/formats copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/libdcd.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/formats copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/cython_util.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/formats copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/formats/libmdaxdr.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/formats copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/picklable_file_io.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/NeighborSearch.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/lib/correlations.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core/topology.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core/topologyobjects.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core/_get_readers.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core/selection.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core/topologyattrs.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core/accessors.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core/groups.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/core/universe.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/version.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations/base.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations/positionaveraging.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations/fit.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations/boxdimensions.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations/translate.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations/rotate.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/transformations/wrap.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/PSFParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/LAMMPSParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/GSDParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/DLPolyParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/XYZParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/PDBQTParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/HoomdXMLParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/MinimalParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/TPRParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/base.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/GMSParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/CRDParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/PQRParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/guessers.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/tables.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/TOPParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/PDBParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/ParmEdParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/MMTFParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/ExtendedPDBParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/MOL2Parser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/GROParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/core.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/tpr copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/tpr/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/tpr copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/tpr/obj.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/tpr copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/tpr/utils.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/tpr copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/tpr/setting.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/tpr copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/TXYZParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/ITPParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/FHIAIMSParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/topology/DMSParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/visualization copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/visualization/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/visualization copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/visualization/streamlines.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/visualization copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/visualization/streamlines_3D.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/visualization creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections/jmol.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections/base.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections/pymol.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections/vmd.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections/gromacs.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/selections/charmm.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/FHIAIMS.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/null.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/H5MD.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/DCD.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/XTC.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/MOL2.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/MMTF.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/memory.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/chain.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/DMS.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/GRO.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/base.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/ParmEd.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/DLPoly.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/LAMMPS.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/CRD.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/PDBQT.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/GSD.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/GMS.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/INPCRD.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/PDB.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/timestep.cpython-39.so -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/chemfiles.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/TRJ.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/XDR.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/TRR.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/core.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/TXYZ.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/TRZ.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/PQR.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/XYZ.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/coordinates/NAMDBIN.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/exceptions.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters/RDKitParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters/OpenMMParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters/ParmEd.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters/OpenMM.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters/RDKit.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/converters/ParmEdParser.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters creating /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/auxiliary copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/auxiliary/__init__.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/auxiliary copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/auxiliary/base.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/auxiliary copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/auxiliary/XVG.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/auxiliary copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/auxiliary/core.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/auxiliary copying build/lib.freebsd-13.2-RELEASE-p10-amd64-cpython-39/MDAnalysis/units.py -> /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/due.py to due.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/authors.py to authors.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/contacts.py to contacts.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/dielectric.py to dielectric.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/polymer.py to polymer.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/waterdynamics.py to waterdynamics.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/psa.py to psa.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/legacy/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/legacy/x3dna.py to x3dna.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/diffusionmap.py to diffusionmap.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/rdf.py to rdf.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/lineardensity.py to lineardensity.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/similarity.py to similarity.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/confdistmatrix.py to confdistmatrix.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py to DimensionalityReductionMethod.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py to reduce_dimensionality.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/clustering/cluster.py to cluster.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/clustering/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/clustering/ClusterCollection.py to ClusterCollection.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/clustering/ClusteringMethod.py to ClusteringMethod.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/covariance.py to covariance.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/utils.py to utils.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/encore/bootstrap.py to bootstrap.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hbonds/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hbonds/hbond_autocorrel.py to hbond_autocorrel.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/base.py to base.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/density.py to density.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/distances.py to distances.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/helix_analysis.py to helix_analysis.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/bat.py to bat.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/msd.py to msd.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/align.py to align.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/gnm.py to gnm.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hole2/templates.py to templates.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hole2/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hole2/hole.py to hole.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hole2/utils.py to utils.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/nuclinfo.py to nuclinfo.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/nucleicacids.py to nucleicacids.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/data/filenames.py to filenames.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/data/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/rms.py to rms.