2020-07-10T21:24:57,349 Created temporary directory: /tmp/pip-ephem-wheel-cache-khkl4p81
2020-07-10T21:24:57,353 Created temporary directory: /tmp/pip-req-tracker-ci9parse
2020-07-10T21:24:57,354 Initialized build tracking at /tmp/pip-req-tracker-ci9parse
2020-07-10T21:24:57,356 Created build tracker: /tmp/pip-req-tracker-ci9parse
2020-07-10T21:24:57,357 Entered build tracker: /tmp/pip-req-tracker-ci9parse
2020-07-10T21:24:57,358 Created temporary directory: /tmp/pip-wheel-eajdnwug
2020-07-10T21:24:57,377 1 location(s) to search for versions of biobakery-workflows:
2020-07-10T21:24:57,377 * https://pypi.org/simple/biobakery-workflows/
2020-07-10T21:24:57,378 Fetching project page and analyzing links: https://pypi.org/simple/biobakery-workflows/
2020-07-10T21:24:57,380 Getting page https://pypi.org/simple/biobakery-workflows/
2020-07-10T21:24:57,384 Found index url https://pypi.org/simple
2020-07-10T21:24:57,726   Found link https://files.pythonhosted.org/packages/1c/b8/2d49305112ddce416e9f37d6bbd9cdd50eeda669d91954e9b4188b00aa9c/biobakery_workflows-0.3.0.tar.gz#sha256=40fb7921f8bf721b0179672ea42220e43627e2fbf2cc9ec71225f1b405406e05 (from https://pypi.org/simple/biobakery-workflows/), version: 0.3.0
2020-07-10T21:24:57,727   Found link https://files.pythonhosted.org/packages/70/7c/64769accee73cfba802fd536ca6b19990bfd444dc429038a0b0e970d4707/biobakery_workflows-0.3.1.tar.gz#sha256=8ffadeb2c57595a33a01a3f1d341191eff0dcc1acd33280496fe220ceb02ebe9 (from https://pypi.org/simple/biobakery-workflows/), version: 0.3.1
2020-07-10T21:24:57,728   Found link https://files.pythonhosted.org/packages/10/51/511c7456972a3e51fb98416e153eaaf2f2e091683763a9030bcfd9278dee/biobakery_workflows-0.9.0.tar.gz#sha256=80496a31a267472bdfc434ad52f4a38d896fece5817f87cf37f9010882d75298 (from https://pypi.org/simple/biobakery-workflows/), version: 0.9.0
2020-07-10T21:24:57,729   Found link https://files.pythonhosted.org/packages/26/56/14a401341149cc14532ab03e8e327c21518b3e03c07ab4f8b9469abc4d11/biobakery_workflows-0.12.1.tar.gz#sha256=d5f6f0a73e5e30d0fb5ef198296ac8ad7d63813e098b6963ee27b6f606d12042 (from https://pypi.org/simple/biobakery-workflows/), version: 0.12.1
2020-07-10T21:24:57,730   Found link https://files.pythonhosted.org/packages/10/5f/a627ee61e221c02dc272c5d77c2208be7f47e274f0241cc4a6052b5c17eb/biobakery_workflows-0.13.0.tar.gz#sha256=6cbf6df4e2cf77f6c8ddb21ac03137747ce1561775464eab8dc74b8b91c4b729 (from https://pypi.org/simple/biobakery-workflows/), version: 0.13.0
2020-07-10T21:24:57,731   Found link https://files.pythonhosted.org/packages/51/63/a9f0055e5c798017111b959383b92a79d77716a8aae668353f46985f48da/biobakery_workflows-0.13.1.tar.gz#sha256=8d57bffdd3d67bef378537046f0a4c54bb855d0ae8dab8c97d027b680e9050ab (from https://pypi.org/simple/biobakery-workflows/), version: 0.13.1
2020-07-10T21:24:57,732   Found link https://files.pythonhosted.org/packages/4b/5f/e8a487a22758156034d8a9ecd9846f10383e610780cd8b5d90ecfb32faf9/biobakery_workflows-0.13.2.tar.gz#sha256=93b5ecf1f5395149a9021516a0cc3e2a7cb2c9c4c5c1ebefc5f5822bcfdbf6b4 (from https://pypi.org/simple/biobakery-workflows/), version: 0.13.2
2020-07-10T21:24:57,732   Found link https://files.pythonhosted.org/packages/cc/87/d006df9363f78ade3e5c766c61113ad96d18036e2cca432c6f174fa87340/biobakery_workflows-0.13.3.tar.gz#sha256=211e600d24e0ef0c654265b914b2181b92a635d2a4bbab4773c890ab5aa06574 (from https://pypi.org/simple/biobakery-workflows/), version: 0.13.3
2020-07-10T21:24:57,733   Found link https://files.pythonhosted.org/packages/cb/c6/ff6d693a51709e1a48870184ad3390ee690fd9f240a557e373755829cb4d/biobakery_workflows-0.13.4.tar.gz#sha256=7f5d6637ca83ec1df74277110fc65bc8bc75aed5ff10c923b6f5fb15cb7fec3f (from https://pypi.org/simple/biobakery-workflows/), version: 0.13.4
2020-07-10T21:24:57,734   Found link https://files.pythonhosted.org/packages/a8/07/8fca14b4626560e71b8c43dc209c0f6c0b028d0be5633d681fa3176c1b8d/biobakery_workflows-0.13.5.tar.gz#sha256=d755c443d58897c2514a62a2e65c2692bfe7999bab249ee6674acef6131ba68f (from https://pypi.org/simple/biobakery-workflows/), version: 0.13.5
2020-07-10T21:24:57,735   Found link https://files.pythonhosted.org/packages/e1/de/5b3da5aca1d31c8a68642e94663e3e23e037397ab6397af891ae388c95ca/biobakery_workflows-0.14.1.tar.gz#sha256=a6a4f59351e43e3a18e8b6cafa3de970af1922aaddd6cf86ba316bbdddf2a2f2 (from https://pypi.org/simple/biobakery-workflows/), version: 0.14.1
2020-07-10T21:24:57,736   Found link https://files.pythonhosted.org/packages/56/fd/8c492771a384b1ee53db56903eff6d850f5bbb3059784f5f205d5a8dc297/biobakery_workflows-0.14.2.tar.gz#sha256=7c6a539b1c673dbf96235956b51e75f5f9a66d07d4104eac92c3d1d3a56d57a5 (from https://pypi.org/simple/biobakery-workflows/), version: 0.14.2
2020-07-10T21:24:57,737   Found link https://files.pythonhosted.org/packages/97/44/dc0bdd6b40a5ea79a6b0fac53d119644ebeb61daefb3fe4756cd5eed2cea/biobakery_workflows-0.14.3.tar.gz#sha256=99d09d8ebc2689d80162ed152d8ab6d840950dd52e278d6c055a27cc5540610a (from https://pypi.org/simple/biobakery-workflows/), version: 0.14.3
2020-07-10T21:24:57,738   Found link https://files.pythonhosted.org/packages/52/24/2fcc8032cb2f3ac6e62b9f7c0fc3e23ff2eb644a7962c9e1c4ac6a717f11/biobakery_workflows-0.15.0.tar.gz#sha256=205a4711d9167e41a4fd8bb286b6650db4989e5e3a849ae64fce3138029ceb83 (from https://pypi.org/simple/biobakery-workflows/), version: 0.15.0
