2021-04-09T21:03:34,972 Created temporary directory: /tmp/pip-ephem-wheel-cache-ober6dqa 2021-04-09T21:03:34,974 Created temporary directory: /tmp/pip-req-tracker-a5o0czms 2021-04-09T21:03:34,975 Initialized build tracking at /tmp/pip-req-tracker-a5o0czms 2021-04-09T21:03:34,975 Created build tracker: /tmp/pip-req-tracker-a5o0czms 2021-04-09T21:03:34,975 Entered build tracker: /tmp/pip-req-tracker-a5o0czms 2021-04-09T21:03:34,976 Created temporary directory: /tmp/pip-wheel-530qcsyo 2021-04-09T21:03:35,011 1 location(s) to search for versions of sequana: 2021-04-09T21:03:35,011 * https://pypi.org/simple/sequana/ 2021-04-09T21:03:35,011 Fetching project page and analyzing links: https://pypi.org/simple/sequana/ 2021-04-09T21:03:35,011 Getting page https://pypi.org/simple/sequana/ 2021-04-09T21:03:35,013 Found index url https://pypi.org/simple 2021-04-09T21:03:35,217 Found link 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https://files.pythonhosted.org/packages/d1/60/4436fb43f4658c092b6b07b7b58546fbaf9c6f1bb8361baef075cda4535b/sequana-0.9.1.tar.gz#sha256=22c054c04e8584c61e1b9838c96aa2bd0aee08b42c4852614ed046e076b4723a (from https://pypi.org/simple/sequana/), version: 0.9.1 2021-04-09T21:03:35,232 Found link https://files.pythonhosted.org/packages/fe/dd/8b02961ce903e04c2ff8473d2d10c7ccd524bf8b5db8e01215ea51131ffc/sequana-0.9.2.tar.gz#sha256=915e3d3041885d36011d38b94f06dd9cd8385896b6b4aabdc58c3556069a9226 (from https://pypi.org/simple/sequana/), version: 0.9.2 2021-04-09T21:03:35,232 Found link https://files.pythonhosted.org/packages/fe/62/342b160ea5c49f017c547e041c57af1e04567ec19caf38700096ae5ca778/sequana-0.9.3.tar.gz#sha256=00ebb6a68e2a7379ec377565112228351a611d60971d121f18471634eb17266c (from https://pypi.org/simple/sequana/), version: 0.9.3 2021-04-09T21:03:35,233 Found link https://files.pythonhosted.org/packages/de/c1/925f217661dd86c1e51490fd8f4c061033b7152ff1d5d26dd3178437724e/sequana-0.9.4.tar.gz#sha256=047f1a2664a6882999dfe275b42dc806fa762370c50b61fd8d226eae535a44c2 (from https://pypi.org/simple/sequana/), version: 0.9.4 2021-04-09T21:03:35,233 Found link https://files.pythonhosted.org/packages/3d/30/46988e24c359479d4808b277c5c9230371b5f0f7d022ced48404ca795e82/sequana-0.9.5.tar.gz#sha256=520b319a2b7ad5eca77d7c6d3acef135fb0015560efaf8bd6fa40f2caccbbfff (from https://pypi.org/simple/sequana/), version: 0.9.5 2021-04-09T21:03:35,233 Found link https://files.pythonhosted.org/packages/2f/fc/f32fabca2937e7213b16a9feab8b536a76a67278ee5643ba78d628830457/sequana-0.9.6.tar.gz#sha256=879071711f7e9c0537b7f16614caa92e46c3683db1965070068876b0d1fb389c (from https://pypi.org/simple/sequana/), version: 0.9.6 2021-04-09T21:03:35,234 Found link https://files.pythonhosted.org/packages/ff/75/e1ef2e3648a089e98fe75ca07d35e6ef884b3b591a0600ebfe29e7bff534/sequana-0.9.7.tar.gz#sha256=efe71e3d1b694f6ce86c63cadd90a65bb48f923110e43e79a32bb34a04288017 (from https://pypi.org/simple/sequana/), version: 0.9.7 2021-04-09T21:03:35,234 Found link https://files.pythonhosted.org/packages/02/b0/78c5e898532879ec045c7a10f8482966ae854d9ced08d75fd21679457c59/sequana-0.9.8.tar.gz#sha256=b9117d270539742cfbbd31084e20b38f856a49621a42fdc515e833b16a43787c (from https://pypi.org/simple/sequana/), version: 0.9.8 2021-04-09T21:03:35,234 Found link https://files.pythonhosted.org/packages/9c/f6/5b6a3b0b8ab58aaf058070ad05ddc2b56a47a070278c8d0751f873cd410e/sequana-0.10.0.tar.gz#sha256=611d22d8288086877f7795e1093775ac04eebfd5eb02d51aba07cfb8ee6be2b6 (from https://pypi.org/simple/sequana/), version: 0.10.0 2021-04-09T21:03:35,234 Found link https://files.pythonhosted.org/packages/c9/1b/f84aa4bd2433debe7755a13578e557548b2f82eaffd75eebfd021612d8e0/sequana-0.11.0.tar.gz#sha256=70326f92d0095d016f36d3699ccfd1572eee35f325a3586f755df0553a3dc4f0 (from https://pypi.org/simple/sequana/), version: 0.11.0 2021-04-09T21:03:35,257 Given no hashes to check 1 links for project 'sequana': discarding no candidates 2021-04-09T21:03:35,272 Collecting sequana==0.11.0 2021-04-09T21:03:35,274 Created temporary directory: /tmp/pip-unpack-robkb3at 2021-04-09T21:03:37,886 Downloading sequana-0.11.0.tar.gz (18.2 MB) 2021-04-09T21:03:43,421 Added sequana==0.11.0 from https://files.pythonhosted.org/packages/c9/1b/f84aa4bd2433debe7755a13578e557548b2f82eaffd75eebfd021612d8e0/sequana-0.11.0.tar.gz#sha256=70326f92d0095d016f36d3699ccfd1572eee35f325a3586f755df0553a3dc4f0 to build tracker '/tmp/pip-req-tracker-a5o0czms' 2021-04-09T21:03:43,422 Running setup.py (path:/tmp/pip-wheel-530qcsyo/sequana_72287294cd3e4457b911d7942f9fcef2/setup.py) egg_info for package sequana 2021-04-09T21:03:43,423 Created temporary directory: /tmp/pip-pip-egg-info-jidm5cbq 2021-04-09T21:03:43,423 Running command python setup.py egg_info 2021-04-09T21:03:44,666 running egg_info 2021-04-09T21:03:44,668 creating /tmp/pip-pip-egg-info-jidm5cbq/sequana.egg-info 2021-04-09T21:03:44,670 writing /tmp/pip-pip-egg-info-jidm5cbq/sequana.egg-info/PKG-INFO 2021-04-09T21:03:44,673 writing dependency_links to /tmp/pip-pip-egg-info-jidm5cbq/sequana.egg-info/dependency_links.txt 2021-04-09T21:03:44,676 writing entry points to /tmp/pip-pip-egg-info-jidm5cbq/sequana.egg-info/entry_points.txt 2021-04-09T21:03:44,677 writing requirements to /tmp/pip-pip-egg-info-jidm5cbq/sequana.egg-info/requires.txt 2021-04-09T21:03:44,679 writing top-level names to /tmp/pip-pip-egg-info-jidm5cbq/sequana.egg-info/top_level.txt 2021-04-09T21:03:44,681 writing manifest file '/tmp/pip-pip-egg-info-jidm5cbq/sequana.egg-info/SOURCES.txt' 2021-04-09T21:03:45,350 reading manifest file '/tmp/pip-pip-egg-info-jidm5cbq/sequana.egg-info/SOURCES.txt' 2021-04-09T21:03:45,352 reading manifest template 'MANIFEST.in' 2021-04-09T21:03:45,356 warning: no previously-included files matching '__pycache__' found under directory '*' 2021-04-09T21:03:45,358 warning: no previously-included files matching '*pyc' found under directory '*' 2021-04-09T21:03:45,881 warning: no previously-included files matching '*' found under directory 'sequana/methylation' 2021-04-09T21:03:45,882 warning: no previously-included files matching '*' found under directory 'test' 2021-04-09T21:03:45,884 warning: no previously-included files found matching 'sequana/rm2.py' 2021-04-09T21:03:45,914 writing manifest file '/tmp/pip-pip-egg-info-jidm5cbq/sequana.egg-info/SOURCES.txt' 2021-04-09T21:03:45,977 Source in /tmp/pip-wheel-530qcsyo/sequana_72287294cd3e4457b911d7942f9fcef2 has version 0.11.0, which satisfies requirement sequana==0.11.0 from https://files.pythonhosted.org/packages/c9/1b/f84aa4bd2433debe7755a13578e557548b2f82eaffd75eebfd021612d8e0/sequana-0.11.0.tar.gz#sha256=70326f92d0095d016f36d3699ccfd1572eee35f325a3586f755df0553a3dc4f0 2021-04-09T21:03:45,978 Removed sequana==0.11.0 from