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@kescobo
Created April 8, 2020 14:12
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Requirement already satisfied: chardet<3.1.0,>=3.0.2 in /home/vklepacc/.local/lib/python3.6/site-packages (from requests->MetaPhlAn==3.0) (3.0.4)
Requirement already satisfied: idna<2.8,>=2.5 in /home/vklepacc/.local/lib/python3.6/site-packages (from requests->MetaPhlAn==3.0) (2.7)
Requirement already satisfied: setuptools in /home/vklepacc/miniconda3/envs/metaphlan3/lib/python3.6/site-packages (from dendropy->MetaPhlAn==3.0) (46.1.3.post20200330)
Collecting bcbio-gff
Downloading bcbio-gff-0.6.6.tar.gz (19 kB)
Collecting matplotlib
Downloading matplotlib-3.2.1-cp36-cp36m-manylinux1_x86_64.whl (12.4 MB)
|████████████████████████████████| 12.4 MB 51.5 MB/s
Collecting seaborn
Downloading seaborn-0.10.0-py3-none-any.whl (215 kB)
|████████████████████████████████| 215 kB 53.9 MB/s
Collecting kiwisolver>=1.0.1
Downloading kiwisolver-1.2.0-cp36-cp36m-manylinux1_x86_64.whl (88 kB)
|████████████████████████████████| 88 kB 9.2 MB/s
Collecting cycler>=0.10
Using cached cycler-0.10.0-py2.py3-none-any.whl (6.5 kB)
Collecting pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.1
Downloading pyparsing-2.4.7-py2.py3-none-any.whl (67 kB)
|████████████████████████████████| 67 kB 1.0 MB/s
Building wheels for collected packages: MetaPhlAn, biom-format, dendropy, cmseq, phylophlan, future, bcbio-gff
Building wheel for MetaPhlAn (setup.py) ... done
Created wheel for MetaPhlAn: filename=MetaPhlAn-3.0-py3-none-any.whl size=59410 sha256=dea95e99d18a0ac3a28e6d38c30cbe9bca10f919a003d1be9e6e4ef9881515f9
Stored in directory: /home/vklepacc/.cache/pip/wheels/75/4a/70/f7120a3f50dc4def4a384ecb8ebf1da8eec8e635774c5dfe8c
Building wheel for biom-format (PEP 517) ... error
ERROR: Command errored out with exit status 1:
command: /home/vklepacc/miniconda3/envs/metaphlan3/bin/python /home/vklepacc/miniconda3/envs/metaphlan3/lib/python3.6/site-packages/pip/_vendor/pep517/_in_process.py build_wheel /tmp/tmp5jztle1z
cwd: /tmp/pip-install-emagscjb/biom-format
Complete output (185 lines):
running bdist_wheel
running build
running build_py
creating build
creating build/lib.linux-x86_64-3.6
creating build/lib.linux-x86_64-3.6/biom
copying biom/__init__.py -> build/lib.linux-x86_64-3.6/biom
copying biom/util.py -> build/lib.linux-x86_64-3.6/biom
copying biom/exception.py -> build/lib.linux-x86_64-3.6/biom
copying biom/err.py -> build/lib.linux-x86_64-3.6/biom
copying biom/table.py -> build/lib.linux-x86_64-3.6/biom
copying biom/parse.py -> build/lib.linux-x86_64-3.6/biom
creating build/lib.linux-x86_64-3.6/biom/tests
copying biom/tests/__init__.py -> build/lib.linux-x86_64-3.6/biom/tests
copying biom/tests/test_util.py -> build/lib.linux-x86_64-3.6/biom/tests
copying biom/tests/long_lines.py -> build/lib.linux-x86_64-3.6/biom/tests
copying biom/tests/test_parse.py -> build/lib.linux-x86_64-3.6/biom/tests
copying biom/tests/test_err.py -> build/lib.linux-x86_64-3.6/biom/tests
copying biom/tests/test_table.py -> build/lib.linux-x86_64-3.6/biom/tests
creating build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/table_normalizer.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/__init__.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/util.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/metadata_exporter.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/installation_informer.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/table_summarizer.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/table_converter.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/metadata_adder.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/table_subsetter.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/table_head.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/table_ids.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/uc_processor.py -> build/lib.linux-x86_64-3.6/biom/cli
copying biom/cli/table_validator.py -> build/lib.linux-x86_64-3.6/biom/cli
creating build/lib.linux-x86_64-3.6/biom/tests/test_cli
copying biom/tests/test_cli/test_add_metadata.py -> build/lib.linux-x86_64-3.6/biom/tests/test_cli
copying biom/tests/test_cli/__init__.py -> build/lib.linux-x86_64-3.6/biom/tests/test_cli
copying biom/tests/test_cli/test_summarize_table.py -> build/lib.linux-x86_64-3.6/biom/tests/test_cli
copying biom/tests/test_cli/test_show_install_info.py -> build/lib.linux-x86_64-3.6/biom/tests/test_cli
copying biom/tests/test_cli/test_validate_table.py -> build/lib.linux-x86_64-3.6/biom/tests/test_cli
copying biom/tests/test_cli/test_uc_processor.py -> build/lib.linux-x86_64-3.6/biom/tests/test_cli
copying biom/tests/test_cli/test_table_normalizer.py -> build/lib.linux-x86_64-3.6/biom/tests/test_cli
copying biom/tests/test_cli/test_table_converter.py -> build/lib.linux-x86_64-3.6/biom/tests/test_cli
copying biom/tests/test_cli/test_subset_table.py -> build/lib.linux-x86_64-3.6/biom/tests/test_cli
creating build/lib.linux-x86_64-3.6/biom/tests/test_data