2020-07-10T21:24:57,739   Found link https://files.pythonhosted.org/packages/2f/4e/992ed567f8094c64e39cb5728d2f899678415ac398cc8346e1b2750d14c9/biobakery_workflows-0.15.1.tar.gz#sha256=4fa73ef5641b8b9531d4b8da09ed76a2d4d36c5cbe2a49ae257679cafd15fd5c (from https://pypi.org/simple/biobakery-workflows/), version: 0.15.1
2020-07-10T21:24:57,739   Found link https://files.pythonhosted.org/packages/f5/4c/5e631276b617f23bd0fdd6569bd5a8223936c1f4230acd48fdb28d8772be/biobakery_workflows-3.0.0a0.tar.gz#sha256=cb050a3cf356522185e8badd2bc599d1cb2d3e2d4d29b47531807b3e685bda8d (from https://pypi.org/simple/biobakery-workflows/), version: 3.0.0a0
2020-07-10T21:24:57,740   Found link https://files.pythonhosted.org/packages/19/55/22b8a4c499049c4e3abeda7dbe0998e9fb773b38943c862afb64786295e9/biobakery_workflows-3.0.0a1.tar.gz#sha256=e7d1a948fd3c447665e95a10441ca7320db91aad2962a70b60ae184a37cff15a (from https://pypi.org/simple/biobakery-workflows/), version: 3.0.0a1
2020-07-10T21:24:57,741   Found link https://files.pythonhosted.org/packages/6a/4d/2775b25e75bfe3c769b3ead36eff1ef3d7bb2aee8142a74492b1d3c63d70/biobakery_workflows-3.0.0a2.tar.gz#sha256=2c42fb5cbbf9bdf19a01cccb14ecf5876b69a5c1c2cb92bf4e14590c4f22a9fd (from https://pypi.org/simple/biobakery-workflows/), version: 3.0.0a2
2020-07-10T21:24:57,742   Found link https://files.pythonhosted.org/packages/90/c2/6b34fa5d6bfad28790eae27778468c7092b0e29a501ba1eb6265b771cbf7/biobakery_workflows-3.0.0a3.tar.gz#sha256=de2afa9747db28482f46031dfc3192e6f170ff1fb81e4efc325cd07500862b1b (from https://pypi.org/simple/biobakery-workflows/), version: 3.0.0a3
2020-07-10T21:24:57,743   Found link https://files.pythonhosted.org/packages/e9/76/ba376c1958d671c238f1198a934b117c8d133ef9b1558f82fc7f494495ef/biobakery_workflows-3.0.0a4.tar.gz#sha256=bfd73d442ed99402e61f87774b123746b6a3161574997654cdceb4bd258a5518 (from https://pypi.org/simple/biobakery-workflows/), version: 3.0.0a4
2020-07-10T21:24:57,744   Found link https://files.pythonhosted.org/packages/f7/66/714144f76398d9055b80803d04c20a5dc5cc25059514786caaf7454389a0/biobakery_workflows-3.0.0a5.tar.gz#sha256=0127302c678e4fd3952efd9a6907660703907900dafe015291d6c3fd2ec2922d (from https://pypi.org/simple/biobakery-workflows/), version: 3.0.0a5
2020-07-10T21:24:57,745   Found link https://files.pythonhosted.org/packages/2d/94/a35b04d3a7202fea932bffdeca372c13fc45b6d463c62dcb8293e0893e95/biobakery_workflows-3.0.0-alpha.6.tar.gz#sha256=686481c6b638fc718cd295e893cd6eae40bd7d4e2e3009862a8958f410f17242 (from https://pypi.org/simple/biobakery-workflows/), version: 3.0.0-alpha.6
2020-07-10T21:24:57,765 Given no hashes to check 1 links for project 'biobakery-workflows': discarding no candidates
2020-07-10T21:24:57,767 Using version 3.0.0a6 (newest of versions: 3.0.0a6)
2020-07-10T21:24:57,774 Collecting biobakery-workflows==3.0.0-alpha.6
2020-07-10T21:24:57,779   Created temporary directory: /tmp/pip-unpack-bjbegnba
2020-07-10T21:24:59,419   Downloading biobakery_workflows-3.0.0-alpha.6.tar.gz (44.6 MB)
2020-07-10T21:25:18,754   Added biobakery-workflows==3.0.0-alpha.6 from https://files.pythonhosted.org/packages/2d/94/a35b04d3a7202fea932bffdeca372c13fc45b6d463c62dcb8293e0893e95/biobakery_workflows-3.0.0-alpha.6.tar.gz#sha256=686481c6b638fc718cd295e893cd6eae40bd7d4e2e3009862a8958f410f17242 to build tracker '/tmp/pip-req-tracker-ci9parse'
2020-07-10T21:25:18,756     Running setup.py (path:/tmp/pip-wheel-eajdnwug/biobakery-workflows/setup.py) egg_info for package biobakery-workflows
2020-07-10T21:25:18,758     Created temporary directory: /tmp/pip-pip-egg-info-jxud8j80
2020-07-10T21:25:18,758     Running command python setup.py egg_info
2020-07-10T21:25:20,923     running egg_info
2020-07-10T21:25:20,931     creating /tmp/pip-pip-egg-info-jxud8j80/biobakery_workflows.egg-info
2020-07-10T21:25:20,936     writing /tmp/pip-pip-egg-info-jxud8j80/biobakery_workflows.egg-info/PKG-INFO
2020-07-10T21:25:20,942     writing requirements to /tmp/pip-pip-egg-info-jxud8j80/biobakery_workflows.egg-info/requires.txt
2020-07-10T21:25:20,946     writing dependency_links to /tmp/pip-pip-egg-info-jxud8j80/biobakery_workflows.egg-info/dependency_links.txt
2020-07-10T21:25:20,948     writing top-level names to /tmp/pip-pip-egg-info-jxud8j80/biobakery_workflows.egg-info/top_level.txt
2020-07-10T21:25:20,953     writing entry points to /tmp/pip-pip-egg-info-jxud8j80/biobakery_workflows.egg-info/entry_points.txt
2020-07-10T21:25:20,960     writing manifest file '/tmp/pip-pip-egg-info-jxud8j80/biobakery_workflows.egg-info/SOURCES.txt'
2020-07-10T21:25:21,362     reading manifest file '/tmp/pip-pip-egg-info-jxud8j80/biobakery_workflows.egg-info/SOURCES.txt'
2020-07-10T21:25:21,366     reading manifest template 'MANIFEST.in'
2020-07-10T21:25:21,404     writing manifest file '/tmp/pip-pip-egg-info-jxud8j80/biobakery_workflows.egg-info/SOURCES.txt'
2020-07-10T21:25:21,408     /usr/local/lib/python3.5/dist-packages/setuptools/dist.py:458: UserWarning: Normalizing '3.0.0-alpha.6' to '3.0.0a6'
2020-07-10T21:25:21,408       warnings.warn(tmpl.format(**locals()))