https://files.pythonhosted.org/packages/c9/1b/f84aa4bd2433debe7755a13578e557548b2f82eaffd75eebfd021612d8e0/sequana-0.11.0.tar.gz#sha256=70326f92d0095d016f36d3699ccfd1572eee35f325a3586f755df0553a3dc4f0 from build tracker '/tmp/pip-req-tracker-a5o0czms' 2021-04-09T21:03:45,982 Created temporary directory: /tmp/pip-unpack-4caa4pvx 2021-04-09T21:03:45,983 Building wheels for collected packages: sequana 2021-04-09T21:03:45,987 Created temporary directory: /tmp/pip-wheel-bktqany6 2021-04-09T21:03:45,988 Building wheel for sequana (setup.py): started 2021-04-09T21:03:45,988 Destination directory: /tmp/pip-wheel-bktqany6 2021-04-09T21:03:45,988 Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-530qcsyo/sequana_72287294cd3e4457b911d7942f9fcef2/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-530qcsyo/sequana_72287294cd3e4457b911d7942f9fcef2/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-bktqany6 2021-04-09T21:03:47,250 running bdist_wheel 2021-04-09T21:03:47,257 running build 2021-04-09T21:03:47,258 running build_py 2021-04-09T21:03:47,401 creating build 2021-04-09T21:03:47,401 creating build/lib 2021-04-09T21:03:47,402 creating build/lib/sequana 2021-04-09T21:03:47,403 copying sequana/snpeff.py -> build/lib/sequana 2021-04-09T21:03:47,406 copying sequana/criteria.py -> build/lib/sequana 2021-04-09T21:03:47,409 copying sequana/kegg.py -> build/lib/sequana 2021-04-09T21:03:47,411 copying sequana/freebayes_bcf_filter.py -> build/lib/sequana 2021-04-09T21:03:47,413 copying sequana/kraken.py -> build/lib/sequana 2021-04-09T21:03:47,417 copying sequana/mgi.py -> build/lib/sequana 2021-04-09T21:03:47,419 copying sequana/databases.py -> build/lib/sequana 2021-04-09T21:03:47,422 copying sequana/vcftools.py -> build/lib/sequana 2021-04-09T21:03:47,425 copying sequana/vst.py -> build/lib/sequana 2021-04-09T21:03:47,427 copying sequana/errors.py -> build/lib/sequana 2021-04-09T21:03:47,429 copying sequana/protein.py -> build/lib/sequana 2021-04-09T21:03:47,432 copying sequana/krona.py -> build/lib/sequana 2021-04-09T21:03:47,434 copying sequana/taxonomy.py -> build/lib/sequana 2021-04-09T21:03:47,438 copying sequana/bed.py -> build/lib/sequana 2021-04-09T21:03:47,441 copying sequana/pipelines_common.py -> build/lib/sequana 2021-04-09T21:03:47,445 copying sequana/trf.py -> build/lib/sequana 2021-04-09T21:03:47,447 copying sequana/laa.py -> build/lib/sequana 2021-04-09T21:03:47,450 copying sequana/cnv.py -> build/lib/sequana 2021-04-09T21:03:47,453 copying sequana/datatools.py -> build/lib/sequana 2021-04-09T21:03:47,455 copying sequana/canu_scanner.py -> build/lib/sequana 2021-04-09T21:03:47,458 copying sequana/cpg_islands.py -> build/lib/sequana 2021-04-09T21:03:47,461 copying sequana/tools.py -> build/lib/sequana 2021-04-09T21:03:47,464 copying sequana/coverage.py -> build/lib/sequana 2021-04-09T21:03:47,467 copying sequana/iuapc.py -> build/lib/sequana 2021-04-09T21:03:47,469 copying sequana/find_motif.py -> build/lib/sequana 2021-04-09T21:03:47,472 copying sequana/snaketools.py -> build/lib/sequana 2021-04-09T21:03:47,478 copying sequana/genbank.py -> build/lib/sequana 2021-04-09T21:03:47,481 copying sequana/phred.py -> build/lib/sequana 2021-04-09T21:03:47,483 copying sequana/itol.py -> build/lib/sequana 2021-04-09T21:03:47,485 copying sequana/gff3.py -> build/lib/sequana 2021-04-09T21:03:47,489 copying sequana/iotools.py -> build/lib/sequana 2021-04-09T21:03:47,491 