2019-07-17T16:20:12 Created temporary directory: /tmp/pip-ephem-wheel-cache-se8lm32z
2019-07-17T16:20:12 Created temporary directory: /tmp/pip-req-tracker-642w2qa8
2019-07-17T16:20:12 Created requirements tracker '/tmp/pip-req-tracker-642w2qa8'
2019-07-17T16:20:12 Created temporary directory: /tmp/pip-wheel-lcc5nyv6
2019-07-17T16:20:12 Collecting centreseq==0.2.3
2019-07-17T16:20:12   1 location(s) to search for versions of centreseq:
2019-07-17T16:20:12   * https://pypi.org/simple/centreseq/
2019-07-17T16:20:12   Getting page https://pypi.org/simple/centreseq/
2019-07-17T16:20:13   Analyzing links from page https://pypi.org/simple/centreseq/
2019-07-17T16:20:13     Found link https://files.pythonhosted.org/packages/8d/9a/e346fa732d668794f1903576348919ab165edc9b70465d62d1040775db31/centreseq-0.2.3.tar.gz#sha256=4eea2b84a14a9700e94c6d5905c623fa40a376e657a044a1ca957884741f8d27 (from https://pypi.org/simple/centreseq/) (requires-python:~=3.6), version: 0.2.3
2019-07-17T16:20:13     Found link https://files.pythonhosted.org/packages/23/4c/43f71a73da23c4b58beb12923eca0951f8ae98676a327a021a52a9abefb7/centreseq-0.3.0.tar.gz#sha256=19b6a357ecb6e3a61dbd0a0d0690c7981bfac11cc5248f6595f7f4dd52babb10 (from https://pypi.org/simple/centreseq/) (requires-python:~=3.6), version: 0.3.0
2019-07-17T16:20:13   Using version 0.2.3 (newest of versions: 0.2.3)
2019-07-17T16:20:13   Created temporary directory: /tmp/pip-unpack-fhtuqgpl
2019-07-17T16:20:13   Downloading https://files.pythonhosted.org/packages/8d/9a/e346fa732d668794f1903576348919ab165edc9b70465d62d1040775db31/centreseq-0.2.3.tar.gz (120kB)
2019-07-17T16:20:13   Downloading from URL https://files.pythonhosted.org/packages/8d/9a/e346fa732d668794f1903576348919ab165edc9b70465d62d1040775db31/centreseq-0.2.3.tar.gz#sha256=4eea2b84a14a9700e94c6d5905c623fa40a376e657a044a1ca957884741f8d27 (from https://pypi.org/simple/centreseq/) (requires-python:~=3.6)
2019-07-17T16:20:13   Added centreseq==0.2.3 from https://files.pythonhosted.org/packages/8d/9a/e346fa732d668794f1903576348919ab165edc9b70465d62d1040775db31/centreseq-0.2.3.tar.gz#sha256=4eea2b84a14a9700e94c6d5905c623fa40a376e657a044a1ca957884741f8d27 to build tracker '/tmp/pip-req-tracker-642w2qa8'
2019-07-17T16:20:13     Running setup.py (path:/tmp/pip-wheel-lcc5nyv6/centreseq/setup.py) egg_info for package centreseq
2019-07-17T16:20:13     Running command python setup.py egg_info
2019-07-17T16:20:15     running egg_info
2019-07-17T16:20:15     creating pip-egg-info/centreseq.egg-info
2019-07-17T16:20:15     writing pip-egg-info/centreseq.egg-info/PKG-INFO
2019-07-17T16:20:15     writing dependency_links to pip-egg-info/centreseq.egg-info/dependency_links.txt
2019-07-17T16:20:15     writing entry points to pip-egg-info/centreseq.egg-info/entry_points.txt
2019-07-17T16:20:15     writing requirements to pip-egg-info/centreseq.egg-info/requires.txt
2019-07-17T16:20:15     writing top-level names to pip-egg-info/centreseq.egg-info/top_level.txt
2019-07-17T16:20:15     writing manifest file 'pip-egg-info/centreseq.egg-info/SOURCES.txt'
2019-07-17T16:20:15     reading manifest file 'pip-egg-info/centreseq.egg-info/SOURCES.txt'
2019-07-17T16:20:15     reading manifest template 'MANIFEST.in'
2019-07-17T16:20:15     writing manifest file 'pip-egg-info/centreseq.egg-info/SOURCES.txt'
2019-07-17T16:20:15   Source in /tmp/pip-wheel-lcc5nyv6/centreseq has version 0.2.3, which satisfies requirement centreseq==0.2.3 from https://files.pythonhosted.org/packages/8d/9a/e346fa732d668794f1903576348919ab165edc9b70465d62d1040775db31/centreseq-0.2.3.tar.gz#sha256=4eea2b84a14a9700e94c6d5905c623fa40a376e657a044a1ca957884741f8d27
2019-07-17T16:20:15   Removed centreseq==0.2.3 from https://files.pythonhosted.org/packages/8d/9a/e346fa732d668794f1903576348919ab165edc9b70465d62d1040775db31/centreseq-0.2.3.tar.gz#sha256=4eea2b84a14a9700e94c6d5905c623fa40a376e657a044a1ca957884741f8d27 from build tracker '/tmp/pip-req-tracker-642w2qa8'
