=> Building biology/python-nexus@py36 Started : Thursday, 7 MAR 2019 at 18:37:40 UTC Platform: 5.5-DEVELOPMENT DragonFly v5.5.0.192.g15ae7f0-DEVELOPMENT #34: Tue Feb 19 09:07:07 PST 2019 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.5-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.5-SYNTH UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 TERM=dumb PKG_CACHEDIR=/var/cache/pkg8 PKG_DBDIR=/var/db/pkg8 PORTSDIR=/xports LANG=C HOME=/root USER=root -------------------------------------------------- -- Options -------------------------------------------------- -------------------------------------------------- -- CONFIGURE_ENV -------------------------------------------------- PYTHON="/usr/local/bin/python3.6" XDG_DATA_HOME=/construction/biology/python-nexus XDG_CONFIG_HOME=/construction/biology/python-nexus 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 SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- XDG_DATA_HOME=/construction/biology/python-nexus XDG_CONFIG_HOME=/construction/biology/python-nexus 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 NO_PIE=yes 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" -------------------------------------------------- -- MAKE_ARGS -------------------------------------------------- DESTDIR=/construction/biology/python-nexus/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- PYTHON_INCLUDEDIR=include/python3.6m PYTHON_LIBDIR=lib/python3.6 PYTHON_PLATFORM=dragonfly5 PYTHON_PYOEXTENSION=opt-1.pyc PYTHON_SITELIBDIR=lib/python3.6/site-packages PYTHON_SUFFIX=36 PYTHON_VER=3.6 PYTHON_VERSION=python3.6 PYTHON2="@comment " PYTHON3="" OSREL=5.5 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" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- 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 -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=Release-BE USE_PACKAGE_DEPENDS_ONLY=yes PACKAGE_BUILDING=yes BATCH=yes PKG_CREATE_VERBOSE=yes PORTSDIR=/xports DISTDIR=/distfiles WRKDIRPREFIX=/construction PORT_DBDIR=/options PACKAGES=/packages MAKE_JOBS_NUMBER_LIMIT=5 LICENSES_ACCEPTED= NONE HAVE_COMPAT_IA32_KERN= CONFIGURE_MAX_CMD_LEN=262144 _PERL5_FROM_BIN=5.26.2 _ALTCCVERSION_921dbbb2=none _OBJC_ALTCCVERSION_921dbbb2=none _SMP_CPUS=8 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=500500 OSVERSION=9999999 OSREL=5.5 _OSRELEASE=5.5-SYNTH PYTHONBASE=/usr/local _PKG_CHECKED=1 -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- ===> License BSD3CLAUSE accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> py36-python-nexus-1.63 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.5_5.txz Installing pkg-1.10.5_5... Extracting pkg-1.10.5_5: .......... done ===> py36-python-nexus-1.63 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py36-python-nexus-1.63 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by py36-python-nexus-1.63 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by py36-python-nexus-1.63 for building => SHA256 Checksum OK for python-nexus-1.63.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by py36-python-nexus-1.63 for building ===> Extracting for py36-python-nexus-1.63 => SHA256 Checksum OK for python-nexus-1.63.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for py36-python-nexus-1.63 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> py36-python-nexus-1.63 depends on package: py36-setuptools>0 - not found ===> Installing existing package /packages/All/py36-setuptools-40.8.0.txz Installing py36-setuptools-40.8.0... `-- Installing python36-3.6.8... | `-- Installing expat-2.2.6_1... | `-- Extracting expat-2.2.6_1: .......... done | `-- Installing gettext-runtime-0.19.8.1_2... | | `-- Installing indexinfo-0.3.1... | | `-- Extracting indexinfo-0.3.1: .... done | `-- Extracting gettext-runtime-0.19.8.1_2: .......... done | `-- Installing libffi-3.2.1_3... | `-- Extracting libffi-3.2.1_3: .......... done | `-- Installing libressl-2.8.3... | `-- Extracting libressl-2.8.3: .......... done | `-- Installing ncurses-6.1.20190112... | `-- Extracting ncurses-6.1.20190112: .......... done | `-- Installing readline-7.0.5... | `-- Extracting readline-7.0.5: .......... done `-- Extracting python36-3.6.8: .......... done Extracting py36-setuptools-40.8.0: .......... done Message from python36-3.6.8: =========================================================================== Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py36-gdbm databases/py-gdbm@py36 py36-sqlite3 databases/py-sqlite3@py36 py36-tkinter x11-toolkits/py-tkinter@py36 =========================================================================== Message from py36-setuptools-40.8.0: ******************************************************************* Only /usr/local/bin/easy_install-3.6 script has been installed since Python 3.6 is not the default Python version. ******************************************************************* ===> py36-python-nexus-1.63 depends on package: py36-setuptools>0 - found ===> Returning to build of py36-python-nexus-1.63 ===> py36-python-nexus-1.63 depends on file: /usr/local/bin/python3.6 - found -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for py36-python-nexus-1.63 running config -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for py36-python-nexus-1.63 running build running build_py creating build creating build/lib creating build/lib/nexus copying nexus/exceptions.py -> build/lib/nexus copying nexus/checker.py -> build/lib/nexus copying nexus/__init__.py -> build/lib/nexus copying nexus/reader.py -> build/lib/nexus copying nexus/writer.py -> build/lib/nexus creating build/lib/nexus/tools copying nexus/tools/binarise.py -> build/lib/nexus/tools copying nexus/tools/multistatise.py -> build/lib/nexus/tools copying nexus/tools/__init__.py -> build/lib/nexus/tools copying nexus/tools/shufflenexus.py -> build/lib/nexus/tools copying nexus/tools/check_for_valid_NexusReader.py -> build/lib/nexus/tools copying nexus/tools/sites.py -> build/lib/nexus/tools copying nexus/tools/combine_nexuses.py -> build/lib/nexus/tools copying nexus/tools/check_zeros.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_reader.py -> build/lib/nexus/test copying nexus/test/test_handler_GenericHandler.py -> build/lib/nexus/test copying nexus/test/test_maddison.py -> build/lib/nexus/test copying nexus/test/test_handler_DataHandler.