2020-07-10T21:25:21,548   Source in /tmp/pip-wheel-eajdnwug/biobakery-workflows has version 3.0.0a6, which satisfies requirement biobakery-workflows==3.0.0-alpha.6 from https://files.pythonhosted.org/packages/2d/94/a35b04d3a7202fea932bffdeca372c13fc45b6d463c62dcb8293e0893e95/biobakery_workflows-3.0.0-alpha.6.tar.gz#sha256=686481c6b638fc718cd295e893cd6eae40bd7d4e2e3009862a8958f410f17242
2020-07-10T21:25:21,549   Removed biobakery-workflows==3.0.0-alpha.6 from https://files.pythonhosted.org/packages/2d/94/a35b04d3a7202fea932bffdeca372c13fc45b6d463c62dcb8293e0893e95/biobakery_workflows-3.0.0-alpha.6.tar.gz#sha256=686481c6b638fc718cd295e893cd6eae40bd7d4e2e3009862a8958f410f17242 from build tracker '/tmp/pip-req-tracker-ci9parse'
2020-07-10T21:25:21,553 Building wheels for collected packages: biobakery-workflows
2020-07-10T21:25:21,563   Created temporary directory: /tmp/pip-wheel-c2ptnoj7
2020-07-10T21:25:21,564   Building wheel for biobakery-workflows (setup.py): started
2020-07-10T21:25:21,564   Destination directory: /tmp/pip-wheel-c2ptnoj7
2020-07-10T21:25:21,565   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-eajdnwug/biobakery-workflows/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-eajdnwug/biobakery-workflows/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-c2ptnoj7
2020-07-10T21:25:23,645   /usr/local/lib/python3.5/dist-packages/setuptools/dist.py:458: UserWarning: Normalizing '3.0.0-alpha.6' to '3.0.0a6'
2020-07-10T21:25:23,646     warnings.warn(tmpl.format(**locals()))
2020-07-10T21:25:23,741   running bdist_wheel
2020-07-10T21:25:23,757   running build
2020-07-10T21:25:23,758   running build_py
2020-07-10T21:25:24,096   creating build
2020-07-10T21:25:24,098   creating build/lib
2020-07-10T21:25:24,100   creating build/lib/biobakery_workflows
2020-07-10T21:25:24,104   copying biobakery_workflows/files.py -> build/lib/biobakery_workflows
2020-07-10T21:25:24,111   copying biobakery_workflows/config.py -> build/lib/biobakery_workflows
2020-07-10T21:25:24,117   copying biobakery_workflows/biobakery_workflows_databases.py -> build/lib/biobakery_workflows
2020-07-10T21:25:24,126   copying biobakery_workflows/biobakery_workflows.py -> build/lib/biobakery_workflows
2020-07-10T21:25:24,132   copying biobakery_workflows/__init__.py -> build/lib/biobakery_workflows
2020-07-10T21:25:24,138   copying biobakery_workflows/utilities.py -> build/lib/biobakery_workflows
2020-07-10T21:25:24,151   copying biobakery_workflows/biobakery_workflows_scripts.py -> build/lib/biobakery_workflows
2020-07-10T21:25:24,158   copying biobakery_workflows/visualizations.py -> build/lib/biobakery_workflows
2020-07-10T21:25:24,168   creating build/lib/tests
2020-07-10T21:25:24,171   copying tests/test_utilities.py -> build/lib/tests
2020-07-10T21:25:24,179   copying tests/__init__.py -> build/lib/tests
2020-07-10T21:25:24,185   creating build/lib/biobakery_workflows/data
2020-07-10T21:25:24,187   copying biobakery_workflows/data/__init__.py -> build/lib/biobakery_workflows/data
2020-07-10T21:25:24,194   creating build/lib/biobakery_workflows/tasks
2020-07-10T21:25:24,197   copying biobakery_workflows/tasks/shotgun.py -> build/lib/biobakery_workflows/tasks
2020-07-10T21:25:24,208   copying biobakery_workflows/tasks/dadatwo.py -> build/lib/biobakery_workflows/tasks
2020-07-10T21:25:24,215   copying biobakery_workflows/tasks/sixteen_s.py -> build/lib/biobakery_workflows/tasks
2020-07-10T21:25:24,224   copying biobakery_workflows/tasks/__init__.py -> build/lib/biobakery_workflows/tasks
2020-07-10T21:25:24,228   copying biobakery_workflows/tasks/general.py -> build/lib/biobakery_workflows/tasks
2020-07-10T21:25:24,237   creating build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,240   copying biobakery_workflows/document_templates/quality_control_single_dna.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,246   copying biobakery_workflows/document_templates/taxonomy.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,252   copying biobakery_workflows/document_templates/quality_control_paired_dna.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,257   copying biobakery_workflows/document_templates/functional_dna.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,265   copying biobakery_workflows/document_templates/functional_dna_rna.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,273   copying biobakery_workflows/document_templates/16S.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,282   copying biobakery_workflows/document_templates/workflow_info.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,287   copying biobakery_workflows/document_templates/__init__.py -> build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,292   copying biobakery_workflows/document_templates/header.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,297   copying biobakery_workflows/document_templates/quality_control_paired_dna_rna.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-10T21:25:24,325   creating build/lib/biobakery_workflows/workflows
2020-07-10T21:25:24,328   copying biobakery_workflows/workflows/isolate_assembly.py -> build/lib/biobakery_workflows/workflows
2020-07-10T21:25:24,335   copying biobakery_workflows/workflows/16s.py -> build/lib/biobakery_workflows/workflows