copying sequana/stats.py -> build/lib/sequana 2021-04-09T21:03:47,493 copying sequana/lazyimports.py -> build/lib/sequana 2021-04-09T21:03:47,495 copying sequana/pacbio.py -> build/lib/sequana 2021-04-09T21:03:47,500 copying sequana/mh.py -> build/lib/sequana 2021-04-09T21:03:47,502 copying sequana/sequence.py -> build/lib/sequana 2021-04-09T21:03:47,506 copying sequana/fastq.py -> build/lib/sequana 2021-04-09T21:03:47,510 copying sequana/assembly.py -> build/lib/sequana 2021-04-09T21:03:47,513 copying sequana/rnadiff.py -> build/lib/sequana 2021-04-09T21:03:47,518 copying sequana/gtf.py -> build/lib/sequana 2021-04-09T21:03:47,520 copying sequana/pacbio_amplicon.py -> build/lib/sequana 2021-04-09T21:03:47,523 copying sequana/kraken_builder.py -> build/lib/sequana 2021-04-09T21:03:47,526 copying sequana/freebayes_vcf_filter.py -> build/lib/sequana 2021-04-09T21:03:47,529 copying sequana/jsontool.py -> build/lib/sequana 2021-04-09T21:03:47,531 copying sequana/fastqc.py -> build/lib/sequana 2021-04-09T21:03:47,534 copying sequana/summary.py -> build/lib/sequana 2021-04-09T21:03:47,536 copying sequana/bedtools.py -> build/lib/sequana 2021-04-09T21:03:47,542 copying sequana/chipseq.py -> build/lib/sequana 2021-04-09T21:03:47,546 copying sequana/vcf_filter.py -> build/lib/sequana 2021-04-09T21:03:47,549 copying sequana/bamtools.py -> build/lib/sequana 2021-04-09T21:03:47,554 copying sequana/enrichment.py -> build/lib/sequana 2021-04-09T21:03:47,559 copying sequana/demultiplex.py -> build/lib/sequana 2021-04-09T21:03:47,562 copying sequana/isoseq.py -> build/lib/sequana 2021-04-09T21:03:47,565 copying sequana/__init__.py -> build/lib/sequana 2021-04-09T21:03:47,568 copying sequana/misc.py -> build/lib/sequana 2021-04-09T21:03:47,570 copying sequana/contigs.py -> build/lib/sequana 2021-04-09T21:03:47,574 copying sequana/featurecounts.py -> build/lib/sequana 2021-04-09T21:03:47,577 copying sequana/cigar.py -> build/lib/sequana 2021-04-09T21:03:47,580 copying sequana/mixture.py -> build/lib/sequana 2021-04-09T21:03:47,583 copying sequana/iem.py -> build/lib/sequana 2021-04-09T21:03:47,586 copying sequana/annotations.py -> build/lib/sequana 2021-04-09T21:03:47,588 copying sequana/lazy.py -> build/lib/sequana 2021-04-09T21:03:47,590 copying sequana/adapters.py -> build/lib/sequana 2021-04-09T21:03:47,594 copying sequana/busco.py -> build/lib/sequana 2021-04-09T21:03:47,597 copying sequana/compare.py -> build/lib/sequana 2021-04-09T21:03:47,600 copying sequana/salmon.py -> build/lib/sequana 2021-04-09T21:03:47,603 copying sequana/fasta.py -> build/lib/sequana 2021-04-09T21:03:47,605 copying sequana/running_median.py -> build/lib/sequana 2021-04-09T21:03:47,608 copying sequana/sniffer.py -> build/lib/sequana 2021-04-09T21:03:47,610 copying sequana/kmer.py -> build/lib/sequana 2021-04-09T21:03:47,612 creating build/lib/sequana/resources 2021-04-09T21:03:47,613 copying sequana/resources/__init__.py -> build/lib/sequana/resources 2021-04-09T21:03:47,617 creating build/lib/sequana/plots 2021-04-09T21:03:47,618 copying sequana/plots/canvasjs_linegraph.py -> build/lib/sequana/plots 2021-04-09T21:03:47,621 copying sequana/plots/__init__.py -> build/lib/sequana/plots 2021-04-09T21:03:47,623 copying sequana/plots/canvasjs_base.py -> build/lib/sequana/plots 2021-04-09T21:03:47,628 creating build/lib/sequana/gui 2021-04-09T21:03:47,629 copying