2020-07-06T20:23:05,901 Created temporary directory: /tmp/pip-ephem-wheel-cache-oquek3ma
2020-07-06T20:23:05,906 Created temporary directory: /tmp/pip-req-tracker-m67j233s
2020-07-06T20:23:05,907 Initialized build tracking at /tmp/pip-req-tracker-m67j233s
2020-07-06T20:23:05,909 Created build tracker: /tmp/pip-req-tracker-m67j233s
2020-07-06T20:23:05,910 Entered build tracker: /tmp/pip-req-tracker-m67j233s
2020-07-06T20:23:05,911 Created temporary directory: /tmp/pip-wheel-3tgtqor8
2020-07-06T20:23:05,932 1 location(s) to search for versions of biobakery-workflows:
2020-07-06T20:23:05,932 * https://pypi.org/simple/biobakery-workflows/
2020-07-06T20:23:05,933 Fetching project page and analyzing links: https://pypi.org/simple/biobakery-workflows/
2020-07-06T20:23:05,936 Getting page https://pypi.org/simple/biobakery-workflows/
2020-07-06T20:23:05,940 Found index url https://pypi.org/simple
2020-07-06T20:23:06,286   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
2020-07-06T20:23:06,287   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
2020-07-06T20:23:06,289   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
2020-07-06T20:23:06,290   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
2020-07-06T20:23:06,291   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
2020-07-06T20:23:06,293   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
2020-07-06T20:23:06,294   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
2020-07-06T20:23:06,295   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
2020-07-06T20:23:06,296   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
2020-07-06T20:23:06,298   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
2020-07-06T20:23:06,299   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
2020-07-06T20:23:06,300   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
2020-07-06T20:23:06,302   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
2020-07-06T20:23:06,303   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
2020-07-06T20:23:06,304   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
2020-07-06T20:23:06,306   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
2020-07-06T20:23:06,307   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
2020-07-06T20:23:06,308   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
2020-07-06T20:23:06,310   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
2020-07-06T20:23:06,311   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
2020-07-06T20:23:06,312   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
2020-07-06T20:23:06,333 Given no hashes to check 1 links for project 'biobakery-workflows': discarding no candidates
2020-07-06T20:23:06,336 Using version 3.0.0a5 (newest of versions: 3.0.0a5)
2020-07-06T20:23:06,343 Collecting biobakery-workflows==3.0.0a5
2020-07-06T20:23:06,348   Created temporary directory: /tmp/pip-unpack-22hhvi0v
2020-07-06T20:23:07,968   Downloading biobakery_workflows-3.0.0a5.tar.gz (44.6 MB)
2020-07-06T20:23:28,449   Added biobakery-workflows==3.0.0a5 from https://files.pythonhosted.org/packages/f7/66/714144f76398d9055b80803d04c20a5dc5cc25059514786caaf7454389a0/biobakery_workflows-3.0.0a5.tar.gz#sha256=0127302c678e4fd3952efd9a6907660703907900dafe015291d6c3fd2ec2922d to build tracker '/tmp/pip-req-tracker-m67j233s'
2020-07-06T20:23:28,454     Running setup.py (path:/tmp/pip-wheel-3tgtqor8/biobakery-workflows/setup.py) egg_info for package biobakery-workflows
2020-07-06T20:23:28,456     Created temporary directory: /tmp/pip-pip-egg-info-7r9_e9gc
2020-07-06T20:23:28,457     Running command python setup.py egg_info
2020-07-06T20:23:31,231     running egg_info
2020-07-06T20:23:31,238     creating /tmp/pip-pip-egg-info-7r9_e9gc/biobakery_workflows.egg-info
2020-07-06T20:23:31,241     writing entry points to /tmp/pip-pip-egg-info-7r9_e9gc/biobakery_workflows.egg-info/entry_points.txt
2020-07-06T20:23:31,244     writing dependency_links to /tmp/pip-pip-egg-info-7r9_e9gc/biobakery_workflows.egg-info/dependency_links.txt
2020-07-06T20:23:31,246     writing /tmp/pip-pip-egg-info-7r9_e9gc/biobakery_workflows.egg-info/PKG-INFO
2020-07-06T20:23:31,255     writing top-level names to /tmp/pip-pip-egg-info-7r9_e9gc/biobakery_workflows.egg-info/top_level.txt
2020-07-06T20:23:31,258     writing requirements to /tmp/pip-pip-egg-info-7r9_e9gc/biobakery_workflows.egg-info/requires.txt
2020-07-06T20:23:31,262     writing manifest file '/tmp/pip-pip-egg-info-7r9_e9gc/biobakery_workflows.egg-info/SOURCES.txt'