2020-07-10T21:25:24,342   copying biobakery_workflows/workflows/wmgx.py -> build/lib/biobakery_workflows/workflows
2020-07-10T21:25:24,349   copying biobakery_workflows/workflows/wmgx_wmtx.py -> build/lib/biobakery_workflows/workflows
2020-07-10T21:25:24,358   copying biobakery_workflows/workflows/wmgx_vis.py -> build/lib/biobakery_workflows/workflows
2020-07-10T21:25:24,367   copying biobakery_workflows/workflows/wmgx_wmtx_vis.py -> build/lib/biobakery_workflows/workflows
2020-07-10T21:25:24,373   copying biobakery_workflows/workflows/16s_vis.py -> build/lib/biobakery_workflows/workflows
2020-07-10T21:25:24,390   copying biobakery_workflows/data/strainphlan_species_gcf.tsv -> build/lib/biobakery_workflows/data
2020-07-10T21:25:24,461   creating build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,464   copying biobakery_workflows/Rscripts/merge_paired_ends.R -> build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,472   copying biobakery_workflows/Rscripts/dada2_version.R -> build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,480   copying biobakery_workflows/Rscripts/filter_and_trim.R -> build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,488   copying biobakery_workflows/Rscripts/learn_error_rates.R -> build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,494   copying biobakery_workflows/Rscripts/strainphlan_ordination_vis.R -> build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,500   copying biobakery_workflows/Rscripts/phylogeny.R -> build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,506   copying biobakery_workflows/Rscripts/const_seq_table.R -> build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,514   copying biobakery_workflows/Rscripts/assign_taxonomy.R -> build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,523   copying biobakery_workflows/Rscripts/strainphlan_ggtree_vis.R -> build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,530   copying biobakery_workflows/Rscripts/identify_primers.R -> build/lib/biobakery_workflows/Rscripts
2020-07-10T21:25:24,543   running build_scripts
2020-07-10T21:25:24,545   creating build/scripts-3.5
2020-07-10T21:25:24,548   copying and adjusting biobakery_workflows/workflows/isolate_assembly.py -> build/scripts-3.5
2020-07-10T21:25:24,554   copying and adjusting biobakery_workflows/workflows/16s.py -> build/scripts-3.5
2020-07-10T21:25:24,559   copying and adjusting biobakery_workflows/workflows/wmgx.py -> build/scripts-3.5
2020-07-10T21:25:24,565   copying and adjusting biobakery_workflows/workflows/wmgx_wmtx.py -> build/scripts-3.5
2020-07-10T21:25:24,570   copying and adjusting biobakery_workflows/workflows/wmgx_vis.py -> build/scripts-3.5
2020-07-10T21:25:24,575   copying and adjusting biobakery_workflows/workflows/wmgx_wmtx_vis.py -> build/scripts-3.5
2020-07-10T21:25:24,580   copying and adjusting biobakery_workflows/workflows/16s_vis.py -> build/scripts-3.5
2020-07-10T21:25:24,586   copying and adjusting biobakery_workflows/scripts/rna_dna_norm.py -> build/scripts-3.5
2020-07-10T21:25:24,593   copying and adjusting biobakery_workflows/scripts/create_otu_tables_from_alignments.py -> build/scripts-3.5
2020-07-10T21:25:24,599   copying and adjusting biobakery_workflows/scripts/demultiplex_split_index.py -> build/scripts-3.5
2020-07-10T21:25:24,605   copying and adjusting biobakery_workflows/scripts/reverse_compliment_barcodes.py -> build/scripts-3.5
2020-07-10T21:25:24,609   copying and adjusting biobakery_workflows/scripts/remove_if_exists.py -> build/scripts-3.5
2020-07-10T21:25:24,614   copying and adjusting biobakery_workflows/scripts/count_features.py -> build/scripts-3.5
2020-07-10T21:25:24,619   copying and adjusting biobakery_workflows/scripts/trim_taxonomy.py -> build/scripts-3.5
2020-07-10T21:25:24,624   copying biobakery_workflows/scripts/rename_data_products.py -> build/scripts-3.5
2020-07-10T21:25:24,629   copying and adjusting biobakery_workflows/scripts/rename_fastq_files.py -> build/scripts-3.5
2020-07-10T21:25:24,634   copying and adjusting biobakery_workflows/scripts/check_fastq_format.py -> build/scripts-3.5
2020-07-10T21:25:24,639   copying and adjusting biobakery_workflows/scripts/merge_and_rename_fastq.py -> build/scripts-3.5
2020-07-10T21:25:24,645   copying biobakery_workflows/scripts/pull_out_reads_by_species_metaphlan2_results.py -> build/scripts-3.5
2020-07-10T21:25:24,651   copying and adjusting biobakery_workflows/scripts/merge_fastq.py -> build/scripts-3.5
2020-07-10T21:25:24,656   copying biobakery_workflows/scripts/anadama2_add_files_to_database.py -> build/scripts-3.5
2020-07-10T21:25:24,661   copying and adjusting biobakery_workflows/scripts/extract_orphan_reads.py -> build/scripts-3.5
2020-07-10T21:25:24,666   copying and adjusting biobakery_workflows/scripts/join_taxonomic_profiles.py -> build/scripts-3.5
2020-07-10T21:25:24,671   copying and adjusting biobakery_workflows/scripts/burst_workflow.py -> build/scripts-3.5
2020-07-10T21:25:24,678   copying and adjusting biobakery_workflows/scripts/generate_dual_barcode.py -> build/scripts-3.5
2020-07-10T21:25:24,684   copying and adjusting biobakery_workflows/scripts/create_subsampled_demos.py -> build/scripts-3.5
2020-07-10T21:25:24,694   copying and adjusting biobakery_workflows/scripts/create_fasta_per_taxonomy_from_alignments.py -> build/scripts-3.5
