2020-05-06T21:06:59,641 Created temporary directory: /tmp/pip-ephem-wheel-cache-ge9i7wcm
2020-05-06T21:06:59,644 Created temporary directory: /tmp/pip-req-tracker-j5vix0ds
2020-05-06T21:06:59,645 Initialized build tracking at /tmp/pip-req-tracker-j5vix0ds
2020-05-06T21:06:59,647 Created build tracker: /tmp/pip-req-tracker-j5vix0ds
2020-05-06T21:06:59,647 Entered build tracker: /tmp/pip-req-tracker-j5vix0ds
2020-05-06T21:06:59,649 Created temporary directory: /tmp/pip-wheel-8ujcct18
2020-05-06T21:06:59,655 1 location(s) to search for versions of biobakery-workflows:
2020-05-06T21:06:59,655 * https://pypi.org/simple/biobakery-workflows/
2020-05-06T21:06:59,655 Fetching project page and analyzing links: https://pypi.org/simple/biobakery-workflows/
2020-05-06T21:06:59,657 Getting page https://pypi.org/simple/biobakery-workflows/
2020-05-06T21:06:59,661 Found index url https://pypi.org/simple
2020-05-06T21:06:59,894   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
2020-05-06T21:06:59,895   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
2020-05-06T21:06:59,896   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
2020-05-06T21:06:59,897   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
2020-05-06T21:06:59,897   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
2020-05-06T21:06:59,898   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
2020-05-06T21:06:59,899   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
2020-05-06T21:06:59,900   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
2020-05-06T21:06:59,900   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
2020-05-06T21:06:59,901   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
2020-05-06T21:06:59,902   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
2020-05-06T21:06:59,902   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
2020-05-06T21:06:59,903   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
2020-05-06T21:06:59,904   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
2020-05-06T21:06:59,905   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
2020-05-06T21:06:59,905   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
2020-05-06T21:06:59,920 Given no hashes to check 1 links for project 'biobakery-workflows': discarding no candidates
2020-05-06T21:06:59,922 Using version 3.0.0a1 (newest of versions: 3.0.0a1)
2020-05-06T21:06:59,927 Collecting biobakery-workflows==3.0.0a1
2020-05-06T21:06:59,931   Created temporary directory: /tmp/pip-unpack-wft5fyho
2020-05-06T21:07:03,273   Downloading biobakery_workflows-3.0.0a1.tar.gz (44.6 MB)
2020-05-06T21:07:15,431   Added biobakery-workflows==3.0.0a1 from https://files.pythonhosted.org/packages/19/55/22b8a4c499049c4e3abeda7dbe0998e9fb773b38943c862afb64786295e9/biobakery_workflows-3.0.0a1.tar.gz#sha256=e7d1a948fd3c447665e95a10441ca7320db91aad2962a70b60ae184a37cff15a to build tracker '/tmp/pip-req-tracker-j5vix0ds'
2020-05-06T21:07:15,435     Running setup.py (path:/tmp/pip-wheel-8ujcct18/biobakery-workflows/setup.py) egg_info for package biobakery-workflows
2020-05-06T21:07:15,436     Running command python setup.py egg_info
2020-05-06T21:07:17,268     running egg_info
2020-05-06T21:07:17,274     creating /tmp/pip-wheel-8ujcct18/biobakery-workflows/pip-egg-info/biobakery_workflows.egg-info
2020-05-06T21:07:17,276     writing /tmp/pip-wheel-8ujcct18/biobakery-workflows/pip-egg-info/biobakery_workflows.egg-info/PKG-INFO
2020-05-06T21:07:17,282     writing top-level names to /tmp/pip-wheel-8ujcct18/biobakery-workflows/pip-egg-info/biobakery_workflows.egg-info/top_level.txt
2020-05-06T21:07:17,285     writing requirements to /tmp/pip-wheel-8ujcct18/biobakery-workflows/pip-egg-info/biobakery_workflows.egg-info/requires.txt
2020-05-06T21:07:17,288     writing entry points to /tmp/pip-wheel-8ujcct18/biobakery-workflows/pip-egg-info/biobakery_workflows.egg-info/entry_points.txt
2020-05-06T21:07:17,290     writing dependency_links to /tmp/pip-wheel-8ujcct18/biobakery-workflows/pip-egg-info/biobakery_workflows.egg-info/dependency_links.txt
2020-05-06T21:07:17,294     writing manifest file '/tmp/pip-wheel-8ujcct18/biobakery-workflows/pip-egg-info/biobakery_workflows.egg-info/SOURCES.txt'
2020-05-06T21:07:17,625     reading manifest file '/tmp/pip-wheel-8ujcct18/biobakery-workflows/pip-egg-info/biobakery_workflows.egg-info/SOURCES.txt'
2020-05-06T21:07:17,629     reading manifest template 'MANIFEST.in'
2020-05-06T21:07:17,658     writing manifest file '/tmp/pip-wheel-8ujcct18/biobakery-workflows/pip-egg-info/biobakery_workflows.egg-info/SOURCES.txt'