2020-07-06T20:23:31,722     reading manifest file '/tmp/pip-pip-egg-info-7r9_e9gc/biobakery_workflows.egg-info/SOURCES.txt'
2020-07-06T20:23:31,725     reading manifest template 'MANIFEST.in'
2020-07-06T20:23:31,776     writing manifest file '/tmp/pip-pip-egg-info-7r9_e9gc/biobakery_workflows.egg-info/SOURCES.txt'
2020-07-06T20:23:31,779     /usr/local/lib/python3.5/dist-packages/setuptools/dist.py:454: UserWarning: Normalizing '3.0.0-alpha.5' to '3.0.0a5'
2020-07-06T20:23:31,780       warnings.warn(tmpl.format(**locals()))
2020-07-06T20:23:31,944   Source in /tmp/pip-wheel-3tgtqor8/biobakery-workflows has version 3.0.0a5, which satisfies requirement biobakery-workflows==3.0.0a5 from https://files.pythonhosted.org/packages/f7/66/714144f76398d9055b80803d04c20a5dc5cc25059514786caaf7454389a0/biobakery_workflows-3.0.0a5.tar.gz#sha256=0127302c678e4fd3952efd9a6907660703907900dafe015291d6c3fd2ec2922d
2020-07-06T20:23:31,946   Removed biobakery-workflows==3.0.0a5 from https://files.pythonhosted.org/packages/f7/66/714144f76398d9055b80803d04c20a5dc5cc25059514786caaf7454389a0/biobakery_workflows-3.0.0a5.tar.gz#sha256=0127302c678e4fd3952efd9a6907660703907900dafe015291d6c3fd2ec2922d from build tracker '/tmp/pip-req-tracker-m67j233s'
2020-07-06T20:23:31,952 Building wheels for collected packages: biobakery-workflows
2020-07-06T20:23:31,962   Created temporary directory: /tmp/pip-wheel-60rgx73q
2020-07-06T20:23:31,964   Building wheel for biobakery-workflows (setup.py): started
2020-07-06T20:23:31,965   Destination directory: /tmp/pip-wheel-60rgx73q
2020-07-06T20:23:31,966   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-3tgtqor8/biobakery-workflows/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-3tgtqor8/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-60rgx73q
2020-07-06T20:23:34,660   /usr/local/lib/python3.5/dist-packages/setuptools/dist.py:454: UserWarning: Normalizing '3.0.0-alpha.5' to '3.0.0a5'
2020-07-06T20:23:34,661     warnings.warn(tmpl.format(**locals()))
2020-07-06T20:23:34,777   running bdist_wheel
2020-07-06T20:23:34,794   running build
2020-07-06T20:23:34,795   running build_py
2020-07-06T20:23:35,191   creating build
2020-07-06T20:23:35,192   creating build/lib
2020-07-06T20:23:35,193   creating build/lib/tests
2020-07-06T20:23:35,196   copying tests/test_utilities.py -> build/lib/tests
2020-07-06T20:23:35,205   copying tests/__init__.py -> build/lib/tests
2020-07-06T20:23:35,212   creating build/lib/biobakery_workflows
2020-07-06T20:23:35,215   copying biobakery_workflows/config.py -> build/lib/biobakery_workflows
2020-07-06T20:23:35,223   copying biobakery_workflows/biobakery_workflows_scripts.py -> build/lib/biobakery_workflows
2020-07-06T20:23:35,229   copying biobakery_workflows/biobakery_workflows.py -> build/lib/biobakery_workflows
2020-07-06T20:23:35,235   copying biobakery_workflows/biobakery_workflows_databases.py -> build/lib/biobakery_workflows
2020-07-06T20:23:35,242   copying biobakery_workflows/__init__.py -> build/lib/biobakery_workflows
2020-07-06T20:23:35,247   copying biobakery_workflows/files.py -> build/lib/biobakery_workflows
2020-07-06T20:23:35,255   copying biobakery_workflows/utilities.py -> build/lib/biobakery_workflows
2020-07-06T20:23:35,266   copying biobakery_workflows/visualizations.py -> build/lib/biobakery_workflows
2020-07-06T20:23:35,278   creating build/lib/biobakery_workflows/data
2020-07-06T20:23:35,281   copying biobakery_workflows/data/__init__.py -> build/lib/biobakery_workflows/data
2020-07-06T20:23:35,289   creating build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,293   copying biobakery_workflows/document_templates/header.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,299   copying biobakery_workflows/document_templates/16S.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,307   copying biobakery_workflows/document_templates/quality_control_paired_dna_rna.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,314   copying biobakery_workflows/document_templates/quality_control_paired_dna.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,321   copying biobakery_workflows/document_templates/workflow_info.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,327   copying biobakery_workflows/document_templates/functional_dna_rna.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,334   copying biobakery_workflows/document_templates/taxonomy.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,342   copying biobakery_workflows/document_templates/functional_dna.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,348   copying biobakery_workflows/document_templates/__init__.py -> build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,353   copying biobakery_workflows/document_templates/quality_control_single_dna.template.py -> build/lib/biobakery_workflows/document_templates