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/leaflet.py to leaflet.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/dihedrals.py to dihedrals.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/pca.py to pca.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hydrogenbonds/hbond_analysis.py to hbond_analysis.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hydrogenbonds/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hydrogenbonds/hbond_autocorrel.py to hbond_autocorrel.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/analysis/hydrogenbonds/wbridge_analysis.py to wbridge_analysis.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/tests/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/tests/datafiles.py to datafiles.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/pkdtree.py to pkdtree.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/log.py to log.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/distances.py to distances.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/transformations.py to transformations.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/mdamath.py to mdamath.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/util.py to util.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/formats/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/picklable_file_io.py to picklable_file_io.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/NeighborSearch.py to NeighborSearch.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/lib/correlations.py to correlations.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core/topology.py to topology.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core/topologyobjects.py to topologyobjects.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core/_get_readers.py to _get_readers.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core/selection.py to selection.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core/topologyattrs.py to topologyattrs.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core/accessors.py to accessors.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core/groups.py to groups.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/core/universe.py to universe.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/version.py to version.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations/base.py to base.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations/positionaveraging.py to positionaveraging.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations/fit.py to fit.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations/boxdimensions.py to boxdimensions.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations/translate.py to translate.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations/rotate.py to rotate.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/transformations/wrap.py to wrap.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/PSFParser.py to PSFParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/LAMMPSParser.py to LAMMPSParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/GSDParser.py to GSDParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/DLPolyParser.py to DLPolyParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/XYZParser.py to XYZParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/PDBQTParser.py to PDBQTParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/HoomdXMLParser.py to HoomdXMLParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/MinimalParser.py to MinimalParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/TPRParser.py to TPRParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/base.py to base.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/GMSParser.py to GMSParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/CRDParser.py to CRDParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/PQRParser.py to PQRParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/guessers.py to guessers.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/tables.py to tables.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/TOPParser.py to TOPParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/PDBParser.py to PDBParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/ParmEdParser.py to ParmEdParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/MMTFParser.py to MMTFParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/ExtendedPDBParser.py to ExtendedPDBParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/MOL2Parser.py to MOL2Parser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/GROParser.py to GROParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/core.py to core.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/tpr/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/tpr/obj.py to obj.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/tpr/utils.py to utils.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/tpr/setting.py to setting.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/TXYZParser.py to TXYZParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/ITPParser.py to ITPParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/FHIAIMSParser.py to FHIAIMSParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/topology/DMSParser.py to DMSParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/visualization/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/visualization/streamlines.py to streamlines.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/visualization/streamlines_3D.py to streamlines_3D.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections/jmol.py to jmol.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections/base.py to base.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections/pymol.py to pymol.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections/vmd.py to vmd.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections/gromacs.py to gromacs.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/selections/charmm.py to charmm.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/FHIAIMS.py to FHIAIMS.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/null.py to null.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/H5MD.py to H5MD.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/DCD.py to DCD.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/XTC.py to XTC.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/MOL2.py to MOL2.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/MMTF.py to MMTF.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/memory.py to memory.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/chain.py to chain.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/DMS.py to DMS.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/GRO.py to GRO.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/base.py to base.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/ParmEd.py to ParmEd.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/DLPoly.py to DLPoly.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/LAMMPS.py to LAMMPS.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/CRD.py to CRD.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/PDBQT.py to PDBQT.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/GSD.py to GSD.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/GMS.py to GMS.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/INPCRD.py to INPCRD.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/PDB.py to PDB.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/chemfiles.py to chemfiles.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/TRJ.py to TRJ.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/XDR.py to XDR.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/TRR.py to TRR.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/core.py to core.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/TXYZ.py to TXYZ.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/TRZ.py to TRZ.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/PQR.py to PQR.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/XYZ.py to XYZ.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/coordinates/NAMDBIN.py to NAMDBIN.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/exceptions.py to exceptions.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters/RDKitParser.py to RDKitParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters/OpenMMParser.py to OpenMMParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters/ParmEd.py to ParmEd.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters/OpenMM.py to OpenMM.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters/RDKit.py to RDKit.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/converters/ParmEdParser.py to ParmEdParser.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/auxiliary/__init__.py to __init__.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/auxiliary/base.py to base.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/auxiliary/XVG.py to XVG.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/auxiliary/core.py to core.cpython-39.pyc byte-compiling /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis/units.py to units.cpython-39.pyc writing byte-compilation script '/tmp/tmprlb2_on_.py' /usr/local/bin/python3.9 /tmp/tmprlb2_on_.py removing /tmp/tmprlb2_on_.py running install_egg_info running egg_info writing MDAnalysis.egg-info/PKG-INFO writing dependency_links to MDAnalysis.egg-info/dependency_links.txt writing requirements to MDAnalysis.egg-info/requires.txt writing top-level names to MDAnalysis.egg-info/top_level.txt reading manifest file 'MDAnalysis.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files matching 'doc/html/html' found anywhere in distribution warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '*.pyo' found anywhere in distribution warning: no previously-included files matching '*.pyd' found anywhere in distribution warning: no previously-included files matching '*~' found anywhere in distribution warning: no previously-included files matching '.git' found anywhere in distribution adding license file 'LICENSE' adding license file 'AUTHORS' writing manifest file 'MDAnalysis.egg-info/SOURCES.txt' Copying MDAnalysis.egg-info to /wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/stage/usr/local/lib/python3.9/site-packages/MDAnalysis-2.3.0-py3.9.egg-info running install_scripts writing list of installed files to '/wrkdirs/usr/ports/science/py-MDAnalysis/work-py39/.PLIST.pymodtmp' ====> 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=2024-03-30T18:41:24+0000' 'PKG_NOTE_ports_top_git_hash=c2c35d895e' 'PKG_NOTE_ports_top_checkout_unclean=yes' 'PKG_NOTE_port_git_hash=3d9a815d9c' 'PKG_NOTE_port_checkout_unclean=no' 'PKG_NOTE_built_by=poudriere-git-3.4.99.20240122_1' NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building packages for py39-MDAnalysis-2.3.0_1 ===> Building py39-MDAnalysis-2.3.0_1 =========================================================================== =>> Cleaning up wrkdir ===> Cleaning for py39-MDAnalysis-2.3.0_1 build of science/py-MDAnalysis@py39 | py39-MDAnalysis-2.3.0_1 ended at Sat Mar 30 18:44:55 GMT 2024 build time: 00:03:33