2019-07-17T16:20:15 Building wheels for collected packages: centreseq
2019-07-17T16:20:15   Created temporary directory: /tmp/pip-wheel-sbd_tvf2
2019-07-17T16:20:15   Building wheel for centreseq (setup.py): started
2019-07-17T16:20:15   Destination directory: /tmp/pip-wheel-sbd_tvf2
2019-07-17T16:20:15   Running command /usr/bin/python3 -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-wheel-lcc5nyv6/centreseq/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-sbd_tvf2
2019-07-17T16:20:17   running bdist_wheel
2019-07-17T16:20:17   running build
2019-07-17T16:20:17   running build_py
2019-07-17T16:20:18   creating build
2019-07-17T16:20:18   creating build/lib
2019-07-17T16:20:18   creating build/lib/centreseq
2019-07-17T16:20:18   copying centreseq/__init__.py -> build/lib/centreseq
2019-07-17T16:20:18   copying centreseq/config.py -> build/lib/centreseq
2019-07-17T16:20:18   copying centreseq/centreseq_cli.py -> build/lib/centreseq
2019-07-17T16:20:18   creating build/lib/centreseq/bin
2019-07-17T16:20:18   copying centreseq/bin/__init__.py -> build/lib/centreseq/bin
2019-07-17T16:20:18   creating build/lib/centreseq/bin/tree
2019-07-17T16:20:18   copying centreseq/bin/tree/__init__.py -> build/lib/centreseq/bin/tree
2019-07-17T16:20:18   copying centreseq/bin/tree/wrappers.py -> build/lib/centreseq/bin/tree
2019-07-17T16:20:18   copying centreseq/bin/tree/summary.py -> build/lib/centreseq/bin/tree
2019-07-17T16:20:18   copying centreseq/bin/tree/tree_pipeline.py -> build/lib/centreseq/bin/tree
2019-07-17T16:20:18   copying centreseq/bin/tree/concatenate_sequences.py -> build/lib/centreseq/bin/tree
2019-07-17T16:20:18   copying centreseq/bin/tree/cluster_data_structures.py -> build/lib/centreseq/bin/tree
2019-07-17T16:20:18   creating build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/pick_best_nucleotide.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/mmseqs_wrapper.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/pipelines.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/__init__.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/alignments.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/summary.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/generate_network_chart.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/prokka_wrapper.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/speed_tests.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/sample_handling.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/pairwise_comparisons.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/accessories.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   copying centreseq/bin/core/validate_clusters.py -> build/lib/centreseq/bin/core
2019-07-17T16:20:18   creating build/lib/centreseq/bin/helpers
2019-07-17T16:20:18   copying centreseq/bin/helpers/__init__.py -> build/lib/centreseq/bin/helpers
2019-07-17T16:20:18   copying centreseq/bin/helpers/extract_rep_multifasta.py -> build/lib/centreseq/bin/helpers
2019-07-17T16:20:18   copying centreseq/bin/helpers/extract_subset.py -> build/lib/centreseq/bin/helpers
2019-07-17T16:20:18   creating build/lib/centreseq/bin/visualizations
2019-07-17T16:20:18   copying centreseq/bin/visualizations/__init__.py -> build/lib/centreseq/bin/visualizations
2019-07-17T16:20:18   running egg_info
2019-07-17T16:20:18   writing centreseq.egg-info/PKG-INFO
2019-07-17T16:20:18   writing dependency_links to centreseq.egg-info/dependency_links.txt
2019-07-17T16:20:18   writing entry points to centreseq.egg-info/entry_points.txt
2019-07-17T16:20:18   writing requirements to centreseq.egg-info/requires.txt
2019-07-17T16:20:18   writing top-level names to centreseq.egg-info/top_level.txt
2019-07-17T16:20:18   reading manifest file 'centreseq.egg-info/SOURCES.txt'
2019-07-17T16:20:18   reading manifest template 'MANIFEST.in'