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_writer.py -> build/lib/nexus/test copying nexus/test/test_reader_manipulation.py -> build/lib/nexus/test copying nexus/test/test_handler_TreeHandler.py -> build/lib/nexus/test copying nexus/test/test_handler_TaxaHandler.py -> build/lib/nexus/test copying nexus/test/__init__.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_deinterleave.py -> build/lib/nexus/bin copying nexus/bin/nexus_randomise.py -> build/lib/nexus/bin copying nexus/bin/nexus_nexusmanip.py -> build/lib/nexus/bin copying nexus/bin/nexus_binary2multistate.py -> build/lib/nexus/bin copying nexus/bin/nexus_describecharacter.py -> build/lib/nexus/bin copying nexus/bin/nexus_multistate2binary.py -> build/lib/nexus/bin copying nexus/bin/nexus_tally.py -> build/lib/nexus/bin copying nexus/bin/nexus_treemanip.py -> build/lib/nexus/bin copying nexus/bin/nexus_describetaxa.py -> build/lib/nexus/bin copying nexus/bin/nexuscheck.py -> build/lib/nexus/bin copying nexus/bin/nexus_combine_nexus.py -> build/lib/nexus/bin copying nexus/bin/nexus_to_fasta.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-3.6 copying and adjusting nexus/bin/nexus_anonymise.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_binary2multistate.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_combine_nexus.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_deinterleave.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_describecharacter.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_describetaxa.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_multistate2binary.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_nexusmanip.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_randomise.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_tally.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_to_fasta.py -> build/scripts-3.6 copying and adjusting nexus/bin/nexus_treemanip.py -> build/scripts-3.6 changing mode of build/scripts-3.6/nexus_anonymise.py from 644 to 755 changing mode of build/scripts-3.6/nexus_binary2multistate.py from 644 to 755 changing mode of build/scripts-3.6/nexus_combine_nexus.py from 644 to 755 changing mode of build/scripts-3.6/nexus_deinterleave.py from 644 to 755 changing mode of build/scripts-3.6/nexus_describecharacter.py from 644 to 755 changing mode of build/scripts-3.6/nexus_describetaxa.py from 644 to 755 changing mode of build/scripts-3.6/nexus_multistate2binary.py from 644 to 755 changing mode of build/scripts-3.6/nexus_nexusmanip.py from 644 to 755 changing mode of build/scripts-3.6/nexus_randomise.py from 644 to 755 changing mode of build/scripts-3.6/nexus_tally.py from 644 to 755 changing mode of build/scripts-3.6/nexus_to_fasta.py from 644 to 755 changing mode of build/scripts-3.6/nexus_treemanip.py from 644 to 755 -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- ===> py36-python-nexus-1.63 depends on package: py36-setuptools>0 - found ===> py36-python-nexus-1.63 depends on file: /usr/local/bin/python3.6 - found -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for py36-python-nexus-1.63 ===> Generating temporary packing list running install 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/python3.6 creating /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages creating /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus copying build/lib/nexus/writer.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus creating /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/test_reader.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/test_writer.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/test_regressions.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/test_checker.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/__init__.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/test_handler_TaxaHandler.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/test_maddison.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/test_handler_DataHandler.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/test_reader_manipulation.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/test_handler_TreeHandler.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test copying build/lib/nexus/test/test_handler_GenericHandler.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test creating /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_anonymise.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_binary2multistate.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_deinterleave.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_multistate2binary.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_describecharacter.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/__init__.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_nexusmanip.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_describetaxa.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_to_fasta.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexuscheck.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_tally.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_treemanip.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_randomise.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/bin/nexus_combine_nexus.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin copying build/lib/nexus/exceptions.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus copying build/lib/nexus/__init__.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus copying build/lib/nexus/reader.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus copying build/lib/nexus/checker.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus creating /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools copying build/lib/nexus/tools/multistatise.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools copying build/lib/nexus/tools/combine_nexuses.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools copying build/lib/nexus/tools/check_for_valid_NexusReader.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools copying build/lib/nexus/tools/sites.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools copying build/lib/nexus/tools/binarise.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools copying build/lib/nexus/tools/check_zeros.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools copying build/lib/nexus/tools/__init__.