2020-05-06T21:07:17,661     /usr/local/lib/python3.5/dist-packages/setuptools/dist.py:476: UserWarning: Normalizing '3.0.0-alpha.1' to '3.0.0a1'
2020-05-06T21:07:17,662       normalized_version,
2020-05-06T21:07:17,791   Source in /tmp/pip-wheel-8ujcct18/biobakery-workflows has version 3.0.0a1, which satisfies requirement biobakery-workflows==3.0.0a1 from https://files.pythonhosted.org/packages/19/55/22b8a4c499049c4e3abeda7dbe0998e9fb773b38943c862afb64786295e9/biobakery_workflows-3.0.0a1.tar.gz#sha256=e7d1a948fd3c447665e95a10441ca7320db91aad2962a70b60ae184a37cff15a
2020-05-06T21:07:17,793   Removed biobakery-workflows==3.0.0a1 from https://files.pythonhosted.org/packages/19/55/22b8a4c499049c4e3abeda7dbe0998e9fb773b38943c862afb64786295e9/biobakery_workflows-3.0.0a1.tar.gz#sha256=e7d1a948fd3c447665e95a10441ca7320db91aad2962a70b60ae184a37cff15a from build tracker '/tmp/pip-req-tracker-j5vix0ds'
2020-05-06T21:07:17,796 Building wheels for collected packages: biobakery-workflows
2020-05-06T21:07:17,803   Created temporary directory: /tmp/pip-wheel-tb98tgm8
2020-05-06T21:07:17,804   Building wheel for biobakery-workflows (setup.py): started
2020-05-06T21:07:17,805   Destination directory: /tmp/pip-wheel-tb98tgm8
2020-05-06T21:07:17,805   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-8ujcct18/biobakery-workflows/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-8ujcct18/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-tb98tgm8
2020-05-06T21:07:19,514   /usr/local/lib/python3.5/dist-packages/setuptools/dist.py:476: UserWarning: Normalizing '3.0.0-alpha.1' to '3.0.0a1'
2020-05-06T21:07:19,515     normalized_version,
2020-05-06T21:07:19,592   running bdist_wheel
2020-05-06T21:07:19,605   running build
2020-05-06T21:07:19,606   running build_py
2020-05-06T21:07:19,898   creating build
2020-05-06T21:07:19,899   creating build/lib
2020-05-06T21:07:19,900   creating build/lib/tests
2020-05-06T21:07:19,902   copying tests/__init__.py -> build/lib/tests
2020-05-06T21:07:19,905   copying tests/test_utilities.py -> build/lib/tests
2020-05-06T21:07:19,911   creating build/lib/biobakery_workflows
2020-05-06T21:07:19,912   copying biobakery_workflows/biobakery_workflows_databases.py -> build/lib/biobakery_workflows
2020-05-06T21:07:19,916   copying biobakery_workflows/__init__.py -> build/lib/biobakery_workflows
2020-05-06T21:07:19,919   copying biobakery_workflows/files.py -> build/lib/biobakery_workflows
2020-05-06T21:07:19,922   copying biobakery_workflows/biobakery_workflows.py -> build/lib/biobakery_workflows
2020-05-06T21:07:19,925   copying biobakery_workflows/utilities.py -> build/lib/biobakery_workflows
2020-05-06T21:07:19,931   copying biobakery_workflows/config.py -> build/lib/biobakery_workflows
2020-05-06T21:07:19,935   copying biobakery_workflows/visualizations.py -> build/lib/biobakery_workflows
2020-05-06T21:07:19,941   creating build/lib/biobakery_workflows/tasks
2020-05-06T21:07:19,942   copying biobakery_workflows/tasks/general.py -> build/lib/biobakery_workflows/tasks
2020-05-06T21:07:19,946   copying biobakery_workflows/tasks/dadatwo.py -> build/lib/biobakery_workflows/tasks
2020-05-06T21:07:19,950   copying biobakery_workflows/tasks/__init__.py -> build/lib/biobakery_workflows/tasks
2020-05-06T21:07:19,953   copying biobakery_workflows/tasks/sixteen_s.py -> build/lib/biobakery_workflows/tasks
2020-05-06T21:07:19,958   copying biobakery_workflows/tasks/shotgun.py -> build/lib/biobakery_workflows/tasks
2020-05-06T21:07:19,965   creating build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:19,966   copying biobakery_workflows/document_templates/workflow_info.template.py -> build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:19,969   copying biobakery_workflows/document_templates/header.template.py -> build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:19,972   copying biobakery_workflows/document_templates/quality_control_single_dna.template.py -> build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:19,975   copying biobakery_workflows/document_templates/__init__.py -> build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:19,977   copying biobakery_workflows/document_templates/quality_control_paired_dna_rna.template.py -> build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:19,981   copying biobakery_workflows/document_templates/functional_dna.template.py -> build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:19,985   copying biobakery_workflows/document_templates/functional_dna_rna.template.py -> build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:19,989   copying biobakery_workflows/document_templates/taxonomy.template.py -> build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:19,992   copying biobakery_workflows/document_templates/16S.template.py -> build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:19,996   copying biobakery_workflows/document_templates/quality_control_paired_dna.template.py -> build/lib/biobakery_workflows/document_templates