2020-07-06T20:23:35,361   creating build/lib/biobakery_workflows/tasks
2020-07-06T20:23:35,364   copying biobakery_workflows/tasks/shotgun.py -> build/lib/biobakery_workflows/tasks
2020-07-06T20:23:35,377   copying biobakery_workflows/tasks/general.py -> build/lib/biobakery_workflows/tasks
2020-07-06T20:23:35,385   copying biobakery_workflows/tasks/sixteen_s.py -> build/lib/biobakery_workflows/tasks
2020-07-06T20:23:35,395   copying biobakery_workflows/tasks/dadatwo.py -> build/lib/biobakery_workflows/tasks
2020-07-06T20:23:35,403   copying biobakery_workflows/tasks/__init__.py -> build/lib/biobakery_workflows/tasks
2020-07-06T20:23:35,423   creating build/lib/biobakery_workflows/workflows
2020-07-06T20:23:35,426   copying biobakery_workflows/workflows/wmgx.py -> build/lib/biobakery_workflows/workflows
2020-07-06T20:23:35,433   copying biobakery_workflows/workflows/wmgx_wmtx_vis.py -> build/lib/biobakery_workflows/workflows
2020-07-06T20:23:35,439   copying biobakery_workflows/workflows/16s.py -> build/lib/biobakery_workflows/workflows
2020-07-06T20:23:35,445   copying biobakery_workflows/workflows/isolate_assembly.py -> build/lib/biobakery_workflows/workflows
2020-07-06T20:23:35,451   copying biobakery_workflows/workflows/16s_vis.py -> build/lib/biobakery_workflows/workflows
2020-07-06T20:23:35,458   copying biobakery_workflows/workflows/wmgx_wmtx.py -> build/lib/biobakery_workflows/workflows
2020-07-06T20:23:35,464   copying biobakery_workflows/workflows/wmgx_vis.py -> build/lib/biobakery_workflows/workflows
2020-07-06T20:23:35,489   copying biobakery_workflows/data/strainphlan_species_gcf.tsv -> build/lib/biobakery_workflows/data
2020-07-06T20:23:35,558   creating build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,560   copying biobakery_workflows/Rscripts/merge_paired_ends.R -> build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,566   copying biobakery_workflows/Rscripts/learn_error_rates.R -> build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,574   copying biobakery_workflows/Rscripts/const_seq_table.R -> build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,581   copying biobakery_workflows/Rscripts/identify_primers.R -> build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,587   copying biobakery_workflows/Rscripts/strainphlan_ordination_vis.R -> build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,593   copying biobakery_workflows/Rscripts/assign_taxonomy.R -> build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,601   copying biobakery_workflows/Rscripts/strainphlan_ggtree_vis.R -> build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,606   copying biobakery_workflows/Rscripts/filter_and_trim.R -> build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,611   copying biobakery_workflows/Rscripts/phylogeny.R -> build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,617   copying biobakery_workflows/Rscripts/dada2_version.R -> build/lib/biobakery_workflows/Rscripts
2020-07-06T20:23:35,629   running build_scripts
2020-07-06T20:23:35,630   creating build/scripts-3.5
2020-07-06T20:23:35,632   copying and adjusting biobakery_workflows/workflows/wmgx.py -> build/scripts-3.5
2020-07-06T20:23:35,638   copying and adjusting biobakery_workflows/workflows/wmgx_wmtx_vis.py -> build/scripts-3.5
2020-07-06T20:23:35,643   copying and adjusting biobakery_workflows/workflows/16s.py -> build/scripts-3.5
2020-07-06T20:23:35,648   copying and adjusting biobakery_workflows/workflows/isolate_assembly.py -> build/scripts-3.5
2020-07-06T20:23:35,653   copying and adjusting biobakery_workflows/workflows/16s_vis.py -> build/scripts-3.5
2020-07-06T20:23:35,657   copying and adjusting biobakery_workflows/workflows/wmgx_wmtx.py -> build/scripts-3.5
2020-07-06T20:23:35,662   copying and adjusting biobakery_workflows/workflows/wmgx_vis.py -> build/scripts-3.5
2020-07-06T20:23:35,668   copying and adjusting biobakery_workflows/scripts/extract_orphan_reads.py -> build/scripts-3.5
2020-07-06T20:23:35,672   copying and adjusting biobakery_workflows/scripts/reverse_compliment_barcodes.py -> build/scripts-3.5
2020-07-06T20:23:35,676   copying and adjusting biobakery_workflows/scripts/create_fasta_per_taxonomy_from_alignments.py -> build/scripts-3.5
2020-07-06T20:23:35,682   copying and adjusting biobakery_workflows/scripts/annotate_genome.py -> build/scripts-3.5