copying biom/tests/test_data/__init__.py -> build/lib.linux-x86_64-3.6/biom/tests/test_data
running egg_info
writing biom_format.egg-info/PKG-INFO
writing dependency_links to biom_format.egg-info/dependency_links.txt
writing entry points to biom_format.egg-info/entry_points.txt
writing requirements to biom_format.egg-info/requires.txt
writing top-level names to biom_format.egg-info/top_level.txt
reading manifest file 'biom_format.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
/tmp/pip-build-env-3hdcxvb_/overlay/lib/python3.6/site-packages/setuptools/dist.py:454: UserWarning: Normalizing '2.1.8-dev' to '2.1.8.dev0'
warnings.warn(tmpl.format(**locals()))
warning: no directories found matching 'support_files'
warning: no directories found matching 'tests/test_data'
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
warning: no previously-included files matching '*.so' found anywhere in distribution
warning: no previously-included files matching '.*.swp' found anywhere in distribution
writing manifest file 'biom_format.egg-info/SOURCES.txt'
copying biom/_filter.pyx -> build/lib.linux-x86_64-3.6/biom
copying biom/_subsample.pyx -> build/lib.linux-x86_64-3.6/biom
copying biom/_transform.pyx -> build/lib.linux-x86_64-3.6/biom
creating build/lib.linux-x86_64-3.6/biom/assets
copying biom/assets/exercise_api.py -> build/lib.linux-x86_64-3.6/biom/assets
copying biom/assets/exercise_cli.sh -> build/lib.linux-x86_64-3.6/biom/assets
creating build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10000x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10000x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10000x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10000x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10000x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10000x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x1000x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x1000x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x1000x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x1000x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x1000x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x1000x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x100x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x100x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x100x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x100x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x100x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x100x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10000x10x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10000x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10000x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10000x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10000x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10000x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10000x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x1000x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x1000x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x1000x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x1000x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x1000x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x1000x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x100x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x100x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x100x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x100x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x100x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x100x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/1000x10x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10000x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10000x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10000x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10000x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10000x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10000x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x1000x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x1000x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x1000x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x1000x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x1000x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x1000x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x100x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x100x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x100x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x100x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x100x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x100x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/100x10x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10000x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10000x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10000x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10000x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