2020-05-06T21:07:20,000   creating build/lib/biobakery_workflows/data
2020-05-06T21:07:20,001   copying biobakery_workflows/data/__init__.py -> build/lib/biobakery_workflows/data
2020-05-06T21:07:20,013   creating build/lib/biobakery_workflows/workflows
2020-05-06T21:07:20,014   copying biobakery_workflows/workflows/wmgx_vis.py -> build/lib/biobakery_workflows/workflows
2020-05-06T21:07:20,019   copying biobakery_workflows/workflows/isolate_assembly.py -> build/lib/biobakery_workflows/workflows
2020-05-06T21:07:20,023   copying biobakery_workflows/workflows/wmgx_wmtx_vis.py -> build/lib/biobakery_workflows/workflows
2020-05-06T21:07:20,027   copying biobakery_workflows/workflows/wmgx.py -> build/lib/biobakery_workflows/workflows
2020-05-06T21:07:20,031   copying biobakery_workflows/workflows/16s_vis.py -> build/lib/biobakery_workflows/workflows
2020-05-06T21:07:20,035   copying biobakery_workflows/workflows/wmgx_wmtx.py -> build/lib/biobakery_workflows/workflows
2020-05-06T21:07:20,038   copying biobakery_workflows/workflows/16s.py -> build/lib/biobakery_workflows/workflows
2020-05-06T21:07:20,046   copying biobakery_workflows/data/strainphlan_species_gcf.tsv -> build/lib/biobakery_workflows/data
2020-05-06T21:07:20,079   creating build/lib/biobakery_workflows/Rscripts
2020-05-06T21:07:20,080   copying biobakery_workflows/Rscripts/identify_primers.R -> build/lib/biobakery_workflows/Rscripts
2020-05-06T21:07:20,084   copying biobakery_workflows/Rscripts/merge_paired_ends.R -> build/lib/biobakery_workflows/Rscripts
2020-05-06T21:07:20,087   copying biobakery_workflows/Rscripts/dada2_version.R -> build/lib/biobakery_workflows/Rscripts
2020-05-06T21:07:20,092   copying biobakery_workflows/Rscripts/phylogeny.R -> build/lib/biobakery_workflows/Rscripts
2020-05-06T21:07:20,097   copying biobakery_workflows/Rscripts/const_seq_table.R -> build/lib/biobakery_workflows/Rscripts
2020-05-06T21:07:20,102   copying biobakery_workflows/Rscripts/assign_taxonomy.R -> build/lib/biobakery_workflows/Rscripts
2020-05-06T21:07:20,108   copying biobakery_workflows/Rscripts/learn_error_rates.R -> build/lib/biobakery_workflows/Rscripts
2020-05-06T21:07:20,111   copying biobakery_workflows/Rscripts/filter_and_trim.R -> build/lib/biobakery_workflows/Rscripts
2020-05-06T21:07:20,120   running build_scripts
2020-05-06T21:07:20,121   creating build/scripts-3.5
2020-05-06T21:07:20,122   copying and adjusting biobakery_workflows/workflows/wmgx_vis.py -> build/scripts-3.5
2020-05-06T21:07:20,126   copying and adjusting biobakery_workflows/workflows/isolate_assembly.py -> build/scripts-3.5
2020-05-06T21:07:20,129   copying and adjusting biobakery_workflows/workflows/wmgx_wmtx_vis.py -> build/scripts-3.5
2020-05-06T21:07:20,132   copying and adjusting biobakery_workflows/workflows/wmgx.py -> build/scripts-3.5
2020-05-06T21:07:20,136   copying and adjusting biobakery_workflows/workflows/16s_vis.py -> build/scripts-3.5
2020-05-06T21:07:20,139   copying and adjusting biobakery_workflows/workflows/wmgx_wmtx.py -> build/scripts-3.5
2020-05-06T21:07:20,142   copying and adjusting biobakery_workflows/workflows/16s.py -> build/scripts-3.5
2020-05-06T21:07:20,146   copying and adjusting biobakery_workflows/scripts/count_features.py -> build/scripts-3.5
2020-05-06T21:07:20,148   copying and adjusting biobakery_workflows/scripts/join_taxonomic_profiles.py -> build/scripts-3.5
2020-05-06T21:07:20,154   copying and adjusting biobakery_workflows/scripts/demultiplex_split_index.py -> build/scripts-3.5
2020-05-06T21:07:20,159   copying biobakery_workflows/scripts/rename_files_to_sample_ids.py -> build/scripts-3.5
2020-05-06T21:07:20,164   copying and adjusting biobakery_workflows/scripts/create_otu_tables_from_alignments.py -> build/scripts-3.5
2020-05-06T21:07:20,170   copying and adjusting biobakery_workflows/scripts/trim_taxonomy.py -> build/scripts-3.5
2020-05-06T21:07:20,172   copying and adjusting biobakery_workflows/scripts/get_counts_from_humann_logs.py -> build/scripts-3.5
