------------------------------------------------------------------------------- -- Phase: Environment ------------------------------------------------------------------------------- NO_DEPENDS=1 FLAVOR=py39 UNAME_r=6.5 UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=unknown UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 LANG=C HOME=/root USER=root TERM=dumb SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: showconfig ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ENV ------------------------------------------------------------------------------- PYTHON="/usr/local/bin/python3.9" XDG_DATA_HOME=/construction/biology/python-nexus XDG_CONFIG_HOME=/construction/biology/python-nexus XDG_CACHE_HOME=/construction/biology/python-nexus/.cache HOME=/construction/biology/python-nexus TMPDIR="/tmp" PATH=/construction/biology/python-nexus/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/biology/python-nexus/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ARGS ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ENV ------------------------------------------------------------------------------- XDG_DATA_HOME=/construction/biology/python-nexus XDG_CONFIG_HOME=/construction/biology/python-nexus XDG_CACHE_HOME=/construction/biology/python-nexus/.cache HOME=/construction/biology/python-nexus TMPDIR="/tmp" PATH=/construction/biology/python-nexus/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/biology/python-nexus/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc80 LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ARGS ------------------------------------------------------------------------------- DESTDIR=/construction/biology/python-nexus/stage SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: PLIST_SUB ------------------------------------------------------------------------------- PYTHON_INCLUDEDIR=include/python3.9 PYTHON_LIBDIR=lib/python3.9 PYTHON_PLATFORM=dragonfly6 PYTHON_SITELIBDIR=lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" OSREL=6.5 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/python-nexus" EXAMPLESDIR="share/examples/python-nexus" DATADIR="share/python-nexus" WWWDIR="www/python-nexus" ETCDIR="etc/python-nexus" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: SUB_LIST ------------------------------------------------------------------------------- PYTHON_INCLUDEDIR=/usr/local/include/python3.9 PYTHON_LIBDIR=/usr/local/lib/python3.9 PYTHON_PLATFORM=dragonfly6 PYTHON_SITELIBDIR=/usr/local/lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/python-nexus DOCSDIR=/usr/local/share/doc/python-nexus EXAMPLESDIR=/usr/local/share/examples/python-nexus WWWDIR=/usr/local/www/python-nexus ETCDIR=/usr/local/etc/python-nexus SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: /etc/make.conf ------------------------------------------------------------------------------- DPORTS_BUILDER=yes DISABLE_LICENSES=yes DEFAULT_VERSIONS=ssl=openssl FORCE_PACKAGE=yes DEVELOPER=yes DFLY_STING_XFAIL=yes USE_PACKAGE_DEPENDS_ONLY=yes PORTSDIR=/xports PORT_DBDIR=/options PKG_DBDIR=/var/db/pkg PKG_CACHEDIR=/var/cache/pkg PKG_COMPRESSION_FORMAT=.tgz DEVELOPER=1 WITH_CCACHE_BUILD=yes CCACHE_DIR=/ccache UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=600503 OSVERSION=9999999 OSREL=6.5 _OSRELEASE=6.5-SYNTH DISTDIR=/distfiles WRKDIRPREFIX=/construction BATCH=yes PACKAGE_BUILDING=yes PKG_CREATE_VERBOSE=yes MAKE_JOBS_NUMBER=13 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/indexinfo-0.3.1.pkg Installing /packages/All/libffi-3.4.4.pkg Installing /packages/All/expat-2.5.0.pkg Installing /packages/All/mpdecimal-2.5.1.pkg Installing /packages/All/ncurses-6.4.pkg ===== Message from ncurses-6.4: -- To get the terminfo database please install the terminfo-db package: pkg install terminfo-db Installing /packages/All/readline-8.2.1.pkg Installing /packages/All/gettext-runtime-0.21.1.pkg Installing /packages/All/openssl-1.1.1u,1.pkg Installing /packages/All/python39-3.9.17.pkg ===== Message from python39-3.9.17: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py39-gdbm databases/py-gdbm@py39 py39-sqlite3 databases/py-sqlite3@py39 py39-tkinter x11-toolkits/py-tkinter@py39 Installing /packages/All/py39-setuptools-63.1.0_1.pkg Installing /packages/All/ccache-3.7.12_4.pkg Create compiler links... create symlink for cc create symlink for cc (world) create symlink for c++ create symlink for c++ (world) create symlink for CC create symlink for CC (world) create symlink for gcc create symlink for gcc (world) create symlink for g++ create symlink for g++ (world) ===== Message from ccache-3.7.12_4: -- NOTE: Please read /usr/local/share/doc/ccache/ccache-howto-freebsd.txt for information on using ccache with FreeBSD ports and src. SUCCEEDED 00:00:04 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> py39-python-nexus-1.63 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> py39-python-nexus-1.63 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-python-nexus-1.63 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> py39-python-nexus-1.63 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-python-nexus-1.63 for building => SHA256 Checksum OK for python-nexus-1.63.