printf ' ' | fink --no-use-binary-dist --yes --build-as-nobody rebuild biom-format-py27 2>&1 WARNING: your info file index has not been updated for 20 days. You should run 'fink selfupdate' to get the latest package descriptions. The package 'biom-format-py27' will be built without being installed. Reading build dependency for biom-format-py27-2.1-1... Reading dependency for biom-format-py27-2.1-1... Reading build conflict for biom-format-py27-2.1-1... The package 'cython-py27' will be installed. Reading dependency for cython-py27-0.20.2-1... Reading runtime dependency for cython-py27-0.20.2-1... The package 'python27' will be installed. Reading dependency for python27-2.7.8-1... Reading runtime dependency for python27-2.7.8-1... The package 'numpy-py27' will be installed. Reading dependency for numpy-py27-1.8.1-1... Reading runtime dependency for numpy-py27-1.8.1-1... The package 'pyqi-py27' will be installed. Reading dependency for pyqi-py27-0.2.0-1... Reading runtime dependency for pyqi-py27-0.2.0-1... The package 'python27-shlibs' will be installed. Reading dependency for python27-shlibs-2.7.8-1... Reading runtime dependency for python27-shlibs-2.7.8-1... The package 'blt-shlibs' will be installed. Reading dependency for blt-shlibs-2.4z-160... Reading runtime dependency for blt-shlibs-2.4z-160... The package 'db53-aes-shlibs' will be installed. Reading dependency for db53-aes-shlibs-5.3.21-2... Reading runtime dependency for db53-aes-shlibs-5.3.21-2... The package 'expat1-shlibs' will be installed. Reading dependency for expat1-shlibs-2.1.0-1... Reading runtime dependency for expat1-shlibs-2.1.0-1... The package 'gdbm3-shlibs' will be installed. Reading dependency for gdbm3-shlibs-1.8.3-4... Reading runtime dependency for gdbm3-shlibs-1.8.3-4... The package 'libffi6-shlibs' will be installed. Reading dependency for libffi6-shlibs-3.1-1... Reading runtime dependency for libffi6-shlibs-3.1-1... The package 'libncursesw5-shlibs' will be installed. Reading dependency for libncursesw5-shlibs-5.9-20110507-1... Reading runtime dependency for libncursesw5-shlibs-5.9-20110507-1... The package 'openssl100-shlibs' will be installed. Reading dependency for openssl100-shlibs-1.0.1h-1... Reading runtime dependency for openssl100-shlibs-1.0.1h-1... The package 'readline6-shlibs' will be installed. Reading dependency for readline6-shlibs-6.3.6-1... Reading runtime dependency for readline6-shlibs-6.3.6-1... The package 'sqlite3-shlibs' will be installed. Reading dependency for sqlite3-shlibs-3.8.3.1-1... Reading runtime dependency for sqlite3-shlibs-3.8.3.1-1... The package 'tcltk' will be installed. Reading dependency for tcltk-8.6.1-104... Reading runtime dependency for tcltk-8.6.1-104... The package 'nose-py27' will be installed. Reading dependency for nose-py27-1.3.0-1... Reading runtime dependency for nose-py27-1.3.0-1... The package 'libjpeg9-shlibs' will be installed. Reading dependency for libjpeg9-shlibs-9a-1... Reading runtime dependency for libjpeg9-shlibs-9a-1... The package 'tcltk-shlibs' will be installed. Reading dependency for tcltk-shlibs-8.6.1-104... Reading runtime dependency for tcltk-shlibs-8.6.1-104... The package 'fontconfig2-shlibs' will be installed. Reading dependency for fontconfig2-shlibs-2.10.2-1... Reading runtime dependency for fontconfig2-shlibs-2.10.2-1... The package 'freetype219-shlibs' will be installed. Reading dependency for freetype219-shlibs-2.4.12-1... Reading runtime dependency for freetype219-shlibs-2.4.12-1... The package 'xft2-shlibs' will be installed. Reading dependency for xft2-shlibs-2.2.0-3... Reading runtime dependency for xft2-shlibs-2.2.0-3... The package 'setuptools-tng-py27' will be installed. Reading dependency for setuptools-tng-py27-5.1-1... Reading runtime dependency for setuptools-tng-py27-5.1-1... The package 'fontconfig-config' will be installed. Reading dependency for fontconfig-config-2.10.2-1... Reading runtime dependency for fontconfig-config-2.10.2-1... The following package will be rebuilt: biom-format-py27 The following 23 additional packages will be installed: blt-shlibs cython-py27 db53-aes-shlibs expat1-shlibs fontconfig-config fontconfig2-shlibs freetype219-shlibs gdbm3-shlibs libffi6-shlibs libjpeg9-shlibs libncursesw5-shlibs nose-py27 numpy-py27 openssl100-shlibs pyqi-py27 python27 python27-shlibs readline6-shlibs setuptools-tng-py27 sqlite3-shlibs tcltk tcltk-shlibs xft2-shlibs Do you want to continue? [Y/n] (assuming default) Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/crypto/db53-aes-shlibs_5.3.21-2_darwin-x86_64.deb Selecting previously deselected package db53-aes-shlibs. (Reading database ... 4405 files and directories currently installed.) 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(Reading database ... 12448 files and directories currently installed.) Unpacking cython-py27 (from .../cython-py27_0.20.2-1_darwin-x86_64.deb) ... Setting up cython-py27 (0.20.2-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/nose-py27_1.3.0-1_darwin-x86_64.deb Selecting previously deselected package nose-py27. (Reading database ... 12901 files and directories currently installed.) Unpacking nose-py27 (from .../nose-py27_1.3.0-1_darwin-x86_64.deb) ... Setting up nose-py27 (1.3.0-1) ... Checking available versions of nosetests, updating links in /sw/etc/alternatives ... (You may modify the symlinks there yourself if desired - see `man ln'.) Updating nosetests (/sw/bin/nosetests) to point to /sw/bin/nosetests2.7. Updating nosetests.1 (/sw/share/man/man1/nosetests.1) to point to /sw//share/man/man1/nosetests-py27.1. Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/numpy-py27_1.8.1-1_darwin-x86_64.deb Selecting previously deselected package numpy-py27. (Reading database ... 13086 files and directories currently installed.) Unpacking numpy-py27 (from .../numpy-py27_1.8.1-1_darwin-x86_64.deb) ... Setting up numpy-py27 (1.8.1-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/pyqi-py27_0.2.0-1_darwin-x86_64.deb Selecting previously deselected package pyqi-py27. (Reading database ... 13864 files and directories currently installed.) Unpacking pyqi-py27 (from .../pyqi-py27_0.2.0-1_darwin-x86_64.deb) ... Setting up pyqi-py27 (0.2.0-1) ... Setting runtime build-lock... dpkg-deb -b /sw/build.build/root-fink-buildlock-biom-format-py27-2.1-1 /sw/build.build dpkg-deb: building package `fink-buildlock-biom-format-py27-2.1-1' in `/sw/build.build/fink-buildlock-biom-format-py27-2.1-1_2014.08.14-06.51.13_darwin-x86_64.deb'. Installing build-lock package... /sw/bin/dpkg-lockwait -i /sw/build.build/fink-buildlock-biom-format-py27-2.1-1_2014.08.14-06.51.13_darwin-x86_64.deb Selecting previously deselected package fink-buildlock-biom-format-py27-2.1-1. (Reading database ... 