2020-05-06T21:07:20,175   copying and adjusting biobakery_workflows/scripts/rename_fastq_files.py -> build/scripts-3.5
2020-05-06T21:07:20,177   copying and adjusting biobakery_workflows/scripts/burst_workflow.py -> build/scripts-3.5
2020-05-06T21:07:20,180   copying and adjusting biobakery_workflows/scripts/reverse_compliment_barcodes.py -> build/scripts-3.5
2020-05-06T21:07:20,182   copying and adjusting biobakery_workflows/scripts/merge_and_rename_fastq.py -> build/scripts-3.5
2020-05-06T21:07:20,186   copying and adjusting biobakery_workflows/scripts/merge_fastq.py -> build/scripts-3.5
2020-05-06T21:07:20,188   copying and adjusting biobakery_workflows/scripts/remove_if_exists.py -> build/scripts-3.5
2020-05-06T21:07:20,191   copying biobakery_workflows/scripts/rename_data_products.py -> build/scripts-3.5
2020-05-06T21:07:20,194   copying and adjusting biobakery_workflows/scripts/rna_dna_norm.py -> build/scripts-3.5
2020-05-06T21:07:20,198   copying and adjusting biobakery_workflows/scripts/create_fasta_per_taxonomy_from_alignments.py -> build/scripts-3.5
2020-05-06T21:07:20,201   copying and adjusting biobakery_workflows/scripts/annotate_genome.py -> build/scripts-3.5
2020-05-06T21:07:20,204   copying and adjusting biobakery_workflows/scripts/generate_dual_barcode.py -> build/scripts-3.5
2020-05-06T21:07:20,207   copying and adjusting biobakery_workflows/scripts/extract_orphan_reads.py -> build/scripts-3.5
2020-05-06T21:07:20,209   copying and adjusting biobakery_workflows/scripts/check_fastq_format.py -> build/scripts-3.5
2020-05-06T21:07:20,214   copying biobakery_workflows/scripts/pull_out_reads_by_species_metaphlan2_results.py -> build/scripts-3.5
2020-05-06T21:07:20,220   copying biobakery_workflows/scripts/anadama2_add_files_to_database.py -> build/scripts-3.5
2020-05-06T21:07:20,225   copying and adjusting biobakery_workflows/scripts/create_subsampled_demos.py -> build/scripts-3.5
2020-05-06T21:07:20,231   changing mode of build/scripts-3.5/wmgx_vis.py from 644 to 755
2020-05-06T21:07:20,231   changing mode of build/scripts-3.5/isolate_assembly.py from 644 to 755
2020-05-06T21:07:20,232   changing mode of build/scripts-3.5/wmgx_wmtx_vis.py from 644 to 755
2020-05-06T21:07:20,233   changing mode of build/scripts-3.5/wmgx.py from 644 to 755
2020-05-06T21:07:20,233   changing mode of build/scripts-3.5/16s_vis.py from 644 to 755
2020-05-06T21:07:20,234   changing mode of build/scripts-3.5/wmgx_wmtx.py from 644 to 755
2020-05-06T21:07:20,234   changing mode of build/scripts-3.5/16s.py from 644 to 755
2020-05-06T21:07:20,235   changing mode of build/scripts-3.5/count_features.py from 644 to 755
2020-05-06T21:07:20,236   changing mode of build/scripts-3.5/join_taxonomic_profiles.py from 644 to 755
2020-05-06T21:07:20,236   changing mode of build/scripts-3.5/demultiplex_split_index.py from 644 to 755
2020-05-06T21:07:20,237   changing mode of build/scripts-3.5/rename_files_to_sample_ids.py from 644 to 755
2020-05-06T21:07:20,237   changing mode of build/scripts-3.5/create_otu_tables_from_alignments.py from 644 to 755
2020-05-06T21:07:20,238   changing mode of build/scripts-3.5/trim_taxonomy.py from 644 to 755
2020-05-06T21:07:20,239   changing mode of build/scripts-3.5/get_counts_from_humann_logs.py from 644 to 755
2020-05-06T21:07:20,239   changing mode of build/scripts-3.5/rename_fastq_files.py from 644 to 755
2020-05-06T21:07:20,240   changing mode of build/scripts-3.5/burst_workflow.py from 644 to 755
2020-05-06T21:07:20,240   changing mode of build/scripts-3.5/reverse_compliment_barcodes.py from 644 to 755
2020-05-06T21:07:20,241   changing mode of build/scripts-3.5/merge_and_rename_fastq.py from 644 to 755
2020-05-06T21:07:20,241   changing mode of build/scripts-3.5/merge_fastq.py from 644 to 755
2020-05-06T21:07:20,242   changing mode of build/scripts-3.5/remove_if_exists.py from 644 to 755
2020-05-06T21:07:20,243   changing mode of build/scripts-3.5/rename_data_products.py from 644 to 755
2020-05-06T21:07:20,243   changing mode of build/scripts-3.5/rna_dna_norm.py from 644 to 755
2020-05-06T21:07:20,244   changing mode of build/scripts-3.5/create_fasta_per_taxonomy_from_alignments.py from 644 to 755
2020-05-06T21:07:20,244   changing mode of build/scripts-3.5/annotate_genome.py from 644 to 755
2020-05-06T21:07:20,245   changing mode of build/scripts-3.5/generate_dual_barcode.py from 644 to 755
2020-05-06T21:07:20,245   changing mode of build/scripts-3.5/extract_orphan_reads.py from 644 to 755
2020-05-06T21:07:20,246   changing mode of build/scripts-3.5/check_fastq_format.py from 644 to 755