2020-07-10T21:25:24,700   copying biobakery_workflows/scripts/rename_files_to_sample_ids.py -> build/scripts-3.5
2020-07-10T21:25:24,706   copying and adjusting biobakery_workflows/scripts/get_counts_from_humann_logs.py -> build/scripts-3.5
2020-07-10T21:25:24,710   copying and adjusting biobakery_workflows/scripts/annotate_genome.py -> build/scripts-3.5
2020-07-10T21:25:24,713   changing mode of build/scripts-3.5/isolate_assembly.py from 644 to 755
2020-07-10T21:25:24,715   changing mode of build/scripts-3.5/16s.py from 644 to 755
2020-07-10T21:25:24,716   changing mode of build/scripts-3.5/wmgx.py from 644 to 755
2020-07-10T21:25:24,718   changing mode of build/scripts-3.5/wmgx_wmtx.py from 644 to 755
2020-07-10T21:25:24,719   changing mode of build/scripts-3.5/wmgx_vis.py from 644 to 755
2020-07-10T21:25:24,720   changing mode of build/scripts-3.5/wmgx_wmtx_vis.py from 644 to 755
2020-07-10T21:25:24,722   changing mode of build/scripts-3.5/16s_vis.py from 644 to 755
2020-07-10T21:25:24,723   changing mode of build/scripts-3.5/rna_dna_norm.py from 644 to 755
2020-07-10T21:25:24,725   changing mode of build/scripts-3.5/create_otu_tables_from_alignments.py from 644 to 755
2020-07-10T21:25:24,726   changing mode of build/scripts-3.5/demultiplex_split_index.py from 644 to 755
2020-07-10T21:25:24,727   changing mode of build/scripts-3.5/reverse_compliment_barcodes.py from 644 to 755
2020-07-10T21:25:24,729   changing mode of build/scripts-3.5/remove_if_exists.py from 644 to 755
2020-07-10T21:25:24,730   changing mode of build/scripts-3.5/count_features.py from 644 to 755
2020-07-10T21:25:24,732   changing mode of build/scripts-3.5/trim_taxonomy.py from 644 to 755
2020-07-10T21:25:24,733   changing mode of build/scripts-3.5/rename_data_products.py from 644 to 755
2020-07-10T21:25:24,734   changing mode of build/scripts-3.5/rename_fastq_files.py from 644 to 755
2020-07-10T21:25:24,736   changing mode of build/scripts-3.5/check_fastq_format.py from 644 to 755
2020-07-10T21:25:24,737   changing mode of build/scripts-3.5/merge_and_rename_fastq.py from 644 to 755
2020-07-10T21:25:24,738   changing mode of build/scripts-3.5/pull_out_reads_by_species_metaphlan2_results.py from 644 to 755
2020-07-10T21:25:24,739   changing mode of build/scripts-3.5/merge_fastq.py from 644 to 755
2020-07-10T21:25:24,739   changing mode of build/scripts-3.5/anadama2_add_files_to_database.py from 644 to 755
2020-07-10T21:25:24,740   changing mode of build/scripts-3.5/extract_orphan_reads.py from 644 to 755
2020-07-10T21:25:24,742   changing mode of build/scripts-3.5/join_taxonomic_profiles.py from 644 to 755
2020-07-10T21:25:24,744   changing mode of build/scripts-3.5/burst_workflow.py from 644 to 755
2020-07-10T21:25:24,747   changing mode of build/scripts-3.5/generate_dual_barcode.py from 644 to 755
2020-07-10T21:25:24,749   changing mode of build/scripts-3.5/create_subsampled_demos.py from 644 to 755
2020-07-10T21:25:24,750   changing mode of build/scripts-3.5/create_fasta_per_taxonomy_from_alignments.py from 644 to 755
2020-07-10T21:25:24,751   changing mode of build/scripts-3.5/rename_files_to_sample_ids.py from 644 to 755
2020-07-10T21:25:24,751   changing mode of build/scripts-3.5/get_counts_from_humann_logs.py from 644 to 755
2020-07-10T21:25:24,751   changing mode of build/scripts-3.5/annotate_genome.py from 644 to 755
2020-07-10T21:25:24,755   installing to build/bdist.linux-armv7l/wheel
2020-07-10T21:25:24,756   running install
2020-07-10T21:25:24,760   running install_lib
2020-07-10T21:25:24,767   creating build/bdist.linux-armv7l
2020-07-10T21:25:24,769   creating build/bdist.linux-armv7l/wheel
2020-07-10T21:25:24,774   creating build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-10T21:25:24,778   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/data
2020-07-10T21:25:24,781   copying build/lib/biobakery_workflows/data/strainphlan_species_gcf.tsv -> build/bdist.linux-armv7l/wheel/biobakery_workflows/data
2020-07-10T21:25:24,848   copying build/lib/biobakery_workflows/data/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/data
2020-07-10T21:25:24,854   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-10T21:25:24,857   copying build/lib/biobakery_workflows/tasks/shotgun.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-10T21:25:24,869   copying build/lib/biobakery_workflows/tasks/dadatwo.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-10T21:25:24,876   copying build/lib/biobakery_workflows/tasks/sixteen_s.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-10T21:25:24,885   copying build/lib/biobakery_workflows/tasks/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-10T21:25:24,889   copying build/lib/biobakery_workflows/tasks/general.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-10T21:25:24,895   copying build/lib/biobakery_workflows/files.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-10T21:25:24,902   copying build/lib/biobakery_workflows/config.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-10T21:25:24,908   copying build/lib/biobakery_workflows/biobakery_workflows_databases.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-10T21:25:24,914   copying build/lib/biobakery_workflows/biobakery_workflows.