13930 files and directories currently installed.) Unpacking fink-buildlock-biom-format-py27-2.1-1 (from .../fink-buildlock-biom-format-py27-2.1-1_2014.08.14-06.51.13_darwin-x86_64.deb) ... Setting up fink-buildlock-biom-format-py27-2.1-1 (2014.08.14-06.51.13) ... sudo -u fink-bld [ENV] sh -c /tmp/fink.98jlV env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/biom-format-2.1.tar.gz biom-format-2.1/ biom-format-2.1/.coveragerc biom-format-2.1/.travis.yml biom-format-2.1/COPYING.txt biom-format-2.1/ChangeLog.md biom-format-2.1/INSTALL biom-format-2.1/MANIFEST.in biom-format-2.1/README.md biom-format-2.1/biom/ biom-format-2.1/biom/__init__.py biom-format-2.1/biom/_filter.c biom-format-2.1/biom/_filter.pyx biom-format-2.1/biom/_subsample.c biom-format-2.1/biom/_subsample.pyx biom-format-2.1/biom/_transform.c biom-format-2.1/biom/_transform.pyx biom-format-2.1/biom/commands/ biom-format-2.1/biom/commands/__init__.py biom-format-2.1/biom/commands/installation_informer.py biom-format-2.1/biom/commands/metadata_adder.py biom-format-2.1/biom/commands/table_converter.py biom-format-2.1/biom/commands/table_subsetter.py biom-format-2.1/biom/commands/table_summarizer.py biom-format-2.1/biom/commands/table_validator.py biom-format-2.1/biom/err.py biom-format-2.1/biom/exception.py biom-format-2.1/biom/interfaces/ biom-format-2.1/biom/interfaces/__init__.py biom-format-2.1/biom/interfaces/html/ biom-format-2.1/biom/interfaces/html/__init__.py biom-format-2.1/biom/interfaces/html/config/ biom-format-2.1/biom/interfaces/html/config/__init__.py biom-format-2.1/biom/interfaces/html/config/add_metadata.py biom-format-2.1/biom/interfaces/html/config/convert.py biom-format-2.1/biom/interfaces/html/config/show_install_info.py biom-format-2.1/biom/interfaces/html/config/summarize_table.py biom-format-2.1/biom/interfaces/html/config/validate_table.py biom-format-2.1/biom/interfaces/html/input_handler.py biom-format-2.1/biom/interfaces/html/output_handler.py biom-format-2.1/biom/interfaces/optparse/ biom-format-2.1/biom/interfaces/optparse/__init__.py biom-format-2.1/biom/interfaces/optparse/config/ biom-format-2.1/biom/interfaces/optparse/config/__init__.py biom-format-2.1/biom/interfaces/optparse/config/add_metadata.py biom-format-2.1/biom/interfaces/optparse/config/convert.py biom-format-2.1/biom/interfaces/optparse/config/show_install_info.py biom-format-2.1/biom/interfaces/optparse/config/subset_table.py biom-format-2.1/biom/interfaces/optparse/config/summarize_table.py biom-format-2.1/biom/interfaces/optparse/config/validate_table.py biom-format-2.1/biom/interfaces/optparse/input_handler.py biom-format-2.1/biom/interfaces/optparse/output_handler.py biom-format-2.1/biom/parse.py biom-format-2.1/biom/table.py biom-format-2.1/biom/util.py biom-format-2.1/doc/ biom-format-2.1/doc/BIOM_LICENSE.rst biom-format-2.1/doc/Makefile biom-format-2.1/doc/_static/ biom-format-2.1/doc/_static/biom-format.png biom-format-2.1/doc/_static/copybutton.js biom-format-2.1/doc/_templates/ biom-format-2.1/doc/_templates/autosummary/ biom-format-2.1/doc/_templates/autosummary/attribute.rst biom-format-2.1/doc/_templates/autosummary/class.rst biom-format-2.1/doc/_templates/autosummary/method.rst biom-format-2.1/doc/_templates/layout.html biom-format-2.1/doc/conf.py biom-format-2.1/doc/documentation/ biom-format-2.1/doc/documentation/adding_metadata.rst biom-format-2.1/doc/documentation/biom_conversion.rst biom-format-2.1/doc/documentation/biom_format.rst biom-format-2.1/doc/documentation/format_versions/ biom-format-2.1/doc/documentation/format_versions/biom-1.0.rst biom-format-2.1/doc/documentation/format_versions/biom-2.0.rst biom-format-2.1/doc/documentation/format_versions/biom-2.1.rst biom-format-2.1/doc/documentation/index.rst biom-format-2.1/doc/documentation/quick_usage_examples.rst biom-format-2.1/doc/documentation/summarizing_biom_tables.rst biom-format-2.1/doc/documentation/table_objects.rst biom-format-2.1/doc/index.rst biom-format-2.1/doc/sphinxext/ biom-format-2.1/doc/sphinxext/numpydoc/ biom-format-2.1/doc/sphinxext/numpydoc/LICENSE.txt biom-format-2.1/doc/sphinxext/numpydoc/README.rst biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/ biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/__init__.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/comment_eater.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/compiler_unparse.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/docscrape.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/docscrape_sphinx.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/linkcode.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/numpydoc.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/phantom_import.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/plot_directive.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/tests/ biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/tests/test_docscrape.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/tests/test_linkcode.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/tests/test_phantom_import.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/tests/test_plot_directive.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/tests/test_traitsdoc.py biom-format-2.1/doc/sphinxext/numpydoc/numpydoc/traitsdoc.py biom-format-2.1/examples/ biom-format-2.1/examples/min_sparse_otu_table.biom biom-format-2.1/examples/min_sparse_otu_table_hdf5.biom biom-format-2.1/examples/obs_md.txt biom-format-2.1/examples/rich_sparse_otu_table.biom biom-format-2.1/examples/rich_sparse_otu_table_hdf5.biom biom-format-2.1/examples/sam_md.txt biom-format-2.1/images/ biom-format-2.1/images/biom-logos.ai biom-format-2.1/licenses/ biom-format-2.1/licenses/numpydoc.txt biom-format-2.1/licenses/scikit-learn.txt biom-format-2.1/licenses/scipy.txt biom-format-2.1/scripts/ biom-format-2.1/scripts/biom biom-format-2.1/scripts/serve-biom biom-format-2.1/setup.py biom-format-2.1/support_files/ biom-format-2.1/support_files/biom_config biom-format-2.1/tests/ biom-format-2.1/tests/__init__.py biom-format-2.1/tests/bench_tables/ biom-format-2.1/tests/bench_tables/10000x10000x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x10000x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x10000x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x10000x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x10000x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x10000x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x1000x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x1000x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x1000x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x1000x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x1000x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x1000x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x100x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x100x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x100x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x100x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x100x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x100x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x10x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x10x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x10x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x10x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10000x10x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/10000x10x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x10000x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x10000x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x10000x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x10000x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x10000x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x10000x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x1000x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x1000x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x1000x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x1000x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x1000x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x1000x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x100x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x100x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x100x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x100x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x100x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x100x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x10x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x10x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x10x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x10x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/1000x10x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/1000x10x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x10000x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/100x10000x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x10000x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/100x10000x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x10000x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/100x10000x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x1000x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/100x1000x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x1000x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/100x1000x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x1000x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/100x1000x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x100x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/100x100x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x100x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/100x100x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x100x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/100x100x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x10x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/100x10x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x10x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/100x10x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/100x10x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/100x10x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x10000x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/10x10000x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x10000x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/10x10000x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x10000x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/10x10000x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x1000x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/10x1000x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x1000x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/10x1000x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x1000x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/10x1000x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x100x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/10x100x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x100x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/10x100x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x100x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/10x100x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x10x0.001_bench.biom.gz biom-format-2.1/tests/bench_tables/10x10x0.001_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x10x0.010_bench.biom.gz biom-format-2.1/tests/bench_tables/10x10x0.010_bench_hdf5.biom.gz biom-format-2.1/tests/bench_tables/10x10x0.100_bench.biom.gz biom-format-2.1/tests/bench_tables/10x10x0.100_bench_hdf5.biom.gz biom-format-2.1/tests/test_commands/ biom-format-2.1/tests/test_commands/__init__.py biom-format-2.1/tests/test_commands/test_data/ biom-format-2.1/tests/test_commands/test_data/json_obs_collapsed.biom biom-format-2.1/tests/test_commands/test_data/json_sample_collapsed.biom biom-format-2.1/tests/test_commands/test_data/test.biom biom-format-2.1/tests/test_commands/test_installation_informer.py biom-format-2.1/tests/test_commands/test_metadata_adder.py biom-format-2.1/tests/test_commands/test_table_converter.py biom-format-2.1/tests/test_commands/test_table_subsetter.py biom-format-2.1/tests/test_commands/test_table_summarizer.py biom-format-2.1/tests/test_commands/test_table_validator.py biom-format-2.1/tests/test_data/ biom-format-2.1/tests/test_data/empty.biom biom-format-2.1/tests/test_data/test.biom biom-format-2.1/tests/test_data/test.json biom-format-2.1/tests/test_data/test.json.gz biom-format-2.1/tests/test_err.py biom-format-2.1/tests/test_interfaces/ biom-format-2.1/tests/test_interfaces/__init__.py biom-format-2.1/tests/test_interfaces/test_optparse/ biom-format-2.1/tests/test_interfaces/test_optparse/__init__.py biom-format-2.1/tests/test_interfaces/test_optparse/test_input_handler.py biom-format-2.1/tests/test_parse.py biom-format-2.1/tests/test_table.py biom-format-2.1/tests/test_util.py sudo -u fink-bld [ENV] sh -c /tmp/fink.XIptr /sw/bin/python2.7 setup.py build running build running build_py creating build creating build/lib.macosx-10.9-x86_64-2.7 creating build/lib.macosx-10.9-x86_64-2.7/biom copying biom/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/biom copying biom/err.py -> build/lib.macosx-10.9-x86_64-2.7/biom copying biom/exception.py -> build/lib.macosx-10.9-x86_64-2.7/biom copying biom/parse.py -> build/lib.macosx-10.9-x86_64-2.7/biom copying biom/table.py -> build/lib.macosx-10.9-x86_64-2.7/biom