2020-07-06T20:23:35,686   copying and adjusting biobakery_workflows/scripts/burst_workflow.py -> build/scripts-3.5
2020-07-06T20:23:35,691   copying and adjusting biobakery_workflows/scripts/create_subsampled_demos.py -> build/scripts-3.5
2020-07-06T20:23:35,698   copying and adjusting biobakery_workflows/scripts/remove_if_exists.py -> build/scripts-3.5
2020-07-06T20:23:35,702   copying biobakery_workflows/scripts/pull_out_reads_by_species_metaphlan2_results.py -> build/scripts-3.5
2020-07-06T20:23:35,708   copying and adjusting biobakery_workflows/scripts/rna_dna_norm.py -> build/scripts-3.5
2020-07-06T20:23:35,713   copying and adjusting biobakery_workflows/scripts/join_taxonomic_profiles.py -> build/scripts-3.5
2020-07-06T20:23:35,719   copying and adjusting biobakery_workflows/scripts/check_fastq_format.py -> build/scripts-3.5
2020-07-06T20:23:35,723   copying and adjusting biobakery_workflows/scripts/count_features.py -> build/scripts-3.5
2020-07-06T20:23:35,727   copying and adjusting biobakery_workflows/scripts/generate_dual_barcode.py -> build/scripts-3.5
2020-07-06T20:23:35,731   copying and adjusting biobakery_workflows/scripts/create_otu_tables_from_alignments.py -> build/scripts-3.5
2020-07-06T20:23:35,737   copying and adjusting biobakery_workflows/scripts/merge_and_rename_fastq.py -> build/scripts-3.5
2020-07-06T20:23:35,742   copying biobakery_workflows/scripts/rename_data_products.py -> build/scripts-3.5
2020-07-06T20:23:35,747   copying and adjusting biobakery_workflows/scripts/get_counts_from_humann_logs.py -> build/scripts-3.5
2020-07-06T20:23:35,751   copying and adjusting biobakery_workflows/scripts/demultiplex_split_index.py -> build/scripts-3.5
2020-07-06T20:23:35,758   copying biobakery_workflows/scripts/anadama2_add_files_to_database.py -> build/scripts-3.5
2020-07-06T20:23:35,763   copying and adjusting biobakery_workflows/scripts/rename_fastq_files.py -> build/scripts-3.5
2020-07-06T20:23:35,767   copying and adjusting biobakery_workflows/scripts/merge_fastq.py -> build/scripts-3.5
2020-07-06T20:23:35,772   copying and adjusting biobakery_workflows/scripts/trim_taxonomy.py -> build/scripts-3.5
2020-07-06T20:23:35,776   copying biobakery_workflows/scripts/rename_files_to_sample_ids.py -> build/scripts-3.5
2020-07-06T20:23:35,780   changing mode of build/scripts-3.5/wmgx.py from 644 to 755
2020-07-06T20:23:35,781   changing mode of build/scripts-3.5/wmgx_wmtx_vis.py from 644 to 755
2020-07-06T20:23:35,782   changing mode of build/scripts-3.5/16s.py from 644 to 755
2020-07-06T20:23:35,783   changing mode of build/scripts-3.5/isolate_assembly.py from 644 to 755
2020-07-06T20:23:35,784   changing mode of build/scripts-3.5/16s_vis.py from 644 to 755
2020-07-06T20:23:35,785   changing mode of build/scripts-3.5/wmgx_wmtx.py from 644 to 755
2020-07-06T20:23:35,786   changing mode of build/scripts-3.5/wmgx_vis.py from 644 to 755
2020-07-06T20:23:35,787   changing mode of build/scripts-3.5/extract_orphan_reads.py from 644 to 755
2020-07-06T20:23:35,788   changing mode of build/scripts-3.5/reverse_compliment_barcodes.py from 644 to 755
2020-07-06T20:23:35,789   changing mode of build/scripts-3.5/create_fasta_per_taxonomy_from_alignments.py from 644 to 755
2020-07-06T20:23:35,790   changing mode of build/scripts-3.5/annotate_genome.py from 644 to 755
2020-07-06T20:23:35,791   changing mode of build/scripts-3.5/burst_workflow.py from 644 to 755
2020-07-06T20:23:35,792   changing mode of build/scripts-3.5/create_subsampled_demos.py from 644 to 755
2020-07-06T20:23:35,793   changing mode of build/scripts-3.5/remove_if_exists.py from 644 to 755
2020-07-06T20:23:35,794   changing mode of build/scripts-3.5/pull_out_reads_by_species_metaphlan2_results.py from 644 to 755
2020-07-06T20:23:35,795   changing mode of build/scripts-3.5/rna_dna_norm.py from 644 to 755
2020-07-06T20:23:35,796   changing mode of build/scripts-3.5/join_taxonomic_profiles.py from 644 to 755
2020-07-06T20:23:35,797   changing mode of build/scripts-3.5/check_fastq_format.py from 644 to 755
2020-07-06T20:23:35,798   changing mode of build/scripts-3.5/count_features.py from 644 to 755
2020-07-06T20:23:35,799   changing mode of build/scripts-3.5/generate_dual_barcode.py from 644 to 755
2020-07-06T20:23:35,800   changing mode of build/scripts-3.5/create_otu_tables_from_alignments.py from 644 to 755
2020-07-06T20:23:35,801   changing mode of build/scripts-3.5/merge_and_rename_fastq.py from 644 to 755
2020-07-06T20:23:35,802   changing mode of build/scripts-3.5/rename_data_products.py from 644 to 755