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> py39-python-nexus-1.63 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-python-nexus-1.63 for building ===> Extracting for py39-python-nexus-1.63 => SHA256 Checksum OK for python-nexus-1.63.tar.gz. Extracted Memory Use: 0.29M SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for py39-python-nexus-1.63 ===> Applying ports patches for py39-python-nexus-1.63 from /xports/biology/python-nexus/files SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> py39-python-nexus-1.63 depends on package: py39-setuptools>=63.1.0 - found ===> py39-python-nexus-1.63 depends on file: /usr/local/bin/python3.9 - found ===> py39-python-nexus-1.63 depends on file: /usr/local/bin/ccache - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> py39-python-nexus-1.63 depends on package: py39-setuptools>=63.1.0 - found ===> py39-python-nexus-1.63 depends on file: /usr/local/bin/python3.9 - found ===> py39-python-nexus-1.63 depends on file: /usr/local/bin/ccache - found ===> Configuring for py39-python-nexus-1.63 running config SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for py39-python-nexus-1.63 running build running build_py creating build creating build/lib creating build/lib/nexus copying nexus/__init__.py -> build/lib/nexus copying nexus/reader.py -> build/lib/nexus copying nexus/exceptions.py -> build/lib/nexus copying nexus/writer.py -> build/lib/nexus copying nexus/checker.py -> build/lib/nexus creating build/lib/nexus/tools copying nexus/tools/check_zeros.py -> build/lib/nexus/tools copying nexus/tools/multistatise.py -> build/lib/nexus/tools copying nexus/tools/check_for_valid_NexusReader.py -> build/lib/nexus/tools copying nexus/tools/shufflenexus.py -> build/lib/nexus/tools copying nexus/tools/binarise.py -> build/lib/nexus/tools copying nexus/tools/__init__.py -> build/lib/nexus/tools copying nexus/tools/sites.py -> build/lib/nexus/tools copying nexus/tools/combine_nexuses.py -> build/lib/nexus/tools creating build/lib/nexus/handlers copying nexus/handlers/tree.py -> build/lib/nexus/handlers copying nexus/handlers/__init__.py -> build/lib/nexus/handlers copying nexus/handlers/taxa.py -> build/lib/nexus/handlers copying nexus/handlers/data.py -> build/lib/nexus/handlers creating build/lib/nexus/test copying nexus/test/test_handler_DataHandler.py -> build/lib/nexus/test copying nexus/test/test_reader.py -> build/lib/nexus/test copying nexus/test/test_writer.py -> build/lib/nexus/test copying nexus/test/test_handler_TaxaHandler.py -> build/lib/nexus/test copying nexus/test/test_handler_TreeHandler.py -> build/lib/nexus/test copying nexus/test/test_handler_GenericHandler.py -> build/lib/nexus/test copying nexus/test/__init__.py -> build/lib/nexus/test copying nexus/test/test_regressions.py -> build/lib/nexus/test copying nexus/test/test_checker.py -> build/lib/nexus/test copying nexus/test/test_reader_manipulation.py -> build/lib/nexus/test copying nexus/test/test_maddison.py -> build/lib/nexus/test creating build/lib/nexus/bin copying nexus/bin/__init__.py -> build/lib/nexus/bin copying nexus/bin/nexus_anonymise.py -> build/lib/nexus/bin copying nexus/bin/nexus_binary2multistate.py -> build/lib/nexus/bin copying nexus/bin/nexus_combine_nexus.py -> build/lib/nexus/bin copying nexus/bin/nexus_deinterleave.py -> build/lib/nexus/bin copying nexus/bin/nexus_describecharacter.py -> build/lib/nexus/bin copying nexus/bin/nexus_describetaxa.py -> build/lib/nexus/bin copying nexus/bin/nexus_multistate2binary.py -> build/lib/nexus/bin copying nexus/bin/nexus_nexusmanip.py -> build/lib/nexus/bin copying nexus/bin/nexus_randomise.py -> build/lib/nexus/bin copying nexus/bin/nexus_tally.py -> build/lib/nexus/bin copying nexus/bin/nexus_to_fasta.py -> build/lib/nexus/bin copying nexus/bin/nexus_treemanip.py -> build/lib/nexus/bin copying nexus/bin/nexuscheck.py -> build/lib/nexus/bin running egg_info writing python_nexus.egg-info/PKG-INFO writing dependency_links to python_nexus.egg-info/dependency_links.txt writing requirements to python_nexus.egg-info/requires.txt writing top-level names to python_nexus.egg-info/top_level.txt reading manifest file 'python_nexus.egg-info/SOURCES.txt' writing manifest file 'python_nexus.egg-info/SOURCES.txt' running build_scripts creating build/scripts-3.9 copying and adjusting nexus/bin/nexus_anonymise.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_binary2multistate.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_combine_nexus.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_deinterleave.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_describecharacter.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_describetaxa.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_multistate2binary.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_nexusmanip.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_randomise.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_tally.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_to_fasta.py -> build/scripts-3.9 copying and adjusting nexus/bin/nexus_treemanip.py -> build/scripts-3.9 changing mode of build/scripts-3.9/nexus_anonymise.py from 644 to 755 changing mode of build/scripts-3.9/nexus_binary2multistate.py from 644 to 755 changing mode of build/scripts-3.9/nexus_combine_nexus.py from 644 to 755 changing mode of build/scripts-3.9/nexus_deinterleave.py from 644 to 755 changing mode of build/scripts-3.9/nexus_describecharacter.py from 644 to 755 changing mode of build/scripts-3.9/nexus_describetaxa.py from 644 to 755 changing mode of build/scripts-3.9/nexus_multistate2binary.py from 644 to 755 changing mode of build/scripts-3.9/nexus_nexusmanip.py from 644 to 755 changing mode of build/scripts-3.9/nexus_randomise.py from 644 to 755 changing mode of build/scripts-3.9/nexus_tally.py from 644 to 755 changing mode of build/scripts-3.9/nexus_to_fasta.py from 644 to 755 changing mode of build/scripts-3.9/nexus_treemanip.py from 644 to 755 SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- ===> py39-python-nexus-1.63 depends on package: py39-setuptools>=63.1.0 - found ===> py39-python-nexus-1.63 depends on file: /usr/local/bin/python3.9 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for py39-python-nexus-1.63 ===> py39-python-nexus-1.63 depends on package: py39-setuptools>=63.1.0 - found ===> py39-python-nexus-1.63 depends on file: /usr/local/bin/python3.9 - found ===> Generating temporary packing list 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 running egg_info writing python_nexus.egg-info/PKG-INFO writing dependency_links to python_nexus.egg-info/dependency_links.txt writing requirements to python_nexus.egg-info/requires.txt writing top-level names to python_nexus.egg-info/top_level.txt reading manifest file 'python_nexus.egg-info/SOURCES.txt' writing manifest file 'python_nexus.egg-info/SOURCES.txt' running build_scripts running install_lib creating /construction/biology/python-nexus/stage/usr/local/lib/python3.9 creating /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages creating /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus copying build/lib/nexus/__init__.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus copying build/lib/nexus/reader.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus copying build/lib/nexus/exceptions.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus copying build/lib/nexus/writer.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus copying build/lib/nexus/checker.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus creating /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools copying build/lib/nexus/tools/check_zeros.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools copying build/lib/nexus/tools/multistatise.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools copying build/lib/nexus/tools/check_for_valid_NexusReader.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools copying build/lib/nexus/tools/shufflenexus.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools copying build/lib/nexus/tools/binarise.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools copying build/lib/nexus/tools/__init__.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools copying build/lib/nexus/tools/sites.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools copying build/lib/nexus/tools/combine_nexuses.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools creating /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/handlers copying build/lib/nexus/handlers/tree.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/handlers copying build/lib/nexus/handlers/__init__.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/handlers copying build/lib/nexus/handlers/taxa.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/handlers copying build/lib/nexus/handlers/data.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/handlers creating /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/test_handler_DataHandler.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/test_reader.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/test_writer.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/test_handler_TaxaHandler.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/test_handler_TreeHandler.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/test_handler_GenericHandler.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/__init__.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/test_regressions.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/test_checker.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/test_reader_manipulation.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test copying build/lib/nexus/test/test_maddison.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test creating /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/__init__.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_anonymise.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_binary2multistate.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_combine_nexus.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_deinterleave.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_describecharacter.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_describetaxa.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_multistate2binary.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_nexusmanip.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_randomise.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_tally.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_to_fasta.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_treemanip.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin copying build/lib/nexus/bin/nexuscheck.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/__init__.py to __init__.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/reader.py to reader.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/exceptions.py to exceptions.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/writer.py to writer.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/checker.py to checker.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools/check_zeros.py to check_zeros.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools/multistatise.py to multistatise.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools/check_for_valid_NexusReader.py to check_for_valid_NexusReader.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools/shufflenexus.py to shufflenexus.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools/binarise.py to binarise.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools/__init__.py to __init__.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools/sites.py to sites.