copying biom/util.py -> build/lib.macosx-10.9-x86_64-2.7/biom creating build/lib.macosx-10.9-x86_64-2.7/biom/commands copying biom/commands/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/biom/commands copying biom/commands/installation_informer.py -> build/lib.macosx-10.9-x86_64-2.7/biom/commands copying biom/commands/metadata_adder.py -> build/lib.macosx-10.9-x86_64-2.7/biom/commands copying biom/commands/table_converter.py -> build/lib.macosx-10.9-x86_64-2.7/biom/commands copying biom/commands/table_subsetter.py -> build/lib.macosx-10.9-x86_64-2.7/biom/commands copying biom/commands/table_summarizer.py -> build/lib.macosx-10.9-x86_64-2.7/biom/commands copying biom/commands/table_validator.py -> build/lib.macosx-10.9-x86_64-2.7/biom/commands creating build/lib.macosx-10.9-x86_64-2.7/biom/interfaces copying biom/interfaces/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces creating build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse copying biom/interfaces/optparse/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse copying biom/interfaces/optparse/input_handler.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse copying biom/interfaces/optparse/output_handler.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse creating build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config copying biom/interfaces/optparse/config/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config copying biom/interfaces/optparse/config/add_metadata.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config copying biom/interfaces/optparse/config/convert.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config copying biom/interfaces/optparse/config/show_install_info.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config copying biom/interfaces/optparse/config/subset_table.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config copying biom/interfaces/optparse/config/summarize_table.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config copying biom/interfaces/optparse/config/validate_table.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config creating build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html copying biom/interfaces/html/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html copying biom/interfaces/html/input_handler.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html copying biom/interfaces/html/output_handler.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html creating build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config copying biom/interfaces/html/config/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config copying biom/interfaces/html/config/add_metadata.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config copying biom/interfaces/html/config/convert.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config copying biom/interfaces/html/config/show_install_info.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config copying biom/interfaces/html/config/summarize_table.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config copying biom/interfaces/html/config/validate_table.py -> build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config running build_ext building 'biom._filter' extension creating build/temp.macosx-10.9-x86_64-2.7 creating build/temp.macosx-10.9-x86_64-2.7/biom gcc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -fwrapv -O3 -Wall -Wstrict-prototypes -I/sw/include -I/sw/lib/python2.7/site-packages/numpy/core/include -I/sw/include/python2.7 -c biom/_filter.c -o build/temp.macosx-10.9-x86_64-2.7/biom/_filter.o In file included from biom/_filter.c:346: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1761: /sw/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ In file included from biom/_filter.c:346: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:26: /sw/lib/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1629:1: warning: unused function '_import_array' [-Wunused-function] _import_array(void) ^ In file included from biom/_filter.c:347: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ufuncobject.h:327: /sw/lib/python2.7/site-packages/numpy/core/include/numpy/__ufunc_api.h:241:1: warning: unused function '_import_umath' [-Wunused-function] _import_umath(void) ^ biom/_filter.c:8007:28: warning: unused function '__Pyx_PyObject_AsString' [-Wunused-function] static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { ^ biom/_filter.c:8004:32: warning: unused function '__Pyx_PyUnicode_FromString' [-Wunused-function] static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(char* c_str) { ^ biom/_filter.c:409:29: warning: unused function '__Pyx_Py_UNICODE_strlen' [-Wunused-function] static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) ^ biom/_filter.c:8155:33: warning: unused function '__Pyx_PyInt_FromSize_t' [-Wunused-function] static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { ^ biom/_filter.c:6320:32: warning: unused function '__Pyx_GetItemInt_List_Fast' [-Wunused-function] static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, ^ biom/_filter.c:6334:32: warning: unused function '__Pyx_GetItemInt_Tuple_Fast' [-Wunused-function] static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, ^ biom/_filter.c:7190:32: warning: unused function '__Pyx_PyInt_From_npy_int32' [-Wunused-function] static CYTHON_INLINE PyObject* __Pyx_PyInt_From_npy_int32(npy_int32 value) { ^ biom/_filter.c:7227:48: warning: unused function '__pyx_t_float_complex_from_parts' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { ^ biom/_filter.c:7237:30: warning: unused function '__Pyx_c_eqf' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_eqf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_filter.c:7240:48: warning: unused function '__Pyx_c_sumf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sumf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_filter.c:7246:48: warning: unused function '__Pyx_c_difff' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_difff(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_filter.c:7258:48: warning: unused function '__Pyx_c_quotf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quotf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_filter.c:7265:48: warning: unused function '__Pyx_c_negf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_negf(__pyx_t_float_complex a) { ^ biom/_filter.c:7271:30: warning: unused function '__Pyx_c_is_zerof' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_is_zerof(__pyx_t_float_complex a) { ^ biom/_filter.c:7274:48: warning: unused function '__Pyx_c_conjf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conjf(__pyx_t_float_complex a) { ^ biom/_filter.c:7288:52: warning: unused function '__Pyx_c_powf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_powf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_filter.c:7347:49: warning: unused function '__pyx_t_double_complex_from_parts' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { ^ biom/_filter.c:7357:30: warning: unused function '__Pyx_c_eq' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_eq(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_filter.c:7360:49: warning: unused function '__Pyx_c_sum' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_filter.c:7366:49: warning: unused function '__Pyx_c_diff' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_filter.c:7378:49: warning: unused function '__Pyx_c_quot' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_filter.c:7385:49: warning: unused function '__Pyx_c_neg' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg(__pyx_t_double_complex a) { ^ biom/_filter.c:7391:30: warning: unused function '__Pyx_c_is_zero' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_is_zero(__pyx_t_double_complex a) { ^ biom/_filter.c:7394:49: warning: unused function '__Pyx_c_conj' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj(__pyx_t_double_complex a) { ^ biom/_filter.c:7408:53: warning: unused function '__Pyx_c_pow' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_filter.c:7582:32: warning: unused function '__Pyx_PyInt_From_long' [-Wunused-function] static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { ^ biom/_filter.c:7613:27: warning: function '__Pyx_PyInt_As_long' is not needed and will not be emitted [-Wunneeded-internal-declaration] static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { ^ biom/_filter.c:4124:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew1' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew1(PyObject *__pyx_v_a) { ^ biom/_filter.c:4174:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew2' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew2(PyObject *__pyx_v_a, PyObject *__pyx_v_b) { ^ biom/_filter.c:4224:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew3' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew3(PyObject *__pyx_v_a, PyObject *__pyx_v_b, PyObject *__pyx_v_c) { ^ biom/_filter.c:4274:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew4' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew4(PyObject *__pyx_v_a, PyObject *__pyx_v_b, PyObject *__pyx_v_c, PyObject *__pyx_v_d) { ^ biom/_filter.c:4324:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew5' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew5(PyObject *__pyx_v_a, PyObject *__pyx_v_b, PyObject *__pyx_v_c, PyObject *__pyx_v_d, PyObject *__pyx_v_e) { ^ biom/_filter.c:5078:27: warning: unused function '__pyx_f_5numpy_set_array_base' [-Wunused-function] static CYTHON_INLINE void __pyx_f_5numpy_set_array_base(PyArrayObject *__pyx_v_arr, PyObject *__pyx_v_base) { ^ biom/_filter.c:5166:32: warning: unused function '__pyx_f_5numpy_get_array_base' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_get_array_base(PyArrayObject *__pyx_v_arr) { ^ 37 warnings generated. gcc -L/sw/lib -bundle -L/sw/lib/python2.7/config -lpython2.7 -L/sw/lib -L/sw/lib -I/sw/include build/temp.macosx-10.9-x86_64-2.7/biom/_filter.o -L/sw/lib -o build/lib.macosx-10.9-x86_64-2.7/biom/_filter.so building 'biom._transform' extension gcc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -fwrapv -O3 -Wall -Wstrict-prototypes -I/sw/include -I/sw/lib/python2.7/site-packages/numpy/core/include -I/sw/include/python2.7 -c biom/_transform.c -o build/temp.macosx-10.9-x86_64-2.7/biom/_transform.o In file included from biom/_transform.c:346: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1761: /sw/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ In file included from biom/_transform.c:346: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:26: /sw/lib/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1629:1: warning: unused function '_import_array' [-Wunused-function] _import_array(void) ^ In file included from biom/_transform.c:347: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ufuncobject.h:327: /sw/lib/python2.7/site-packages/numpy/core/include/numpy/__ufunc_api.h:241:1: warning: unused function '_import_umath' [-Wunused-function] _import_umath(void) ^ biom/_transform.c:6152:28: warning: unused function '__Pyx_PyObject_AsString' [-Wunused-function] static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { ^ biom/_transform.c:6149:32: warning: unused function '__Pyx_PyUnicode_FromString' [-Wunused-function] static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(char* c_str) { ^ biom/_transform.c:409:29: warning: unused function '__Pyx_Py_UNICODE_strlen' [-Wunused-function] static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) ^ biom/_transform.c:6300:33: warning: unused function '__Pyx_PyInt_FromSize_t' [-Wunused-function] static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { ^ biom/_transform.c:4698:32: warning: unused function '__Pyx_GetItemInt_List_Fast' [-Wunused-function] static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, ^ biom/_transform.c:4712:32: warning: unused function '__Pyx_GetItemInt_Tuple_Fast' [-Wunused-function] static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, ^ biom/_transform.c:5356:48: warning: unused function '__pyx_t_float_complex_from_parts' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { ^ biom/_transform.c:5366:30: warning: unused function '__Pyx_c_eqf' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_eqf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_transform.c:5369:48: warning: unused function '__Pyx_c_sumf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sumf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_transform.c:5375:48: warning: unused function '__Pyx_c_difff' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_difff(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_transform.c:5387:48: warning: unused function '__Pyx_c_quotf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quotf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_transform.c:5394:48: warning: unused function '__Pyx_c_negf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_negf(__pyx_t_float_complex a) { ^ biom/_transform.c:5400:30: warning: unused function '__Pyx_c_is_zerof' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_is_zerof(__pyx_t_float_complex a) { ^ biom/_transform.c:5403:48: warning: unused function '__Pyx_c_conjf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conjf(__pyx_t_float_complex a) { ^ biom/_transform.c:5417:52: warning: unused function '__Pyx_c_powf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_powf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_transform.c:5476:49: warning: unused function '__pyx_t_double_complex_from_parts' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { ^ biom/_transform.c:5486:30: warning: unused function '__Pyx_c_eq' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_eq(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_transform.c:5489:49: warning: unused function '__Pyx_c_sum' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_transform.c:5495:49: warning: unused function '__Pyx_c_diff' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_transform.c:5507:49: warning: unused function '__Pyx_c_quot' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_transform.c:5514:49: warning: unused function '__Pyx_c_neg' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg(__pyx_t_double_complex a) { ^ biom/_transform.c:5520:30: warning: unused function '__Pyx_c_is_zero' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_is_zero(__pyx_t_double_complex a) { ^ biom/_transform.c:5523:49: warning: unused function '__Pyx_c_conj' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj(__pyx_t_double_complex a) { ^ biom/_transform.c:5537:53: warning: unused function '__Pyx_c_pow' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_transform.c:5727:32: warning: unused function '__Pyx_PyInt_From_long' [-Wunused-function] static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { ^ biom/_transform.c:5758:27: warning: function '__Pyx_PyInt_As_long' is not needed and will not be emitted [-Wunneeded-internal-declaration] static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { ^ biom/_transform.c:2530:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew1' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew1(PyObject *__pyx_v_a) { ^ biom/_transform.c:2580:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew2' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew2(PyObject *__pyx_v_a, PyObject *__pyx_v_b) { ^ biom/_transform.c:2630:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew3' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew3(PyObject *__pyx_v_a, PyObject *__pyx_v_b, PyObject *__pyx_v_c) { ^ biom/_transform.c:2680:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew4' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew4(PyObject *__pyx_v_a, PyObject *__pyx_v_b, PyObject *__pyx_v_c, PyObject *__pyx_v_d) { ^ biom/_transform.c:2730:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew5' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew5(PyObject *__pyx_v_a, PyObject *__pyx_v_b, PyObject *__pyx_v_c, PyObject *__pyx_v_d, PyObject *__pyx_v_e) { ^ biom/_transform.c:3484:27: warning: unused function '__pyx_f_5numpy_set_array_base' [-Wunused-function] static CYTHON_INLINE void __pyx_f_5numpy_set_array_base(PyArrayObject *__pyx_v_arr, PyObject *__pyx_v_base) { ^ biom/_transform.c:3572:32: warning: unused function '__pyx_f_5numpy_get_array_base' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_get_array_base(PyArrayObject *__pyx_v_arr) { ^ 36 warnings generated. gcc -L/sw/lib -bundle -L/sw/lib/python2.7/config -lpython2.7 -L/sw/lib -L/sw/lib -I/sw/include build/temp.macosx-10.9-x86_64-2.7/biom/_transform.o -L/sw/lib -o build/lib.macosx-10.9-x86_64-2.7/biom/_transform.so building 'biom._subsample' extension gcc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -fwrapv -O3 -Wall -Wstrict-prototypes -I/sw/include -I/sw/lib/python2.7/site-packages/numpy/core/include -I/sw/include/python2.7 -c biom/_subsample.c -o build/temp.macosx-10.9-x86_64-2.7/biom/_subsample.o In file included from biom/_subsample.c:352: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1761: /sw/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] #warning "Using deprecated NumPy API, disable it by " \ ^ In file included from biom/_subsample.c:352: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:26: /sw/lib/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1629:1: warning: unused function '_import_array' [-Wunused-function] _import_array(void) ^ In file included from biom/_subsample.c:353: In file included from /sw/lib/python2.7/site-packages/numpy/core/include/numpy/ufuncobject.h:327: /sw/lib/python2.7/site-packages/numpy/core/include/numpy/__ufunc_api.h:241:1: warning: unused function '_import_umath' [-Wunused-function] _import_umath(void) ^ biom/_subsample.c:6820:28: warning: unused function '__Pyx_PyObject_AsString' [-Wunused-function] static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { ^ biom/_subsample.c:6817:32: warning: unused function '__Pyx_PyUnicode_FromString' [-Wunused-function] static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { ^ biom/_subsample.c:415:29: warning: unused function '__Pyx_Py_UNICODE_strlen' [-Wunused-function] static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) ^ biom/_subsample.c:6968:33: warning: unused function '__Pyx_PyInt_FromSize_t' [-Wunused-function] static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { ^ biom/_subsample.c:5635:32: warning: unused function '__Pyx_PyInt_From_long' [-Wunused-function] static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { ^ biom/_subsample.c:5929:32: warning: unused function '__Pyx_PyInt_From_Py_intptr_t' [-Wunused-function] static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value) { ^ biom/_subsample.c:5960:34: warning: function '__Pyx_PyInt_As_Py_intptr_t' is not needed and will not be emitted [-Wunneeded-internal-declaration] static CYTHON_INLINE Py_intptr_t __Pyx_PyInt_As_Py_intptr_t(PyObject *x) { ^ biom/_subsample.c:6166:48: warning: unused function '__pyx_t_float_complex_from_parts' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { ^ biom/_subsample.c:6176:30: warning: unused function '__Pyx_c_eqf' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_eqf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_subsample.c:6179:48: warning: unused function '__Pyx_c_sumf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sumf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_subsample.c:6185:48: warning: unused function '__Pyx_c_difff' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_difff(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_subsample.c:6197:48: warning: unused function '__Pyx_c_quotf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quotf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_subsample.c:6204:48: warning: unused function '__Pyx_c_negf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_negf(__pyx_t_float_complex a) { ^ biom/_subsample.c:6210:30: warning: unused function '__Pyx_c_is_zerof' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_is_zerof(__pyx_t_float_complex a) { ^ biom/_subsample.c:6213:48: warning: unused function '__Pyx_c_conjf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conjf(__pyx_t_float_complex a) { ^ biom/_subsample.c:6227:52: warning: unused function '__Pyx_c_powf' [-Wunused-function] static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_powf(__pyx_t_float_complex a, __pyx_t_float_complex b) { ^ biom/_subsample.c:6286:49: warning: unused function '__pyx_t_double_complex_from_parts' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { ^ biom/_subsample.c:6296:30: warning: unused function '__Pyx_c_eq' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_eq(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_subsample.c:6299:49: warning: unused function '__Pyx_c_sum' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_subsample.c:6305:49: warning: unused function '__Pyx_c_diff' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_subsample.c:6317:49: warning: unused function '__Pyx_c_quot' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_subsample.c:6324:49: warning: unused function '__Pyx_c_neg' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg(__pyx_t_double_complex a) { ^ biom/_subsample.c:6330:30: warning: unused function '__Pyx_c_is_zero' [-Wunused-function] static CYTHON_INLINE int __Pyx_c_is_zero(__pyx_t_double_complex a) { ^ biom/_subsample.c:6333:49: warning: unused function '__Pyx_c_conj' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj(__pyx_t_double_complex a) { ^ biom/_subsample.c:6347:53: warning: unused function '__Pyx_c_pow' [-Wunused-function] static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow(__pyx_t_double_complex a, __pyx_t_double_complex b) { ^ biom/_subsample.c:2875:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew1' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew1(PyObject *__pyx_v_a) { ^ biom/_subsample.c:2925:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew2' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew2(PyObject *__pyx_v_a, PyObject *__pyx_v_b) { ^ biom/_subsample.c:2975:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew3' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew3(PyObject *__pyx_v_a, PyObject *__pyx_v_b, PyObject *__pyx_v_c) { ^ biom/_subsample.c:3025:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew4' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew4(PyObject *__pyx_v_a, PyObject *__pyx_v_b, PyObject *__pyx_v_c, PyObject *__pyx_v_d) { ^ biom/_subsample.c:3075:32: warning: unused function '__pyx_f_5numpy_PyArray_MultiIterNew5' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew5(PyObject *__pyx_v_a, PyObject *__pyx_v_b, PyObject *__pyx_v_c, PyObject *__pyx_v_d, PyObject *__pyx_v_e) { ^ biom/_subsample.c:3829:27: warning: unused function '__pyx_f_5numpy_set_array_base' [-Wunused-function] static CYTHON_INLINE void __pyx_f_5numpy_set_array_base(PyArrayObject *__pyx_v_arr, PyObject *__pyx_v_base) { ^ biom/_subsample.c:3917:32: warning: unused function '__pyx_f_5numpy_get_array_base' [-Wunused-function] static CYTHON_INLINE PyObject *__pyx_f_5numpy_get_array_base(PyArrayObject *__pyx_v_arr) { ^ 35 warnings generated. gcc -L/sw/lib -bundle -L/sw/lib/python2.7/config -lpython2.7 -L/sw/lib -L/sw/lib -I/sw/include build/temp.macosx-10.9-x86_64-2.7/biom/_subsample.o -L/sw/lib -o build/lib.macosx-10.9-x86_64-2.7/biom/_subsample.so running build_scripts creating build/scripts-2.7 copying scripts/biom -> build/scripts-2.7 copying scripts/serve-biom -> build/scripts-2.7 changing mode of build/scripts-2.7/serve-biom from 644 to 755 /bin/rm -rf /sw/build.build/root-biom-format-py27-2.1-1 /bin/mkdir -p /sw/build.build/root-biom-format-py27-2.1-1/sw /bin/mkdir -p /sw/build.build/root-biom-format-py27-2.1-1/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-biom-format-py27-2.1-1 sudo -u fink-bld [ENV] sh -c /tmp/fink.PmngJ /tmp/fink.rAR1z #!/bin/sh -ev /sw/bin/python2.7 setup.py install --root /sw/build.build/root-biom-format-py27-2.1-1 --prefix /sw running install running build running build_py running build_ext running build_scripts running install_lib creating /sw/build.build/root-biom-format-py27-2.1-1/sw/lib creating /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7 creating /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages creating /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom copying build/lib.macosx-10.9-x86_64-2.7/biom/__init__.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom copying build/lib.macosx-10.9-x86_64-2.7/biom/_filter.so -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom copying build/lib.macosx-10.9-x86_64-2.7/biom/_subsample.so -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom copying build/lib.macosx-10.9-x86_64-2.7/biom/_transform.so -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom creating /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands copying build/lib.macosx-10.9-x86_64-2.7/biom/commands/__init__.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands copying build/lib.macosx-10.9-x86_64-2.7/biom/commands/installation_informer.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands copying build/lib.macosx-10.9-x86_64-2.7/biom/commands/metadata_adder.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands copying build/lib.macosx-10.9-x86_64-2.7/biom/commands/table_converter.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands copying build/lib.macosx-10.9-x86_64-2.7/biom/commands/table_subsetter.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands copying build/lib.macosx-10.9-x86_64-2.7/biom/commands/table_summarizer.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands copying build/lib.macosx-10.9-x86_64-2.7/biom/commands/table_validator.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands copying build/lib.macosx-10.9-x86_64-2.7/biom/err.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom copying build/lib.macosx-10.9-x86_64-2.7/biom/exception.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom creating /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/__init__.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces creating /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/__init__.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html creating /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config/__init__.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config/add_metadata.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config/convert.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config/show_install_info.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config/summarize_table.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/config/validate_table.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/input_handler.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/html/output_handler.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html creating /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/__init__.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse creating /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config/__init__.