2020-07-06T20:23:35,803   changing mode of build/scripts-3.5/get_counts_from_humann_logs.py from 644 to 755
2020-07-06T20:23:35,804   changing mode of build/scripts-3.5/demultiplex_split_index.py from 644 to 755
2020-07-06T20:23:35,805   changing mode of build/scripts-3.5/anadama2_add_files_to_database.py from 644 to 755
2020-07-06T20:23:35,806   changing mode of build/scripts-3.5/rename_fastq_files.py from 644 to 755
2020-07-06T20:23:35,808   changing mode of build/scripts-3.5/merge_fastq.py from 644 to 755
2020-07-06T20:23:35,809   changing mode of build/scripts-3.5/trim_taxonomy.py from 644 to 755
2020-07-06T20:23:35,810   changing mode of build/scripts-3.5/rename_files_to_sample_ids.py from 644 to 755
2020-07-06T20:23:35,812   installing to build/bdist.linux-armv7l/wheel
2020-07-06T20:23:35,814   running install
2020-07-06T20:23:35,815   running install_lib
2020-07-06T20:23:35,823   creating build/bdist.linux-armv7l
2020-07-06T20:23:35,825   creating build/bdist.linux-armv7l/wheel
2020-07-06T20:23:35,828   creating build/bdist.linux-armv7l/wheel/tests
2020-07-06T20:23:35,830   copying build/lib/tests/test_utilities.py -> build/bdist.linux-armv7l/wheel/tests
2020-07-06T20:23:35,838   copying build/lib/tests/__init__.py -> build/bdist.linux-armv7l/wheel/tests
2020-07-06T20:23:35,844   creating build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-06T20:23:35,847   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/data
2020-07-06T20:23:35,849   copying build/lib/biobakery_workflows/data/strainphlan_species_gcf.tsv -> build/bdist.linux-armv7l/wheel/biobakery_workflows/data
2020-07-06T20:23:35,917   copying build/lib/biobakery_workflows/data/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/data
2020-07-06T20:23:35,921   copying build/lib/biobakery_workflows/config.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-06T20:23:35,927   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-06T20:23:35,929   copying build/lib/biobakery_workflows/workflows/wmgx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-06T20:23:35,936   copying build/lib/biobakery_workflows/workflows/wmgx_wmtx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-06T20:23:35,941   copying build/lib/biobakery_workflows/workflows/16s.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-06T20:23:35,946   copying build/lib/biobakery_workflows/workflows/isolate_assembly.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-06T20:23:35,952   copying build/lib/biobakery_workflows/workflows/16s_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-06T20:23:35,957   copying build/lib/biobakery_workflows/workflows/wmgx_wmtx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-06T20:23:35,963   copying build/lib/biobakery_workflows/workflows/wmgx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-07-06T20:23:35,969   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:35,971   copying build/lib/biobakery_workflows/Rscripts/merge_paired_ends.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:35,976   copying build/lib/biobakery_workflows/Rscripts/learn_error_rates.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:35,980   copying build/lib/biobakery_workflows/Rscripts/const_seq_table.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:35,985   copying build/lib/biobakery_workflows/Rscripts/identify_primers.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:35,989   copying build/lib/biobakery_workflows/Rscripts/strainphlan_ordination_vis.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:35,994   copying build/lib/biobakery_workflows/Rscripts/assign_taxonomy.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:35,999   copying build/lib/biobakery_workflows/Rscripts/strainphlan_ggtree_vis.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:36,003   copying build/lib/biobakery_workflows/Rscripts/filter_and_trim.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:36,008   copying build/lib/biobakery_workflows/Rscripts/phylogeny.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:36,012   copying build/lib/biobakery_workflows/Rscripts/dada2_version.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-07-06T20:23:36,016   copying build/lib/biobakery_workflows/biobakery_workflows_scripts.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-06T20:23:36,020   copying build/lib/biobakery_workflows/biobakery_workflows.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-06T20:23:36,025   copying build/lib/biobakery_workflows/biobakery_workflows_databases.