sequana/gui/about.py -> build/lib/sequana/gui 2021-04-09T21:03:47,632 copying sequana/gui/browser.py -> build/lib/sequana/gui 2021-04-09T21:03:47,634 copying sequana/gui/messages.py -> build/lib/sequana/gui 2021-04-09T21:03:47,636 copying sequana/gui/ui_mainwindow.py -> build/lib/sequana/gui 2021-04-09T21:03:47,641 copying sequana/gui/tools.py -> build/lib/sequana/gui 2021-04-09T21:03:47,644 copying sequana/gui/sequana_gui.py -> build/lib/sequana/gui 2021-04-09T21:03:47,650 copying sequana/gui/ui_preferences.py -> build/lib/sequana/gui 2021-04-09T21:03:47,652 copying sequana/gui/snakemake.py -> build/lib/sequana/gui 2021-04-09T21:03:47,655 copying sequana/gui/ipython.py -> build/lib/sequana/gui 2021-04-09T21:03:47,657 copying sequana/gui/widgets.py -> build/lib/sequana/gui 2021-04-09T21:03:47,659 copying sequana/gui/preferences.py -> build/lib/sequana/gui 2021-04-09T21:03:47,662 copying sequana/gui/help.py -> build/lib/sequana/gui 2021-04-09T21:03:47,664 copying sequana/gui/__init__.py -> build/lib/sequana/gui 2021-04-09T21:03:47,665 copying sequana/gui/file_browser.py -> build/lib/sequana/gui 2021-04-09T21:03:47,667 copying sequana/gui/ui_help.py -> build/lib/sequana/gui 2021-04-09T21:03:47,669 copying sequana/gui/ui_snakemake.py -> build/lib/sequana/gui 2021-04-09T21:03:47,673 creating build/lib/sequana/utils 2021-04-09T21:03:47,674 copying sequana/utils/datatables_js.py -> build/lib/sequana/utils 2021-04-09T21:03:47,677 copying sequana/utils/tree.py -> build/lib/sequana/utils 2021-04-09T21:03:47,679 copying sequana/utils/config.py -> build/lib/sequana/utils 2021-04-09T21:03:47,681 copying sequana/utils/__init__.py -> build/lib/sequana/utils 2021-04-09T21:03:47,683 copying sequana/utils/df2html.py -> build/lib/sequana/utils 2021-04-09T21:03:47,686 creating build/lib/sequana/scripts 2021-04-09T21:03:47,687 copying sequana/scripts/taxonomy.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,689 copying sequana/scripts/browser.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,691 copying sequana/scripts/tools.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,693 copying sequana/scripts/coverage.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,696 copying sequana/scripts/bam_splitter.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,699 copying sequana/scripts/compressor.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,703 copying sequana/scripts/substractor.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,705 copying sequana/scripts/fixR1R2.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,707 copying sequana/scripts/vcf_filter.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,710 copying sequana/scripts/__init__.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,712 copying sequana/scripts/mapping.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,714 copying sequana/scripts/lane_merging.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,717 copying sequana/scripts/start_pipeline.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,719 copying sequana/scripts/main.py -> build/lib/sequana/scripts 2021-04-09T21:03:47,723 creating build/lib/sequana/multiqc 2021-04-09T21:03:47,724 copying sequana/multiqc/kraken.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,727 copying sequana/multiqc/laa.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,729 copying sequana/multiqc/pacbio_qc.