=> Building biology/py-gffutils@py36 Started : Thursday, 7 MAR 2019 at 18:35:31 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/py-gffutils XDG_CONFIG_HOME=/construction/biology/py-gffutils HOME=/construction/biology/py-gffutils TMPDIR="/tmp" PATH=/construction/biology/py-gffutils/.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/py-gffutils XDG_CONFIG_HOME=/construction/biology/py-gffutils HOME=/construction/biology/py-gffutils TMPDIR="/tmp" PATH=/construction/biology/py-gffutils/.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/py-gffutils/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/py36-gffutils" EXAMPLESDIR="share/examples/py36-gffutils" DATADIR="share/py36-gffutils" WWWDIR="www/py36-gffutils" ETCDIR="etc/py36-gffutils" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/py36-gffutils DOCSDIR=/usr/local/share/doc/py36-gffutils EXAMPLESDIR=/usr/local/share/examples/py36-gffutils WWWDIR=/usr/local/www/py36-gffutils ETCDIR=/usr/local/etc/py36-gffutils -------------------------------------------------- -- /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 MIT accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> py36-gffutils-0.9 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-gffutils-0.9 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py36-gffutils-0.9 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License MIT accepted by the user ===> Fetching all distfiles required by py36-gffutils-0.9 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License MIT accepted by the user ===> Fetching all distfiles required by py36-gffutils-0.9 for building => SHA256 Checksum OK for gffutils-0.9.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License MIT accepted by the user ===> Fetching all distfiles required by py36-gffutils-0.9 for building ===> Extracting for py36-gffutils-0.9 => SHA256 Checksum OK for gffutils-0.9.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for py36-gffutils-0.9 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> py36-gffutils-0.9 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-gffutils-0.9 depends on package: py36-setuptools>0 - found ===> Returning to build of py36-gffutils-0.9 ===> py36-gffutils-0.9 depends on file: /usr/local/bin/python3.6 - found -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for py36-gffutils-0.9 running config -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for py36-gffutils-0.9 running build running build_py creating build creating build/lib creating build/lib/gffutils copying gffutils/bins.py -> build/lib/gffutils copying gffutils/feature.py -> build/lib/gffutils copying gffutils/iterators.py -> build/lib/gffutils copying gffutils/biopython_integration.py -> build/lib/gffutils copying gffutils/convert.py -> build/lib/gffutils copying gffutils/helpers.py -> build/lib/gffutils copying gffutils/version.py -> build/lib/gffutils copying gffutils/create.py -> build/lib/gffutils copying gffutils/__init__.py -> build/lib/gffutils copying gffutils/interface.py -> build/lib/gffutils copying gffutils/parser.py -> build/lib/gffutils copying gffutils/pybedtools_integration.py -> build/lib/gffutils copying gffutils/exceptions.py -> build/lib/gffutils copying gffutils/constants.py -> build/lib/gffutils copying gffutils/inspect.py -> build/lib/gffutils copying gffutils/gffwriter.py -> build/lib/gffutils copying gffutils/attributes.py -> build/lib/gffutils copying gffutils/inspection.py -> build/lib/gffutils package init file 'gffutils/scripts/__init__.py' not found (or not a regular file) creating build/lib/gffutils/scripts copying gffutils/scripts/gffutils-flybase-convert.py -> build/lib/gffutils/scripts creating build/lib/gffutils/test copying gffutils/test/performance_test.py -> build/lib/gffutils/test copying gffutils/test/helpers_test.py -> build/lib/gffutils/test copying gffutils/test/__init__.py -> build/lib/gffutils/test copying gffutils/test/test_biopython_integration.py -> build/lib/gffutils/test copying gffutils/test/expected.py -> build/lib/gffutils/test copying gffutils/test/attr_test_cases.py -> build/lib/gffutils/test copying gffutils/test/parser_test.py -> build/lib/gffutils/test copying gffutils/test/test.py -> build/lib/gffutils/test copying gffutils/test/feature_test.py -> build/lib/gffutils/test package init file 'gffutils/test/data/__init__.py' not found (or not a regular file) creating build/lib/gffutils/test/data copying gffutils/test/data/c_elegans_WS199_dna_shortened.fa -> build/lib/gffutils/test/data copying gffutils/test/data/F3-unique-3.v2.gff -> build/lib/gffutils/test/data copying gffutils/test/data/wormbase_gff2.txt -> build/lib/gffutils/test/data copying gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.5000_transcript_ids.txt -> build/lib/gffutils/test/data copying gffutils/test/data/jgi_gff2.txt -> build/lib/gffutils/test/data copying gffutils/test/data/ncbi_gff3.txt -> build/lib/gffutils/test/data copying gffutils/test/data/dm6-chr2L.fa -> build/lib/gffutils/test/data copying gffutils/test/data/gencode.vM8.chromsizes.txt -> build/lib/gffutils/test/data copying gffutils/test/data/wormbase_gff2_alt.txt -> build/lib/gffutils/test/data copying gffutils/test/data/c_elegans_WS199_shortened_gff.txt -> build/lib/gffutils/test/data copying gffutils/test/data/gencode-v19.gtf -> build/lib/gffutils/test/data copying gffutils/test/data/FBgn0031208.gff -> build/lib/gffutils/test/data copying gffutils/test/data/unsanitized.gff -> build/lib/gffutils/test/data copying gffutils/test/data/mouse_extra_comma.gff3 -> build/lib/gffutils/test/data copying gffutils/test/data/random-chr.gff -> build/lib/gffutils/test/data copying gffutils/test/data/gff_example1.gff3 -> build/lib/gffutils/test/data copying gffutils/test/data/glimmer_nokeyval.gff3 -> build/lib/gffutils/test/data copying gffutils/test/data/download-large-annotation-files.sh -> build/lib/gffutils/test/data copying gffutils/test/data/keyval_sep_in_attrs.gff -> build/lib/gffutils/test/data copying gffutils/test/data/hybrid1.gff3 -> build/lib/gffutils/test/data copying gffutils/test/data/keep-order-test.gtf -> build/lib/gffutils/test/data copying