2020-05-06T21:07:20,246   changing mode of build/scripts-3.5/pull_out_reads_by_species_metaphlan2_results.py from 644 to 755
2020-05-06T21:07:20,247   changing mode of build/scripts-3.5/anadama2_add_files_to_database.py from 644 to 755
2020-05-06T21:07:20,247   changing mode of build/scripts-3.5/create_subsampled_demos.py from 644 to 755
2020-05-06T21:07:20,250   installing to build/bdist.linux-armv7l/wheel
2020-05-06T21:07:20,250   running install
2020-05-06T21:07:20,252   running install_lib
2020-05-06T21:07:20,258   creating build/bdist.linux-armv7l
2020-05-06T21:07:20,259   creating build/bdist.linux-armv7l/wheel
2020-05-06T21:07:20,261   creating build/bdist.linux-armv7l/wheel/tests
2020-05-06T21:07:20,263   copying build/lib/tests/__init__.py -> build/bdist.linux-armv7l/wheel/tests
2020-05-06T21:07:20,266   copying build/lib/tests/test_utilities.py -> build/bdist.linux-armv7l/wheel/tests
2020-05-06T21:07:20,271   creating build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-05-06T21:07:20,273   copying build/lib/biobakery_workflows/biobakery_workflows_databases.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-05-06T21:07:20,278   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-05-06T21:07:20,279   copying build/lib/biobakery_workflows/Rscripts/identify_primers.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-05-06T21:07:20,282   copying build/lib/biobakery_workflows/Rscripts/merge_paired_ends.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-05-06T21:07:20,285   copying build/lib/biobakery_workflows/Rscripts/dada2_version.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-05-06T21:07:20,288   copying build/lib/biobakery_workflows/Rscripts/phylogeny.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-05-06T21:07:20,291   copying build/lib/biobakery_workflows/Rscripts/const_seq_table.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-05-06T21:07:20,295   copying build/lib/biobakery_workflows/Rscripts/assign_taxonomy.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-05-06T21:07:20,301   copying build/lib/biobakery_workflows/Rscripts/learn_error_rates.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-05-06T21:07:20,306   copying build/lib/biobakery_workflows/Rscripts/filter_and_trim.R -> build/bdist.linux-armv7l/wheel/biobakery_workflows/Rscripts
2020-05-06T21:07:20,311   copying build/lib/biobakery_workflows/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-05-06T21:07:20,314   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-05-06T21:07:20,316   copying build/lib/biobakery_workflows/tasks/general.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-05-06T21:07:20,320   copying build/lib/biobakery_workflows/tasks/dadatwo.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-05-06T21:07:20,324   copying build/lib/biobakery_workflows/tasks/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-05-06T21:07:20,327   copying build/lib/biobakery_workflows/tasks/sixteen_s.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-05-06T21:07:20,332   copying build/lib/biobakery_workflows/tasks/shotgun.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/tasks
2020-05-06T21:07:20,341   copying build/lib/biobakery_workflows/files.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-05-06T21:07:20,347   copying build/lib/biobakery_workflows/biobakery_workflows.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-05-06T21:07:20,352   copying build/lib/biobakery_workflows/utilities.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-05-06T21:07:20,360   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,361   copying build/lib/biobakery_workflows/document_templates/workflow_info.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,365   copying build/lib/biobakery_workflows/document_templates/header.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,368   copying build/lib/biobakery_workflows/document_templates/quality_control_single_dna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,371   copying build/lib/biobakery_workflows/document_templates/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,373   copying build/lib/biobakery_workflows/document_templates/quality_control_paired_dna_rna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,377   copying build/lib/biobakery_workflows/document_templates/functional_dna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,381   copying build/lib/biobakery_workflows/document_templates/functional_dna_rna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,384   copying build/lib/biobakery_workflows/document_templates/taxonomy.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,388   copying build/lib/biobakery_workflows/document_templates/16S.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,392   copying build/lib/biobakery_workflows/document_templates/quality_control_paired_dna.template.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/document_templates