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-06T20:23:36,032   copying build/lib/biobakery_workflows/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-06T20:23:36,035   copying build/lib/biobakery_workflows/files.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-06T20:23:36,041   copying build/lib/biobakery_workflows/utilities.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-06T20:23:36,053   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,055   copying build/lib/biobakery_workflows/document_templates/header.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,060   copying build/lib/biobakery_workflows/document_templates/16S.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,067   copying build/lib/biobakery_workflows/document_templates/quality_control_paired_dna_rna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,072   copying build/lib/biobakery_workflows/document_templates/quality_control_paired_dna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,077   copying build/lib/biobakery_workflows/document_templates/workflow_info.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,081   copying build/lib/biobakery_workflows/document_templates/functional_dna_rna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,088   copying build/lib/biobakery_workflows/document_templates/taxonomy.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,094   copying build/lib/biobakery_workflows/document_templates/functional_dna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,099   copying build/lib/biobakery_workflows/document_templates/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,103   copying build/lib/biobakery_workflows/document_templates/quality_control_single_dna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-07-06T20:23:36,108   copying build/lib/biobakery_workflows/visualizations.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-07-06T20:23:36,119   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-06T20:23:36,120   copying build/lib/biobakery_workflows/tasks/shotgun.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-06T20:23:36,132   copying build/lib/biobakery_workflows/tasks/general.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-06T20:23:36,138   copying build/lib/biobakery_workflows/tasks/sixteen_s.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-06T20:23:36,146   copying build/lib/biobakery_workflows/tasks/dadatwo.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-06T20:23:36,152   copying build/lib/biobakery_workflows/tasks/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-07-06T20:23:36,155   running install_data
2020-07-06T20:23:36,162   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data
2020-07-06T20:23:36,163   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data
2020-07-06T20:23:36,165   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial
2020-07-06T20:23:36,166   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/input
2020-07-06T20:23:36,169   copying examples/tutorial/input/HD42R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/input/
2020-07-06T20:23:36,393   copying examples/tutorial/input/HD48R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/input/
2020-07-06T20:23:36,650   copying examples/tutorial/input/LV16R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/input/
2020-07-06T20:23:37,410   copying examples/tutorial/input/HD32R1_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/input/
2020-07-06T20:23:37,709   copying examples/tutorial/input/LV20R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/input/
2020-07-06T20:23:38,243   copying examples/tutorial/input/LD96R2_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/input/
2020-07-06T20:23:39,203   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db
2020-07-06T20:23:39,204   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo
2020-07-06T20:23:39,208   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.2.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-06T20:23:39,216   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.3.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-06T20:23:39,224   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.rev.1.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-06T20:23:39,618   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.4.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-06T20:23:39,627   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.1.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-06T20:23:40,025   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.rev.2.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-07-06T20:23:40,033   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/SILVA_demo