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-10T21:25:24,920   copying build/lib/biobakery_workflows/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-10T21:25:24,925   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,928   copying build/lib/biobakery_workflows/Rscripts/merge_paired_ends.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,934   copying build/lib/biobakery_workflows/Rscripts/dada2_version.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,938   copying build/lib/biobakery_workflows/Rscripts/filter_and_trim.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,944   copying build/lib/biobakery_workflows/Rscripts/learn_error_rates.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,949   copying build/lib/biobakery_workflows/Rscripts/strainphlan_ordination_vis.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,954   copying build/lib/biobakery_workflows/Rscripts/phylogeny.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,959   copying build/lib/biobakery_workflows/Rscripts/const_seq_table.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,964   copying build/lib/biobakery_workflows/Rscripts/assign_taxonomy.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,970   copying build/lib/biobakery_workflows/Rscripts/strainphlan_ggtree_vis.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,975   copying build/lib/biobakery_workflows/Rscripts/identify_primers.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-10T21:25:24,980   copying build/lib/biobakery_workflows/utilities.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-10T21:25:24,993   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:24,995   copying build/lib/biobakery_workflows/document_templates/quality_control_single_dna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:25,001   copying build/lib/biobakery_workflows/document_templates/taxonomy.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:25,007   copying build/lib/biobakery_workflows/document_templates/quality_control_paired_dna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:25,012   copying build/lib/biobakery_workflows/document_templates/functional_dna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:25,018   copying build/lib/biobakery_workflows/document_templates/functional_dna_rna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:25,025   copying build/lib/biobakery_workflows/document_templates/16S.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:25,031   copying build/lib/biobakery_workflows/document_templates/workflow_info.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:25,036   copying build/lib/biobakery_workflows/document_templates/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:25,040   copying build/lib/biobakery_workflows/document_templates/header.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:25,045   copying build/lib/biobakery_workflows/document_templates/quality_control_paired_dna_rna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-10T21:25:25,051   copying build/lib/biobakery_workflows/biobakery_workflows_scripts.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-10T21:25:25,057   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-10T21:25:25,060   copying build/lib/biobakery_workflows/workflows/isolate_assembly.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-10T21:25:25,067   copying build/lib/biobakery_workflows/workflows/16s.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-10T21:25:25,074   copying build/lib/biobakery_workflows/workflows/wmgx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-10T21:25:25,080   copying build/lib/biobakery_workflows/workflows/wmgx_wmtx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-10T21:25:25,086   copying build/lib/biobakery_workflows/workflows/wmgx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-10T21:25:25,091   copying build/lib/biobakery_workflows/workflows/wmgx_wmtx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-10T21:25:25,097   copying build/lib/biobakery_workflows/workflows/16s_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-10T21:25:25,103   copying build/lib/biobakery_workflows/visualizations.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-10T21:25:25,116   creating build/bdist.linux-armv7l/wheel/tests
2020-07-10T21:25:25,120   copying build/lib/tests/test_utilities.py -> build/bdist.linux-armv7l/wheel/tests
2020-07-10T21:25:25,129   copying build/lib/tests/__init__.py -> build/bdist.linux-armv7l/wheel/tests
2020-07-10T21:25:25,134   running install_data
2020-07-10T21:25:25,140   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data
2020-07-10T21:25:25,142   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data
2020-07-10T21:25:25,146   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial
2020-07-10T21:25:25,148   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/input
2020-07-10T21:25:25,151   copying examples/tutorial/input/LV16R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/input/
2020-07-10T21:25:25,888   copying examples/tutorial/input/HD32R1_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/input/
