------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/expat-2.2.8.txz pkg: Cannot runscript POST-INSTALL:Bad file descriptor Installing /packages/All/indexinfo-0.3.1.txz Installing /packages/All/libffi-3.2.1_3.txz pkg: Cannot runscript POST-INSTALL:Bad file descriptor Installing /packages/All/ncurses-6.1.20190525.txz pkg: Cannot runscript POST-INSTALL:Bad file descriptor Installing /packages/All/readline-8.0.4.txz pkg: Cannot runscript POST-INSTALL:Bad file descriptor Installing /packages/All/gettext-runtime-0.20.1.txz pkg: Cannot runscript POST-INSTALL:Bad file descriptor Installing /packages/All/openssl-1.1.1d,1.txz pkg: Cannot runscript POST-INSTALL:Bad file descriptor Installing /packages/All/python27-2.7.17_1.txz pkg: Cannot runscript POST-INSTALL:Bad file descriptor ===== Message from python27-2.7.17_1: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: bsddb databases/py-bsddb gdbm databases/py-gdbm sqlite3 databases/py-sqlite3 tkinter x11-toolkits/py-tkinter Installing /packages/All/py27-setuptools-44.0.0.txz pkg: Cannot runscript POST-INSTALL:Bad file descriptor ===== Message from py27-setuptools-44.0.0: -- Only /usr/local/bin/easy_install-2.7 script has been installed since Python 2.7 is not the default Python version. Installing /packages/All/py27-msgpack-0.6.2.txz SUCCEEDED 00:00:04 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> py27-mmtf-python-1.1.2 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> py27-mmtf-python-1.1.2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py27-mmtf-python-1.1.2 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> py27-mmtf-python-1.1.2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py27-mmtf-python-1.1.2 for building => SHA256 Checksum OK for rcsb-mmtf-python-v1.1.2_GH0.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> py27-mmtf-python-1.1.2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py27-mmtf-python-1.1.2 for building ===> Extracting for py27-mmtf-python-1.1.2 => SHA256 Checksum OK for rcsb-mmtf-python-v1.1.2_GH0.tar.gz. Extracted Memory Use: 0.20M SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for py27-mmtf-python-1.1.2 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> py27-mmtf-python-1.1.2 depends on package: py27-setuptools>0 - found ===> py27-mmtf-python-1.1.2 depends on file: /usr/local/bin/python2.7 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> py27-mmtf-python-1.1.2 depends on package: py27-setuptools>0 - found ===> py27-mmtf-python-1.1.2 depends on file: /usr/local/bin/python2.7 - found ===> Configuring for py27-mmtf-python-1.1.2 ['mmtf', 'mmtf.codecs', 'mmtf.tests', 'mmtf.api', 'mmtf.converters', 'mmtf.utils', 'mmtf.codecs.encoders', 'mmtf.codecs.decoders'] running config SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for py27-mmtf-python-1.1.2 ['mmtf', 'mmtf.codecs', 'mmtf.tests', 'mmtf.api', 'mmtf.converters', 'mmtf.utils', 'mmtf.codecs.encoders', 'mmtf.codecs.decoders'] running build running build_py creating build creating build/lib creating build/lib/mmtf copying mmtf/__init__.py -> build/lib/mmtf creating build/lib/mmtf/codecs copying mmtf/codecs/codecs.py -> build/lib/mmtf/codecs copying mmtf/codecs/default_codec.py -> build/lib/mmtf/codecs copying mmtf/codecs/__init__.py -> build/lib/mmtf/codecs creating build/lib/mmtf/tests copying mmtf/tests/__init__.py -> build/lib/mmtf/tests copying mmtf/tests/codec_tests.py -> build/lib/mmtf/tests creating build/lib/mmtf/api copying mmtf/api/__init__.py -> build/lib/mmtf/api copying mmtf/api/mmtf_writer.py -> build/lib/mmtf/api copying mmtf/api/mmtf_reader.py -> build/lib/mmtf/api copying mmtf/api/default_api.py -> build/lib/mmtf/api creating build/lib/mmtf/converters copying mmtf/converters/numpy_converters.py -> build/lib/mmtf/converters copying mmtf/converters/converters.py -> build/lib/mmtf/converters copying mmtf/converters/__init__.py -> build/lib/mmtf/converters creating build/lib/mmtf/utils copying mmtf/utils/decoder_utils.py -> build/lib/mmtf/utils copying mmtf/utils/__init__.py -> build/lib/mmtf/utils copying mmtf/utils/codec_utils.py -> build/lib/mmtf/utils copying mmtf/utils/constants.py -> build/lib/mmtf/utils creating build/lib/mmtf/codecs/encoders copying mmtf/codecs/encoders/encoders.py -> build/lib/mmtf/codecs/encoders copying mmtf/codecs/encoders/__init__.py -> build/lib/mmtf/codecs/encoders creating build/lib/mmtf/codecs/decoders copying mmtf/codecs/decoders/__init__.py -> build/lib/mmtf/codecs/decoders copying mmtf/codecs/decoders/numpy_decoders.py -> build/lib/mmtf/codecs/decoders copying mmtf/codecs/decoders/decoders.py -> build/lib/mmtf/codecs/decoders SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- ===> py27-mmtf-python-1.1.2 depends on package: py27-msgpack>0 - found ===> py27-mmtf-python-1.1.2 depends on package: py27-setuptools>0 - found ===> py27-mmtf-python-1.1.2 depends on file: /usr/local/bin/python2.7 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for py27-mmtf-python-1.1.2 ===> py27-mmtf-python-1.1.2 depends on package: py27-msgpack>0 - found ===> py27-mmtf-python-1.1.2 depends on package: py27-setuptools>0 - found ===> py27-mmtf-python-1.1.2 depends on file: /usr/local/bin/python2.7 - found ===> Generating temporary packing list ['mmtf', 'mmtf.codecs', 'mmtf.tests', 'mmtf.api', 'mmtf.converters', 'mmtf.utils', 'mmtf.codecs.encoders', 'mmtf.codecs.decoders'] running install running build running build_py running install_lib creating /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7 creating /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages creating /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf creating /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/converters copying build/lib/mmtf/converters/__init__.