2020-07-06T20:23:40,036   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.3.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-06T20:23:40,043   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.2.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-06T20:23:40,052   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-3.0.0a5.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-06T20:23:40,060   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-3.0.0a5.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-06T20:23:40,462   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.1.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-06T20:23:40,878   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.4.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-07-06T20:23:40,886   running install_egg_info
2020-07-06T20:23:40,943   running egg_info
2020-07-06T20:23:40,947   writing biobakery_workflows.egg-info/PKG-INFO
2020-07-06T20:23:40,953   writing dependency_links to biobakery_workflows.egg-info/dependency_links.txt
2020-07-06T20:23:40,957   writing requirements to biobakery_workflows.egg-info/requires.txt
2020-07-06T20:23:40,961   writing entry points to biobakery_workflows.egg-info/entry_points.txt
2020-07-06T20:23:40,965   writing top-level names to biobakery_workflows.egg-info/top_level.txt
2020-07-06T20:23:40,988   reading manifest file 'biobakery_workflows.egg-info/SOURCES.txt'
2020-07-06T20:23:41,006   reading manifest template 'MANIFEST.in'
2020-07-06T20:23:41,053   writing manifest file 'biobakery_workflows.egg-info/SOURCES.txt'
2020-07-06T20:23:41,058   Copying biobakery_workflows.egg-info to build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5-py3.5.egg-info
2020-07-06T20:23:41,099   running install_scripts
2020-07-06T20:23:41,241   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,243   copying build/scripts-3.5/extract_orphan_reads.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,248   copying build/scripts-3.5/reverse_compliment_barcodes.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,253   copying build/scripts-3.5/create_fasta_per_taxonomy_from_alignments.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,258   copying build/scripts-3.5/annotate_genome.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,263   copying build/scripts-3.5/burst_workflow.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,268   copying build/scripts-3.5/create_subsampled_demos.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,275   copying build/scripts-3.5/remove_if_exists.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,281   copying build/scripts-3.5/pull_out_reads_by_species_metaphlan2_results.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,287   copying build/scripts-3.5/rna_dna_norm.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,294   copying build/scripts-3.5/wmgx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,300   copying build/scripts-3.5/wmgx_wmtx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,306   copying build/scripts-3.5/join_taxonomic_profiles.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,311   copying build/scripts-3.5/check_fastq_format.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,318   copying build/scripts-3.5/16s.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,325   copying build/scripts-3.5/count_features.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,332   copying build/scripts-3.5/isolate_assembly.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,338   copying build/scripts-3.5/generate_dual_barcode.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,343   copying build/scripts-3.5/create_otu_tables_from_alignments.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,348   copying build/scripts-3.5/merge_and_rename_fastq.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,355   copying build/scripts-3.5/rename_data_products.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,361   copying build/scripts-3.5/get_counts_from_humann_logs.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,367   copying build/scripts-3.5/demultiplex_split_index.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,376   copying build/scripts-3.5/16s_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,382   copying build/scripts-3.5/anadama2_add_files_to_database.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,387   copying build/scripts-3.5/rename_fastq_files.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,392   copying build/scripts-3.5/merge_fastq.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,396   copying build/scripts-3.5/wmgx_wmtx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,401   copying build/scripts-3.5/trim_taxonomy.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,406   copying build/scripts-3.5/wmgx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,411   copying build/scripts-3.5/rename_files_to_sample_ids.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts
2020-07-06T20:23:41,415   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/extract_orphan_reads.py to 755
2020-07-06T20:23:41,416   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/reverse_compliment_barcodes.py to 755
2020-07-06T20:23:41,417   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/create_fasta_per_taxonomy_from_alignments.py to 755
2020-07-06T20:23:41,418   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/annotate_genome.py to 755
2020-07-06T20:23:41,419   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/burst_workflow.py to 755
2020-07-06T20:23:41,421   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/create_subsampled_demos.py to 755
2020-07-06T20:23:41,422   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/remove_if_exists.py to 755
2020-07-06T20:23:41,423   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/pull_out_reads_by_species_metaphlan2_results.py to 755
2020-07-06T20:23:41,424   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/rna_dna_norm.py to 755
2020-07-06T20:23:41,425   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/wmgx.py to 755
2020-07-06T20:23:41,426   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/wmgx_wmtx_vis.py to 755
2020-07-06T20:23:41,427   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/join_taxonomic_profiles.py to 755
2020-07-06T20:23:41,428   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/check_fastq_format.py to 755
2020-07-06T20:23:41,429   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/16s.py to 755
2020-07-06T20:23:41,430   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/count_features.py to 755
2020-07-06T20:23:41,431   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/isolate_assembly.py to 755
2020-07-06T20:23:41,432   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/generate_dual_barcode.py to 755
2020-07-06T20:23:41,433   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/create_otu_tables_from_alignments.py to 755
2020-07-06T20:23:41,434   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/merge_and_rename_fastq.py to 755
2020-07-06T20:23:41,435   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/rename_data_products.py to 755
2020-07-06T20:23:41,436   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/get_counts_from_humann_logs.py to 755
2020-07-06T20:23:41,437   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/demultiplex_split_index.py to 755
2020-07-06T20:23:41,438   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/16s_vis.py to 755
2020-07-06T20:23:41,439   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/anadama2_add_files_to_database.py to 755
2020-07-06T20:23:41,440   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/rename_fastq_files.py to 755
2020-07-06T20:23:41,441   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/merge_fastq.py to 755
2020-07-06T20:23:41,442   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/wmgx_wmtx.py to 755
2020-07-06T20:23:41,443   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/trim_taxonomy.py to 755
2020-07-06T20:23:41,444   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/wmgx_vis.py to 755
2020-07-06T20:23:41,446   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.data/scripts/rename_files_to_sample_ids.py to 755
2020-07-06T20:23:41,496   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a5.dist-info/WHEEL
2020-07-06T20:23:53,268   Building wheel for biobakery-workflows (setup.py): finished with status 'done'
2020-07-06T20:23:53,904   Created wheel for biobakery-workflows: filename=biobakery_workflows-3.0.0a5-py3-none-any.whl size=32424033 sha256=f0f19ebf792c6fbafa6ac65f1e16fb0429229b5e96a06cf2514076b48d2cc5bc
2020-07-06T20:23:53,906   Stored in directory: /tmp/pip-ephem-wheel-cache-oquek3ma/wheels/aa/c8/d2/d72f5eb84c3761c7e81bccd828ee25314180b30e17b825ccae
2020-07-06T20:23:53,911 Successfully built biobakery-workflows
2020-07-06T20:23:59,554 Removed build tracker: '/tmp/pip-req-tracker-m67j233s'