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config/add_metadata.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config/convert.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config/show_install_info.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config/subset_table.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config/summarize_table.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/config/validate_table.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/input_handler.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse copying build/lib.macosx-10.9-x86_64-2.7/biom/interfaces/optparse/output_handler.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse copying build/lib.macosx-10.9-x86_64-2.7/biom/parse.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom copying build/lib.macosx-10.9-x86_64-2.7/biom/table.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom copying build/lib.macosx-10.9-x86_64-2.7/biom/util.py -> /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/__init__.py to __init__.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands/__init__.py to __init__.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands/installation_informer.py to installation_informer.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands/metadata_adder.py to metadata_adder.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands/table_converter.py to table_converter.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands/table_subsetter.py to table_subsetter.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands/table_summarizer.py to table_summarizer.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/commands/table_validator.py to table_validator.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/err.py to err.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/exception.py to exception.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/__init__.py to __init__.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/__init__.py to __init__.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config/__init__.py to __init__.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config/add_metadata.py to add_metadata.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config/convert.py to convert.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config/show_install_info.py to show_install_info.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config/summarize_table.py to summarize_table.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/config/validate_table.py to validate_table.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/input_handler.py to input_handler.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/html/output_handler.py to output_handler.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/__init__.py to __init__.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config/__init__.py to __init__.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config/add_metadata.py to add_metadata.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config/convert.py to convert.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config/show_install_info.py to show_install_info.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config/subset_table.py to subset_table.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config/summarize_table.py to summarize_table.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/config/validate_table.py to validate_table.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/input_handler.py to input_handler.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/interfaces/optparse/output_handler.py to output_handler.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/parse.py to parse.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/table.py to table.pyc byte-compiling /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom/util.py to util.pyc running install_egg_info running egg_info creating biom_format.egg-info writing requirements to biom_format.egg-info/requires.txt writing biom_format.egg-info/PKG-INFO writing top-level names to biom_format.egg-info/top_level.txt writing dependency_links to biom_format.egg-info/dependency_links.txt writing manifest file 'biom_format.egg-info/SOURCES.txt' reading manifest file 'biom_format.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' no previously-included directories found matching 'docs/_build' warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '*.pyo' found anywhere in distribution warning: no previously-included files matching '.git' found anywhere in distribution writing manifest file 'biom_format.egg-info/SOURCES.txt' Copying biom_format.egg-info to /sw/build.build/root-biom-format-py27-2.1-1/sw/lib/python2.7/site-packages/biom_format-2.1-py2.7.egg-info running install_scripts creating /sw/build.build/root-biom-format-py27-2.1-1/sw/bin copying build/scripts-2.7/biom -> /sw/build.build/root-biom-format-py27-2.1-1/sw/bin copying build/scripts-2.7/serve-biom -> /sw/build.build/root-biom-format-py27-2.1-1/sw/bin changing mode of /sw/build.build/root-biom-format-py27-2.1-1/sw/bin/biom to 755 changing mode of /sw/build.build/root-biom-format-py27-2.1-1/sw/bin/serve-biom to 755 for file in biom serve-biom; do mv /sw/build.build/root-biom-format-py27-2.1-1/sw/bin/$file /sw/build.build/root-biom-format-py27-2.1-1/sw/bin/$file-py27 done sudo -u fink-bld [ENV] sh -c /tmp/fink.Sw6RZ /usr/bin/install -d -m 700 /sw/build.build/root-biom-format-py27-2.1-1/sw/share/doc/biom-format-py27 /bin/cp -r COPYING.txt /sw/build.build/root-biom-format-py27-2.1-1/sw/share/doc/biom-format-py27/ /bin/cp -r README.md /sw/build.build/root-biom-format-py27-2.1-1/sw/share/doc/biom-format-py27/ /bin/chmod -R go=u-w /sw/build.build/root-biom-format-py27-2.1-1/sw/share/doc/biom-format-py27 /bin/rm -f /sw/build.build/root-biom-format-py27-2.1-1/sw/info/dir /sw/build.build/root-biom-format-py27-2.1-1/sw/info/dir.old /sw/build.build/root-biom-format-py27-2.1-1/sw/share/info/dir /sw/build.build/root-biom-format-py27-2.1-1/sw/share/info/dir.old Reverting ownership of install dir to root Writing control file... Writing package script postinst... Writing package script prerm... Writing md5sums file... env LANG=C LC_ALL=C dpkg-deb -b root-biom-format-py27-2.1-1 /sw/fink/10.9/stable/main/binary-darwin-x86_64/libs/pythonmods dpkg-deb: building package `biom-format-py27' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/libs/pythonmods/biom-format-py27_2.1-1_darwin-x86_64.deb'. Removing runtime build-lock... Removing build-lock package... /sw/bin/dpkg-lockwait -r fink-buildlock-biom-format-py27-2.1-1 (Reading database ... 13931 files and directories currently installed.) Removing fink-buildlock-biom-format-py27-2.1-1 ...