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/converters copying build/lib/mmtf/converters/converters.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/converters copying build/lib/mmtf/converters/numpy_converters.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/converters creating /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/tests copying build/lib/mmtf/tests/codec_tests.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/tests copying build/lib/mmtf/tests/__init__.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/tests creating /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/utils copying build/lib/mmtf/utils/decoder_utils.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/utils copying build/lib/mmtf/utils/constants.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/utils copying build/lib/mmtf/utils/__init__.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/utils copying build/lib/mmtf/utils/codec_utils.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/utils creating /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/api copying build/lib/mmtf/api/__init__.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/api copying build/lib/mmtf/api/default_api.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/api copying build/lib/mmtf/api/mmtf_reader.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/api copying build/lib/mmtf/api/mmtf_writer.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/api creating /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs copying build/lib/mmtf/codecs/codecs.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs copying build/lib/mmtf/codecs/__init__.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs copying build/lib/mmtf/codecs/default_codec.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs creating /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/encoders copying build/lib/mmtf/codecs/encoders/encoders.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/encoders copying build/lib/mmtf/codecs/encoders/__init__.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/encoders creating /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/decoders copying build/lib/mmtf/codecs/decoders/numpy_decoders.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/decoders copying build/lib/mmtf/codecs/decoders/__init__.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/decoders copying build/lib/mmtf/codecs/decoders/decoders.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/decoders copying build/lib/mmtf/__init__.py -> /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/converters/__init__.py to __init__.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/converters/converters.py to converters.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/converters/numpy_converters.py to numpy_converters.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/tests/codec_tests.py to codec_tests.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/tests/__init__.py to __init__.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/utils/decoder_utils.py to decoder_utils.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/utils/constants.py to constants.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/utils/__init__.py to __init__.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/utils/codec_utils.py to codec_utils.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/api/__init__.py to __init__.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/api/default_api.py to default_api.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/api/mmtf_reader.py to mmtf_reader.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/api/mmtf_writer.py to mmtf_writer.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/codecs.py to codecs.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/__init__.py to __init__.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/default_codec.py to default_codec.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/encoders/encoders.py to encoders.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/encoders/__init__.py to __init__.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/decoders/numpy_decoders.py to numpy_decoders.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/decoders/__init__.py to __init__.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/codecs/decoders/decoders.py to decoders.pyc byte-compiling /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf/__init__.py to __init__.pyc writing byte-compilation script '/tmp/tmptUlwVi.py' /usr/local/bin/python2.7 -O /tmp/tmptUlwVi.py removing /tmp/tmptUlwVi.py running install_egg_info running egg_info creating mmtf_python.egg-info writing requirements to mmtf_python.egg-info/requires.txt writing mmtf_python.egg-info/PKG-INFO writing top-level names to mmtf_python.egg-info/top_level.txt writing dependency_links to mmtf_python.egg-info/dependency_links.txt writing manifest file 'mmtf_python.egg-info/SOURCES.txt' reading manifest file 'mmtf_python.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'mmtf_python.egg-info/SOURCES.txt' Copying mmtf_python.egg-info to /construction/science/py-mmtf-python/stage/usr/local/lib/python2.7/site-packages/mmtf_python-1.1.2-py2.7.egg-info running install_scripts writing list of installed files to '/construction/science/py-mmtf-python/.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 00:00:01 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for py27-mmtf-python-1.1.2 file sizes/checksums [71]: 0% file sizes/checksums [71]: 100% packing files [71]: 0% packing files [71]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:01 TOTAL TIME 00:00:09