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools copying build/lib/nexus/tools/shufflenexus.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools creating /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/handlers copying build/lib/nexus/handlers/__init__.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/handlers copying build/lib/nexus/handlers/tree.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/handlers copying build/lib/nexus/handlers/taxa.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/handlers copying build/lib/nexus/handlers/data.py -> /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/handlers byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/writer.py to writer.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/test_reader.py to test_reader.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/test_writer.py to test_writer.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/test_regressions.py to test_regressions.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/test_checker.py to test_checker.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/test_handler_TaxaHandler.py to test_handler_TaxaHandler.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/test_maddison.py to test_maddison.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/test_handler_DataHandler.py to test_handler_DataHandler.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/test_reader_manipulation.py to test_reader_manipulation.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/test_handler_TreeHandler.py to test_handler_TreeHandler.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/test/test_handler_GenericHandler.py to test_handler_GenericHandler.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_anonymise.py to nexus_anonymise.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_binary2multistate.py to nexus_binary2multistate.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_deinterleave.py to nexus_deinterleave.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_multistate2binary.py to nexus_multistate2binary.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_describecharacter.py to nexus_describecharacter.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_nexusmanip.py to nexus_nexusmanip.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_describetaxa.py to nexus_describetaxa.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_to_fasta.py to nexus_to_fasta.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexuscheck.py to nexuscheck.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_tally.py to nexus_tally.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_treemanip.py to nexus_treemanip.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_randomise.py to nexus_randomise.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/bin/nexus_combine_nexus.py to nexus_combine_nexus.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/exceptions.py to exceptions.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/reader.py to reader.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/checker.py to checker.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools/multistatise.py to multistatise.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools/combine_nexuses.py to combine_nexuses.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools/check_for_valid_NexusReader.py to check_for_valid_NexusReader.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools/sites.py to sites.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools/binarise.py to binarise.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools/check_zeros.py to check_zeros.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/tools/shufflenexus.py to shufflenexus.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/handlers/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/handlers/tree.py to tree.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/handlers/taxa.py to taxa.cpython-36.pyc byte-compiling /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/nexus/handlers/data.py to data.cpython-36.pyc writing byte-compilation script '/tmp/tmp5d3j1jt1.py' /usr/local/bin/python3.6 /tmp/tmp5d3j1jt1.py File "/usr/local/lib/python3.6/site-packages/nexus/bin/nexuscheck.py", line 3 SyntaxError: from __future__ imports must occur at the beginning of the file removing /tmp/tmp5d3j1jt1.py running install_egg_info Copying python_nexus.egg-info to /construction/biology/python-nexus/stage/usr/local/lib/python3.6/site-packages/python_nexus-1.63-py3.6.egg-info running install_scripts copying build/scripts-3.6/nexus_anonymise.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_describecharacter.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_describetaxa.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_multistate2binary.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_combine_nexus.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_deinterleave.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_treemanip.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_nexusmanip.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_binary2multistate.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_tally.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_randomise.py -> /construction/biology/python-nexus/stage/usr/local/bin copying build/scripts-3.6/nexus_to_fasta.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_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_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_treemanip.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_binary2multistate.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_randomise.py to 755 changing mode of /construction/biology/python-nexus/stage/usr/local/bin/nexus_to_fasta.py to 755 writing list of installed files to '/construction/biology/python-nexus/.PLIST.pymodtmp' File "/usr/local/lib/python3.6/site-packages/nexus/bin/nexuscheck.py", line 3 SyntaxError: from __future__ imports must occur at the beginning of the file ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for py36-python-nexus-1.63 file sizes/checksums [144]: .. done packing files [144]: .. done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Thursday, 7 MAR 2019 at 18:37:54 UTC Duration: 00:00:13