2019-07-17T16:20:18   writing manifest file 'centreseq.egg-info/SOURCES.txt'
2019-07-17T16:20:18   copying centreseq/bin/visualizations/network_graph_template.html -> build/lib/centreseq/bin/visualizations
2019-07-17T16:20:18   creating build/lib/centreseq/bin/visualizations/static
2019-07-17T16:20:18   copying centreseq/bin/visualizations/static/d3-simple-slider.js -> build/lib/centreseq/bin/visualizations/static
2019-07-17T16:20:18   copying centreseq/bin/visualizations/static/d3.v5.min.js -> build/lib/centreseq/bin/visualizations/static
2019-07-17T16:20:18   installing to build/bdist.linux-armv7l/wheel
2019-07-17T16:20:18   running install
2019-07-17T16:20:18   running install_lib
2019-07-17T16:20:18   creating build/bdist.linux-armv7l
2019-07-17T16:20:18   creating build/bdist.linux-armv7l/wheel
2019-07-17T16:20:18   creating build/bdist.linux-armv7l/wheel/centreseq
2019-07-17T16:20:18   copying build/lib/centreseq/__init__.py -> build/bdist.linux-armv7l/wheel/centreseq
2019-07-17T16:20:18   copying build/lib/centreseq/config.py -> build/bdist.linux-armv7l/wheel/centreseq
2019-07-17T16:20:18   creating build/bdist.linux-armv7l/wheel/centreseq/bin
2019-07-17T16:20:18   creating build/bdist.linux-armv7l/wheel/centreseq/bin/tree
2019-07-17T16:20:18   copying build/lib/centreseq/bin/tree/__init__.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/tree
2019-07-17T16:20:18   copying build/lib/centreseq/bin/tree/wrappers.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/tree
2019-07-17T16:20:18   copying build/lib/centreseq/bin/tree/summary.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/tree
2019-07-17T16:20:18   copying build/lib/centreseq/bin/tree/tree_pipeline.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/tree
2019-07-17T16:20:18   copying build/lib/centreseq/bin/tree/concatenate_sequences.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/tree
2019-07-17T16:20:18   copying build/lib/centreseq/bin/tree/cluster_data_structures.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/tree
2019-07-17T16:20:18   copying build/lib/centreseq/bin/__init__.py -> build/bdist.linux-armv7l/wheel/centreseq/bin
2019-07-17T16:20:18   creating build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/pick_best_nucleotide.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/mmseqs_wrapper.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/pipelines.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/__init__.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/alignments.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/summary.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/generate_network_chart.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/prokka_wrapper.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/speed_tests.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/sample_handling.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/pairwise_comparisons.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/accessories.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   copying build/lib/centreseq/bin/core/validate_clusters.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/core
2019-07-17T16:20:18   creating build/bdist.linux-armv7l/wheel/centreseq/bin/helpers
2019-07-17T16:20:18   copying build/lib/centreseq/bin/helpers/__init__.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/helpers
2019-07-17T16:20:18   copying build/lib/centreseq/bin/helpers/extract_rep_multifasta.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/helpers
2019-07-17T16:20:18   copying build/lib/centreseq/bin/helpers/extract_subset.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/helpers
2019-07-17T16:20:18   creating build/bdist.linux-armv7l/wheel/centreseq/bin/visualizations
2019-07-17T16:20:18   copying build/lib/centreseq/bin/visualizations/__init__.py -> build/bdist.linux-armv7l/wheel/centreseq/bin/visualizations