gffutils/test/data/dmel-all-no-analysis-r5.49_50k_lines.gff -> build/lib/gffutils/test/data copying gffutils/test/data/ensembl_gtf.txt -> build/lib/gffutils/test/data copying gffutils/test/data/gencode.vM8.5000_transcript_ids.txt -> build/lib/gffutils/test/data copying gffutils/test/data/gff_example1.gff3.gz -> build/lib/gffutils/test/data copying gffutils/test/data/FBgn0031208.gtf -> build/lib/gffutils/test/data copying gffutils/test/data/c_elegans_WS199_ann_gff.txt -> build/lib/gffutils/test/data copying gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.chromsizes.txt -> build/lib/gffutils/test/data copying gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.5000_gene_ids.txt -> build/lib/gffutils/test/data copying gffutils/test/data/nonascii -> build/lib/gffutils/test/data copying gffutils/test/data/gencode.vM8.5000_gene_ids.txt -> build/lib/gffutils/test/data copying gffutils/test/data/intro_docs_example.gff -> build/lib/gffutils/test/data running build_scripts creating build/scripts-3.6 copying and adjusting gffutils/scripts/gffutils-cli -> build/scripts-3.6 changing mode of build/scripts-3.6/gffutils-cli from 644 to 755 -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- ===> py36-gffutils-0.9 depends on package: py36-argcomplete>0 - not found ===> Installing existing package /packages/All/py36-argcomplete-1.9.4.txz Installing py36-argcomplete-1.9.4... Extracting py36-argcomplete-1.9.4: .......... done ===> py36-gffutils-0.9 depends on package: py36-argcomplete>0 - found ===> Returning to build of py36-gffutils-0.9 ===> py36-gffutils-0.9 depends on package: py36-argh>0 - not found ===> Installing existing package /packages/All/py36-argh-0.26.1.txz Installing py36-argh-0.26.1... Extracting py36-argh-0.26.1: .......... done ===> py36-gffutils-0.9 depends on package: py36-argh>0 - found ===> Returning to build of py36-gffutils-0.9 ===> py36-gffutils-0.9 depends on package: py36-pyfaidx>0 - not found ===> Installing existing package /packages/All/py36-pyfaidx-0.5.5.2.txz Installing py36-pyfaidx-0.5.5.2... `-- Installing py36-six-1.12.0... `-- Extracting py36-six-1.12.0: .......... done Extracting py36-pyfaidx-0.5.5.2: .......... done ===> py36-gffutils-0.9 depends on package: py36-pyfaidx>0 - found ===> Returning to build of py36-gffutils-0.9 ===> py36-gffutils-0.9 depends on package: py36-simplejson>0 - not found ===> Installing existing package /packages/All/py36-simplejson-3.16.1.txz Installing py36-simplejson-3.16.1... Extracting py36-simplejson-3.16.1: .......... done ===> py36-gffutils-0.9 depends on package: py36-simplejson>0 - found ===> Returning to build of py36-gffutils-0.9 ===> py36-gffutils-0.9 depends on package: py36-six>0 - found ===> py36-gffutils-0.9 depends on package: py36-setuptools>0 - found ===> py36-gffutils-0.9 depends on file: /usr/local/bin/python3.6 - found -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for py36-gffutils-0.9 ===> Generating temporary packing list running install running build running build_py package init file 'gffutils/scripts/__init__.py' not found (or not a regular file) package init file 'gffutils/test/data/__init__.py' not found (or not a regular file) running build_scripts running install_lib creating /construction/biology/py-gffutils/stage/usr/local/lib/python3.6 creating /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages creating /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/gffwriter.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/pybedtools_integration.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/biopython_integration.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/exceptions.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils creating /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test copying build/lib/gffutils/test/__init__.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test creating /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/glimmer_nokeyval.gff3 -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/F3-unique-3.v2.gff -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/keep-order-test.gtf -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/hybrid1.gff3 -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/gencode-v19.gtf -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/wormbase_gff2_alt.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/wormbase_gff2.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/FBgn0031208.gtf -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/gencode.vM8.5000_gene_ids.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/random-chr.gff -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/ncbi_gff3.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/ensembl_gtf.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/c_elegans_WS199_shortened_gff.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/mouse_extra_comma.gff3 -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/c_elegans_WS199_dna_shortened.fa -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/gencode.vM8.5000_transcript_ids.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/FBgn0031208.gff -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/gff_example1.gff3 -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/keyval_sep_in_attrs.gff -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/download-large-annotation-files.sh -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/intro_docs_example.gff -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/dmel-all-no-analysis-r5.49_50k_lines.gff -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/unsanitized.gff -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/jgi_gff2.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.chromsizes.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/dm6-chr2L.fa -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/c_elegans_WS199_ann_gff.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/nonascii -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.5000_transcript_ids.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/gff_example1.gff3.gz -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/Saccharomyces_cerevisiae.R64-1-1.83.5000_gene_ids.