2020-07-10T21:25:26,188   copying examples/tutorial/input/HD42R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/input/
2020-07-10T21:25:26,413   copying examples/tutorial/input/LV20R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/input/
2020-07-10T21:25:26,941   copying examples/tutorial/input/LD96R2_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/input/
2020-07-10T21:25:27,833   copying examples/tutorial/input/HD48R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/input/
2020-07-10T21:25:28,081   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db
2020-07-10T21:25:28,083   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo
2020-07-10T21:25:28,087   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.3.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-10T21:25:28,093   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.1.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-10T21:25:28,494   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.rev.2.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-10T21:25:28,502   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.2.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-10T21:25:28,509   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.rev.1.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-10T21:25:28,898   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.4.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-10T21:25:28,907   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/SILVA_demo
2020-07-10T21:25:28,911   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.3.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-10T21:25:28,919   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.rev.2.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-10T21:25:28,928   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.rev.1.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-10T21:25:29,317   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.1.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-10T21:25:29,716   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.4.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-10T21:25:29,725   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.2.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-10T21:25:29,732   running install_egg_info
2020-07-10T21:25:29,785   running egg_info
2020-07-10T21:25:29,787   writing top-level names to biobakery_workflows.egg-info/top_level.txt
2020-07-10T21:25:29,791   writing entry points to biobakery_workflows.egg-info/entry_points.txt
2020-07-10T21:25:29,794   writing biobakery_workflows.egg-info/PKG-INFO
2020-07-10T21:25:29,799   writing dependency_links to biobakery_workflows.egg-info/dependency_links.txt
2020-07-10T21:25:29,803   writing requirements to biobakery_workflows.egg-info/requires.txt
2020-07-10T21:25:29,822   reading manifest file 'biobakery_workflows.egg-info/SOURCES.txt'
2020-07-10T21:25:29,838   reading manifest template 'MANIFEST.in'
2020-07-10T21:25:29,879   writing manifest file 'biobakery_workflows.egg-info/SOURCES.txt'
2020-07-10T21:25:29,883   Copying biobakery_workflows.egg-info to build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6-py3.5.egg-info
2020-07-10T21:25:29,921   running install_scripts
2020-07-10T21:25:30,055   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,058   copying build/scripts-3.5/rna_dna_norm.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,065   copying build/scripts-3.5/create_otu_tables_from_alignments.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,071   copying build/scripts-3.5/demultiplex_split_index.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,077   copying build/scripts-3.5/reverse_compliment_barcodes.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,082   copying build/scripts-3.5/isolate_assembly.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,088   copying build/scripts-3.5/16s.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,094   copying build/scripts-3.5/remove_if_exists.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,099   copying build/scripts-3.5/count_features.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,104   copying build/scripts-3.5/trim_taxonomy.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,109   copying build/scripts-3.5/rename_data_products.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,114   copying build/scripts-3.5/wmgx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,120   copying build/scripts-3.5/wmgx_wmtx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,126   copying build/scripts-3.5/rename_fastq_files.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,131   copying build/scripts-3.5/wmgx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,137   copying build/scripts-3.5/check_fastq_format.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,142   copying build/scripts-3.5/merge_and_rename_fastq.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,148   copying build/scripts-3.5/pull_out_reads_by_species_metaphlan2_results.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,153   copying build/scripts-3.5/merge_fastq.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,158   copying build/scripts-3.5/anadama2_add_files_to_database.