2020-05-06T21:07:20,397   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-05-06T21:07:20,398   copying build/lib/biobakery_workflows/workflows/wmgx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-05-06T21:07:20,402   copying build/lib/biobakery_workflows/workflows/isolate_assembly.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-05-06T21:07:20,406   copying build/lib/biobakery_workflows/workflows/wmgx_wmtx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-05-06T21:07:20,410   copying build/lib/biobakery_workflows/workflows/wmgx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-05-06T21:07:20,414   copying build/lib/biobakery_workflows/workflows/16s_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-05-06T21:07:20,417   copying build/lib/biobakery_workflows/workflows/wmgx_wmtx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-05-06T21:07:20,421   copying build/lib/biobakery_workflows/workflows/16s.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/workflows
2020-05-06T21:07:20,425   copying build/lib/biobakery_workflows/config.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-05-06T21:07:20,429   creating build/bdist.linux-armv7l/wheel/biobakery_workflows/data
2020-05-06T21:07:20,430   copying build/lib/biobakery_workflows/data/strainphlan_species_gcf.tsv -> build/bdist.linux-armv7l/wheel/biobakery_workflows/data
2020-05-06T21:07:20,465   copying build/lib/biobakery_workflows/data/__init__.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows/data
2020-05-06T21:07:20,468   copying build/lib/biobakery_workflows/visualizations.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows
2020-05-06T21:07:20,473   running install_data
2020-05-06T21:07:20,480   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data
2020-05-06T21:07:20,481   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data
2020-05-06T21:07:20,484   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial
2020-05-06T21:07:20,486   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/input
2020-05-06T21:07:20,488   copying examples/tutorial/input/LV16R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/input/
2020-05-06T21:07:20,845   copying examples/tutorial/input/HD32R1_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/input/
2020-05-06T21:07:21,004   copying examples/tutorial/input/HD48R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/input/
2020-05-06T21:07:21,128   copying examples/tutorial/input/HD42R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/input/
2020-05-06T21:07:21,247   copying examples/tutorial/input/LD96R2_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/input/
2020-05-06T21:07:21,675   copying examples/tutorial/input/LV20R4_subsample.fastq.gz -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/input/
2020-05-06T21:07:21,939   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db
2020-05-06T21:07:21,940   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo
2020-05-06T21:07:21,943   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.2.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-05-06T21:07:21,949   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.1.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-05-06T21:07:22,149   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.4.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-05-06T21:07:22,153   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.rev.1.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-05-06T21:07:22,344   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.rev.2.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-05-06T21:07:22,349   copying examples/tutorial/kneaddata_demo_db/Homo_sapiens_demo/Homo_sapiens_demo.3.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/Homo_sapiens_demo/
2020-05-06T21:07:22,353   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/SILVA_demo