2019-07-17T16:20:18   copying build/lib/centreseq/bin/visualizations/network_graph_template.html -> build/bdist.linux-armv7l/wheel/centreseq/bin/visualizations
2019-07-17T16:20:18   creating build/bdist.linux-armv7l/wheel/centreseq/bin/visualizations/static
2019-07-17T16:20:18   copying build/lib/centreseq/bin/visualizations/static/d3.v5.min.js -> build/bdist.linux-armv7l/wheel/centreseq/bin/visualizations/static
2019-07-17T16:20:18   copying build/lib/centreseq/bin/visualizations/static/d3-simple-slider.js -> build/bdist.linux-armv7l/wheel/centreseq/bin/visualizations/static
2019-07-17T16:20:18   copying build/lib/centreseq/centreseq_cli.py -> build/bdist.linux-armv7l/wheel/centreseq
2019-07-17T16:20:18   running install_egg_info
2019-07-17T16:20:18   Copying centreseq.egg-info to build/bdist.linux-armv7l/wheel/centreseq-0.2.3-py3.7.egg-info
2019-07-17T16:20:18   running install_scripts
2019-07-17T16:20:18   creating build/bdist.linux-armv7l/wheel/centreseq-0.2.3.dist-info/WHEEL
2019-07-17T16:20:18   creating '/tmp/pip-wheel-sbd_tvf2/centreseq-0.2.3-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2019-07-17T16:20:18   adding 'centreseq/__init__.py'
2019-07-17T16:20:18   adding 'centreseq/centreseq_cli.py'
2019-07-17T16:20:18   adding 'centreseq/config.py'
2019-07-17T16:20:18   adding 'centreseq/bin/__init__.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/__init__.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/accessories.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/alignments.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/generate_network_chart.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/mmseqs_wrapper.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/pairwise_comparisons.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/pick_best_nucleotide.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/pipelines.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/prokka_wrapper.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/sample_handling.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/speed_tests.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/summary.py'
2019-07-17T16:20:18   adding 'centreseq/bin/core/validate_clusters.py'
2019-07-17T16:20:18   adding 'centreseq/bin/helpers/__init__.py'
2019-07-17T16:20:18   adding 'centreseq/bin/helpers/extract_rep_multifasta.py'
2019-07-17T16:20:18   adding 'centreseq/bin/helpers/extract_subset.py'
2019-07-17T16:20:18   adding 'centreseq/bin/tree/__init__.py'
2019-07-17T16:20:18   adding 'centreseq/bin/tree/cluster_data_structures.py'
2019-07-17T16:20:18   adding 'centreseq/bin/tree/concatenate_sequences.py'
2019-07-17T16:20:18   adding 'centreseq/bin/tree/summary.py'
2019-07-17T16:20:18   adding 'centreseq/bin/tree/tree_pipeline.py'
2019-07-17T16:20:18   adding 'centreseq/bin/tree/wrappers.py'
2019-07-17T16:20:18   adding 'centreseq/bin/visualizations/__init__.py'
2019-07-17T16:20:18   adding 'centreseq/bin/visualizations/network_graph_template.html'
2019-07-17T16:20:18   adding 'centreseq/bin/visualizations/static/d3-simple-slider.js'
2019-07-17T16:20:19   adding 'centreseq/bin/visualizations/static/d3.v5.min.js'
2019-07-17T16:20:19   adding 'centreseq-0.2.3.dist-info/METADATA'
2019-07-17T16:20:19   adding 'centreseq-0.2.3.dist-info/WHEEL'
2019-07-17T16:20:19   adding 'centreseq-0.2.3.dist-info/entry_points.txt'
2019-07-17T16:20:19   adding 'centreseq-0.2.3.dist-info/top_level.txt'
2019-07-17T16:20:19   adding 'centreseq-0.2.3.dist-info/RECORD'
2019-07-17T16:20:19   removing build/bdist.linux-armv7l/wheel
2019-07-17T16:20:19   Building wheel for centreseq (setup.py): finished with status 'done'
2019-07-17T16:20:19   Stored in directory: /tmp/tmpqvl2v4b6
2019-07-17T16:20:19 Successfully built centreseq
2019-07-17T16:20:19 Cleaning up...
2019-07-17T16:20:19   Removing source in /tmp/pip-wheel-lcc5nyv6/centreseq
2019-07-17T16:20:19 Removed build tracker '/tmp/pip-req-tracker-642w2qa8'