10000x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10000x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x1000x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x1000x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x1000x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x1000x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x1000x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x1000x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x100x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x100x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x100x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x100x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x100x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x100x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10x0.001_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10x0.001_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10x0.010_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10x0.010_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10x0.100_bench.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
copying biom/tests/bench_tables/10x10x0.100_bench_hdf5.biom.gz -> build/lib.linux-x86_64-3.6/biom/tests/bench_tables
creating build/lib.linux-x86_64-3.6/biom/tests/test_cli/test_data
copying biom/tests/test_cli/test_data/json_obs_collapsed.biom -> build/lib.linux-x86_64-3.6/biom/tests/test_cli/test_data
copying biom/tests/test_cli/test_data/json_sample_collapsed.biom -> build/lib.linux-x86_64-3.6/biom/tests/test_cli/test_data
copying biom/tests/test_cli/test_data/test.biom -> build/lib.linux-x86_64-3.6/biom/tests/test_cli/test_data
copying biom/tests/test_cli/test_data/test.json -> build/lib.linux-x86_64-3.6/biom/tests/test_cli/test_data
copying biom/tests/test_data/bad_table.txt -> build/lib.linux-x86_64-3.6/biom/tests/test_data
copying biom/tests/test_data/bad_table.txt.gz -> build/lib.linux-x86_64-3.6/biom/tests/test_data
copying biom/tests/test_data/empty.biom -> build/lib.linux-x86_64-3.6/biom/tests/test_data
copying biom/tests/test_data/no-contents.biom -> build/lib.linux-x86_64-3.6/biom/tests/test_data
copying biom/tests/test_data/test.biom -> build/lib.linux-x86_64-3.6/biom/tests/test_data
copying biom/tests/test_data/test.json -> build/lib.linux-x86_64-3.6/biom/tests/test_data
copying biom/tests/test_data/test.json.gz -> build/lib.linux-x86_64-3.6/biom/tests/test_data
running build_ext
building 'biom._filter' extension
creating build/temp.linux-x86_64-3.6
creating build/temp.linux-x86_64-3.6/biom
/home/vklepacc/miniconda3/bin/x86_64-conda_cos6-linux-gnu-cc -DNDEBUG -fwrapv -O2 -Wall -Wstrict-prototypes -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -fPIC -I/tmp/pip-build-env-3hdcxvb_/overlay/lib/python3.6/site-packages/numpy/core/include -I/tmp/pip-build-env-3hdcxvb_/overlay/lib/python3.6/site-packages/numpy/core/include -I/home/vklepacc/miniconda3/envs/metaphlan3/include/python3.6m -c biom/_filter.c -o build/temp.linux-x86_64-3.6/biom/_filter.o
error: command '/home/vklepacc/miniconda3/bin/x86_64-conda_cos6-linux-gnu-cc' failed with exit status 1
----------------------------------------
ERROR: Failed building wheel for biom-format
Building wheel for dendropy (setup.py) ... done
Created wheel for dendropy: filename=DendroPy-4.4.0-py3-none-any.whl size=442139 sha256=93d064445308462f97ee8df2d770e90b159655bc559805daf0c776a5cbd1469e
Stored in directory: /home/vklepacc/.cache/pip/wheels/d3/9f/7f/1141505dc5b872332224ae4f816c3614b259babaf651616cc7
Building wheel for cmseq (setup.py) ... done
Created wheel for cmseq: filename=CMSeq-1.0.0-py3-none-any.whl size=19560 sha256=277d9f3879fff3867a18df59fee3e7b032ad2f0e74cc7d4ad1caaeda2a52274d
Stored in directory: /tmp/pip-ephem-wheel-cache-wo4ugd7u/wheels/b8/b0/b6/f899df621366df71c124edc0366d6f9ab934e597232d0ed674
Building wheel for phylophlan (setup.py) ... done
Created wheel for phylophlan: filename=PhyloPhlAn-3.0-py3-none-any.whl size=89064 sha256=5dbc067f672d35395d4ef0eeec8f411a9de8e0d375a070b1e168ec36e03c3dee
Stored in directory: /tmp/pip-ephem-wheel-cache-wo4ugd7u/wheels/d2/dd/f8/a08a741bbaf523ccdf0ee01b863d2d792526712e07540ed0f8
Building wheel for future (setup.py) ... done
Created wheel for future: filename=future-0.18.2-py3-none-any.whl size=491058 sha256=900c4340e7e3aeb15749ae153281d6bce4f90a414301d5c607deea66a397e0a5
Stored in directory: /home/vklepacc/.cache/pip/wheels/6e/9c/ed/4499c9865ac1002697793e0ae05ba6be33553d098f3347fb94
Building wheel for bcbio-gff (setup.py) ... done
Created wheel for bcbio-gff: filename=bcbio_gff-0.6.6-py3-none-any.whl size=15455 sha256=add71c4975674fa6e0e18071c2e69f52d1675ededce2c1a60fa61ecb7a789873
Stored in directory: /home/vklepacc/.cache/pip/wheels/b8/84/1c/15f322d4addcb4878db5f6a968348cf7b60c717b3ca70a4cfd
Successfully built MetaPhlAn dendropy cmseq phylophlan future bcbio-gff
Failed to build biom-format
ERROR: Could not build wheels for biom-format which use PEP 517 and cannot be installed directly
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