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/data/gencode.vM8.chromsizes.txt -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/data copying build/lib/gffutils/test/test.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test copying build/lib/gffutils/test/expected.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test copying build/lib/gffutils/test/parser_test.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test copying build/lib/gffutils/test/feature_test.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test copying build/lib/gffutils/test/helpers_test.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test copying build/lib/gffutils/test/attr_test_cases.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test copying build/lib/gffutils/test/test_biopython_integration.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test copying build/lib/gffutils/test/performance_test.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test copying build/lib/gffutils/interface.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/version.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/__init__.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/helpers.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/convert.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/iterators.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/constants.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/inspect.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils creating /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/scripts copying build/lib/gffutils/scripts/gffutils-flybase-convert.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/scripts copying build/lib/gffutils/feature.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/inspection.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/create.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/attributes.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/bins.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils copying build/lib/gffutils/parser.py -> /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/gffwriter.py to gffwriter.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/pybedtools_integration.py to pybedtools_integration.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/biopython_integration.py to biopython_integration.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/exceptions.py to exceptions.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/test.py to test.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/expected.py to expected.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/parser_test.py to parser_test.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/feature_test.py to feature_test.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/helpers_test.py to helpers_test.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/attr_test_cases.py to attr_test_cases.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/test_biopython_integration.py to test_biopython_integration.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/test/performance_test.py to performance_test.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/interface.py to interface.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/version.py to version.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/helpers.py to helpers.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/convert.py to convert.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/iterators.py to iterators.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/constants.py to constants.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/inspect.py to inspect.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/scripts/gffutils-flybase-convert.py to gffutils-flybase-convert.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/feature.py to feature.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/inspection.py to inspection.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/create.py to create.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/attributes.py to attributes.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/bins.py to bins.cpython-36.pyc byte-compiling /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils/parser.py to parser.cpython-36.pyc writing byte-compilation script '/tmp/tmpudnuimmm.py' /usr/local/bin/python3.6 /tmp/tmpudnuimmm.py removing /tmp/tmpudnuimmm.py running install_egg_info running egg_info writing gffutils.egg-info/PKG-INFO writing dependency_links to gffutils.egg-info/dependency_links.txt writing requirements to gffutils.egg-info/requires.txt writing top-level names to gffutils.egg-info/top_level.txt reading manifest file 'gffutils.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.rst' under directory 'docs/source' warning: no files found matching '*.py' under directory 'docs/source' warning: no files found matching '*' under directory 'docs/source/images' warning: no files found matching 'docs/Makefile' warning: no files found matching 'docs/make.bat' warning: no files found matching 'gffutils/test/data/__init__.py' warning: no files found matching 'gffutils/test/data/t.py' writing manifest file 'gffutils.egg-info/SOURCES.txt' Copying gffutils.egg-info to /construction/biology/py-gffutils/stage/usr/local/lib/python3.6/site-packages/gffutils-0.9-py3.6.egg-info running install_scripts copying build/scripts-3.6/gffutils-cli -> /construction/biology/py-gffutils/stage/usr/local/bin changing mode of /construction/biology/py-gffutils/stage/usr/local/bin/gffutils-cli to 755 writing list of installed files to '/construction/biology/py-gffutils/.PLIST.pymodtmp' ===> Creating unique files: Move MAN files needing SUFFIX ===> Creating unique files: Move files needing SUFFIX Move: bin/gffutils-cli --> bin/gffutils-cli-3.6 ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for py36-gffutils-0.9 file sizes/checksums [125]: .. done packing files [125]: .. done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Thursday, 7 MAR 2019 at 18:35:57 UTC Duration: 00:00:25