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/tools/combine_nexuses.py to combine_nexuses.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/handlers/tree.py to tree.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/handlers/__init__.py to __init__.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/handlers/taxa.py to taxa.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/handlers/data.py to data.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/test_handler_DataHandler.py to test_handler_DataHandler.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/test_reader.py to test_reader.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/test_writer.py to test_writer.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/test_handler_TaxaHandler.py to test_handler_TaxaHandler.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/test_handler_TreeHandler.py to test_handler_TreeHandler.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/test_handler_GenericHandler.py to test_handler_GenericHandler.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/__init__.py to __init__.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/test_regressions.py to test_regressions.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/test_checker.py to test_checker.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/test_reader_manipulation.py to test_reader_manipulation.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/test/test_maddison.py to test_maddison.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/__init__.py to __init__.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_anonymise.py to nexus_anonymise.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_binary2multistate.py to nexus_binary2multistate.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_combine_nexus.py to nexus_combine_nexus.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_deinterleave.py to nexus_deinterleave.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_describecharacter.py to nexus_describecharacter.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_describetaxa.py to nexus_describetaxa.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_multistate2binary.py to nexus_multistate2binary.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_nexusmanip.py to nexus_nexusmanip.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_randomise.py to nexus_randomise.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_tally.py to nexus_tally.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_to_fasta.py to nexus_to_fasta.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexus_treemanip.py to nexus_treemanip.cpython-39.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/nexus/bin/nexuscheck.py to nexuscheck.cpython-39.pyc writing byte-compilation script '/tmp/tmphy5l4uty.py' /usr/local/bin/python3.9 /tmp/tmphy5l4uty.py removing /tmp/tmphy5l4uty.py running install_egg_info Copying python_nexus.egg-info to /construction/biology/python-nexus/stage/usr/local/lib/python3.9/site-packages/python_nexus-1.63-py3.9.egg-info running install_scripts copying build/scripts-3.9/nexus_anonymise.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_binary2multistate.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_combine_nexus.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_deinterleave.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_describecharacter.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_describetaxa.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_multistate2binary.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_nexusmanip.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_randomise.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_tally.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_to_fasta.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.9/nexus_treemanip.py -> /construction/biology/python-nexus/stage/usr/local/bin changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_anonymise.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_binary2multistate.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_combine_nexus.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_deinterleave.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_describecharacter.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_describetaxa.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_multistate2binary.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_nexusmanip.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_randomise.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_tally.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_to_fasta.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_treemanip.py to 755 writing list of installed files to '/construction/biology/python-nexus/.PLIST.pymodtmp' ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:02 ------------------------------------------------------------------------------- -- Phase: check-plist ------------------------------------------------------------------------------- ====> Checking for pkg-plist issues (check-plist) ===> Parsing plist ===> Checking for items in STAGEDIR missing from pkg-plist ===> Checking for items in pkg-plist which are not in STAGEDIR ===> No pkg-plist issues found (check-plist) SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for py39-python-nexus-1.63 file sizes/checksums [143]: 0% file sizes/checksums [143]: 69% file sizes/checksums [143]: 100% Service unavailablepacking files [143]: 0% packing files [143]: 69% packing files [143]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:00 TOTAL TIME 00:00:09