2020-05-06T21:07:22,355   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.4.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-05-06T21:07:22,359   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.2.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-05-06T21:07:22,363   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.1.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-05-06T21:07:22,552   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-3.0.0a1.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-05-06T21:07:22,736   copying examples/tutorial/kneaddata_demo_db/SILVA_demo/SILVA_128_LSUParc_SSUParc_ribosomal_RNA_demo.3.bt2 -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-05-06T21:07:22,739   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-3.0.0a1.data/data/tutorial/kneaddata_demo_db/SILVA_demo/
2020-05-06T21:07:22,743   running install_egg_info
2020-05-06T21:07:22,780   running egg_info
2020-05-06T21:07:22,781   writing biobakery_workflows.egg-info/PKG-INFO
2020-05-06T21:07:22,784   writing requirements to biobakery_workflows.egg-info/requires.txt
2020-05-06T21:07:22,787   writing dependency_links to biobakery_workflows.egg-info/dependency_links.txt
2020-05-06T21:07:22,789   writing entry points to biobakery_workflows.egg-info/entry_points.txt
2020-05-06T21:07:22,790   writing top-level names to biobakery_workflows.egg-info/top_level.txt
2020-05-06T21:07:22,806   reading manifest file 'biobakery_workflows.egg-info/SOURCES.txt'
2020-05-06T21:07:22,817   reading manifest template 'MANIFEST.in'
2020-05-06T21:07:22,848   writing manifest file 'biobakery_workflows.egg-info/SOURCES.txt'
2020-05-06T21:07:22,851   Copying biobakery_workflows.egg-info to build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1-py3.5.egg-info
2020-05-06T21:07:22,875   running install_scripts
2020-05-06T21:07:22,983   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:22,985   copying build/scripts-3.5/count_features.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:22,988   copying build/scripts-3.5/join_taxonomic_profiles.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:22,992   copying build/scripts-3.5/demultiplex_split_index.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:22,995   copying build/scripts-3.5/wmgx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:22,999   copying build/scripts-3.5/rename_files_to_sample_ids.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,002   copying build/scripts-3.5/create_otu_tables_from_alignments.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,006   copying build/scripts-3.5/trim_taxonomy.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,009   copying build/scripts-3.5/get_counts_from_humann_logs.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,012   copying build/scripts-3.5/rename_fastq_files.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,016   copying build/scripts-3.5/burst_workflow.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,019   copying build/scripts-3.5/reverse_compliment_barcodes.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,022   copying build/scripts-3.5/isolate_assembly.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,026   copying build/scripts-3.5/merge_and_rename_fastq.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,030   copying build/scripts-3.5/wmgx_wmtx_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,033   copying build/scripts-3.5/merge_fastq.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,036   copying build/scripts-3.5/remove_if_exists.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,040   copying build/scripts-3.5/rename_data_products.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,043   copying build/scripts-3.5/rna_dna_norm.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,047   copying build/scripts-3.5/create_fasta_per_taxonomy_from_alignments.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,050   copying build/scripts-3.5/wmgx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,054   copying build/scripts-3.5/annotate_genome.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,057   copying build/scripts-3.5/generate_dual_barcode.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,060   copying build/scripts-3.5/extract_orphan_reads.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,064   copying build/scripts-3.5/check_fastq_format.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,067   copying build/scripts-3.5/pull_out_reads_by_species_metaphlan2_results.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,070   copying build/scripts-3.5/16s_vis.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,074   copying build/scripts-3.5/wmgx_wmtx.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,077   copying build/scripts-3.5/anadama2_add_files_to_database.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,080   copying build/scripts-3.5/create_subsampled_demos.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,084   copying build/scripts-3.5/16s.py -> build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts
2020-05-06T21:07:23,088   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/count_features.py to 755
2020-05-06T21:07:23,089   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/join_taxonomic_profiles.py to 755
2020-05-06T21:07:23,089   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/demultiplex_split_index.py to 755
2020-05-06T21:07:23,090   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/wmgx_vis.py to 755
2020-05-06T21:07:23,091   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/rename_files_to_sample_ids.py to 755
2020-05-06T21:07:23,091   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/create_otu_tables_from_alignments.py to 755
2020-05-06T21:07:23,092   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/trim_taxonomy.py to 755
2020-05-06T21:07:23,093   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/get_counts_from_humann_logs.py to 755
2020-05-06T21:07:23,094   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/rename_fastq_files.py to 755
2020-05-06T21:07:23,094   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/burst_workflow.py to 755
2020-05-06T21:07:23,095   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/reverse_compliment_barcodes.py to 755
2020-05-06T21:07:23,096   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/isolate_assembly.py to 755
2020-05-06T21:07:23,096   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/merge_and_rename_fastq.py to 755
2020-05-06T21:07:23,097   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/wmgx_wmtx_vis.py to 755
2020-05-06T21:07:23,098   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/merge_fastq.py to 755
2020-05-06T21:07:23,098   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/remove_if_exists.py to 755
2020-05-06T21:07:23,099   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/rename_data_products.py to 755
2020-05-06T21:07:23,100   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/rna_dna_norm.py to 755
2020-05-06T21:07:23,100   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/create_fasta_per_taxonomy_from_alignments.py to 755
2020-05-06T21:07:23,101   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/wmgx.py to 755
2020-05-06T21:07:23,101   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/annotate_genome.py to 755
2020-05-06T21:07:23,102   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/generate_dual_barcode.py to 755
2020-05-06T21:07:23,103   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/extract_orphan_reads.py to 755
2020-05-06T21:07:23,103   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/check_fastq_format.py to 755
2020-05-06T21:07:23,104   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/pull_out_reads_by_species_metaphlan2_results.py to 755
2020-05-06T21:07:23,105   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/16s_vis.py to 755
2020-05-06T21:07:23,105   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/wmgx_wmtx.py to 755
2020-05-06T21:07:23,106   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/anadama2_add_files_to_database.py to 755
2020-05-06T21:07:23,106   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/create_subsampled_demos.py to 755
2020-05-06T21:07:23,107   changing mode of build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.data/scripts/16s.py to 755
2020-05-06T21:07:23,144   creating build/bdist.linux-armv7l/wheel/biobakery_workflows-3.0.0a1.dist-info/WHEEL
2020-05-06T21:07:31,384   Building wheel for biobakery-workflows (setup.py): finished with status 'done'
2020-05-06T21:07:31,849   Created wheel for biobakery-workflows: filename=biobakery_workflows-3.0.0a1-py3-none-any.whl size=32419418 sha256=6f4ad76cb90973255601b0093f97ec00f167a9defbec22f60264a81b9a253167
2020-05-06T21:07:31,850   Stored in directory: /tmp/pip-ephem-wheel-cache-ge9i7wcm/wheels/05/24/7f/046f2d8da7f4d1c695bb04da278282170faafa3f9cbdb7530d
2020-05-06T21:07:31,853 Successfully built biobakery-workflows
2020-05-06T21:07:40,714 Cleaning up...
2020-05-06T21:07:40,715   Removing source in /tmp/pip-wheel-8ujcct18/biobakery-workflows
2020-05-06T21:07:40,981 Removed build tracker: '/tmp/pip-req-tracker-j5vix0ds'