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,163   copying build/scripts-3.5/extract_orphan_reads.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,168   copying build/scripts-3.5/join_taxonomic_profiles.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,174   copying build/scripts-3.5/burst_workflow.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,179   copying build/scripts-3.5/wmgx_wmtx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,185   copying build/scripts-3.5/generate_dual_barcode.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,190   copying build/scripts-3.5/16s_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,195   copying build/scripts-3.5/create_subsampled_demos.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,202   copying build/scripts-3.5/create_fasta_per_taxonomy_from_alignments.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,208   copying build/scripts-3.5/rename_files_to_sample_ids.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,213   copying build/scripts-3.5/get_counts_from_humann_logs.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,218   copying build/scripts-3.5/annotate_genome.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts
2020-07-10T21:25:30,223   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/rna_dna_norm.py to 755
2020-07-10T21:25:30,224   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/create_otu_tables_from_alignments.py to 755
2020-07-10T21:25:30,226   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/demultiplex_split_index.py to 755
2020-07-10T21:25:30,227   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/reverse_compliment_barcodes.py to 755
2020-07-10T21:25:30,229   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/isolate_assembly.py to 755
2020-07-10T21:25:30,230   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/16s.py to 755
2020-07-10T21:25:30,232   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/remove_if_exists.py to 755
2020-07-10T21:25:30,233   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/count_features.py to 755
2020-07-10T21:25:30,235   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/trim_taxonomy.py to 755
2020-07-10T21:25:30,236   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/rename_data_products.py to 755
2020-07-10T21:25:30,238   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/wmgx.py to 755
2020-07-10T21:25:30,239   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/wmgx_wmtx.py to 755
2020-07-10T21:25:30,240   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/rename_fastq_files.py to 755
2020-07-10T21:25:30,242   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/wmgx_vis.py to 755
2020-07-10T21:25:30,243   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/check_fastq_format.py to 755
2020-07-10T21:25:30,245   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/merge_and_rename_fastq.py to 755
2020-07-10T21:25:30,246   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/pull_out_reads_by_species_metaphlan2_results.py to 755
2020-07-10T21:25:30,247   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/merge_fastq.py to 755
2020-07-10T21:25:30,248   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/anadama2_add_files_to_database.py to 755
2020-07-10T21:25:30,250   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/extract_orphan_reads.py to 755
2020-07-10T21:25:30,251   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/join_taxonomic_profiles.py to 755
2020-07-10T21:25:30,252   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/burst_workflow.py to 755
2020-07-10T21:25:30,254   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/wmgx_wmtx_vis.py to 755
2020-07-10T21:25:30,256   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/generate_dual_barcode.py to 755
2020-07-10T21:25:30,259   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/16s_vis.py to 755
2020-07-10T21:25:30,262   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/create_subsampled_demos.py to 755
2020-07-10T21:25:30,263   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/create_fasta_per_taxonomy_from_alignments.py to 755
2020-07-10T21:25:30,263   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/rename_files_to_sample_ids.py to 755
2020-07-10T21:25:30,264   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/get_counts_from_humann_logs.py to 755
2020-07-10T21:25:30,264   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.data/scripts/annotate_genome.py to 755
2020-07-10T21:25:30,312   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a6.dist-info/WHEEL
2020-07-10T21:25:41,227   Building wheel for biobakery-workflows (setup.py): finished with status 'done'
2020-07-10T21:25:41,770   Created wheel for biobakery-workflows: filename=biobakery_workflows-3.0.0a6-py3-none-any.whl size=32424448 sha256=5f6ddf07d2fac43e5e1a8d91605685b4d40f2db68249c5bde31d82624791224c
2020-07-10T21:25:41,771   Stored in directory: /tmp/pip-ephem-wheel-cache-khkl4p81/wheels/57/02/e7/6aa2dd063cf19723f94322638829d14a687944a20fe49d6bed
2020-07-10T21:25:41,775 Successfully built biobakery-workflows
2020-07-10T21:25:47,384 Removed build tracker: '/tmp/pip-req-tracker-ci9parse'