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,731 copying sequana/multiqc/coverage.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,734 copying sequana/multiqc/bamtools_stats.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,737 copying sequana/multiqc/pacbio_amplicon.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,739 copying sequana/multiqc/isoseq_qc.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,742 copying sequana/multiqc/quality_control.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,745 copying sequana/multiqc/config.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,747 copying sequana/multiqc/isoseq.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,750 copying sequana/multiqc/__init__.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,753 copying sequana/multiqc/plots.py -> build/lib/sequana/multiqc 2021-04-09T21:03:47,757 creating build/lib/sequana/viz 2021-04-09T21:03:47,759 copying sequana/viz/linkage.py -> build/lib/sequana/viz 2021-04-09T21:03:47,761 copying sequana/viz/venn.py -> build/lib/sequana/viz 2021-04-09T21:03:47,763 copying sequana/viz/heatmap.py -> build/lib/sequana/viz 2021-04-09T21:03:47,767 copying sequana/viz/imshow.py -> build/lib/sequana/viz 2021-04-09T21:03:47,769 copying sequana/viz/plotly.py -> build/lib/sequana/viz 2021-04-09T21:03:47,771 copying sequana/viz/mds.py -> build/lib/sequana/viz 2021-04-09T21:03:47,773 copying sequana/viz/corrplot.py -> build/lib/sequana/viz 2021-04-09T21:03:47,776 copying sequana/viz/pca.py -> build/lib/sequana/viz 2021-04-09T21:03:47,778 copying sequana/viz/volcano.py -> build/lib/sequana/viz 2021-04-09T21:03:47,781 copying sequana/viz/scatter.py -> build/lib/sequana/viz 2021-04-09T21:03:47,783 copying sequana/viz/dendogram.py -> build/lib/sequana/viz 2021-04-09T21:03:47,785 copying sequana/viz/hist2d.py -> build/lib/sequana/viz 2021-04-09T21:03:47,788 copying sequana/viz/core.py -> build/lib/sequana/viz 2021-04-09T21:03:47,790 copying sequana/viz/isomap.py -> build/lib/sequana/viz 2021-04-09T21:03:47,792 copying sequana/viz/__init__.py -> build/lib/sequana/viz 2021-04-09T21:03:47,794 copying sequana/viz/boxplot.py -> build/lib/sequana/viz 2021-04-09T21:03:47,796 copying sequana/viz/clusterisation.py -> build/lib/sequana/viz 2021-04-09T21:03:47,799 copying sequana/viz/hinton.py -> build/lib/sequana/viz 2021-04-09T21:03:47,801 copying sequana/viz/anova.py -> build/lib/sequana/viz 2021-04-09T21:03:47,803 creating build/lib/sequana/sphinxext 2021-04-09T21:03:47,804 copying sequana/sphinxext/__init__.py -> build/lib/sequana/sphinxext 2021-04-09T21:03:47,806 copying sequana/sphinxext/sequana_pipeline.py -> build/lib/sequana/sphinxext 2021-04-09T21:03:47,808 copying sequana/sphinxext/snakemakerule.py -> build/lib/sequana/sphinxext 2021-04-09T21:03:47,811 creating build/lib/sequana/rules 2021-04-09T21:03:47,812 copying sequana/rules/__init__.py -> build/lib/sequana/rules 2021-04-09T21:03:47,815 creating build/lib/sequana/pipelines 2021-04-09T21:03:47,816 copying sequana/pipelines/__init__.py -> build/lib/sequana/pipelines 2021-04-09T21:03:47,819 creating build/lib/sequana/modules_report 2021-04-09T21:03:47,820 copying sequana/modules_report/kraken.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,823 copying sequana/modules_report/trf.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,826 copying sequana/modules_report/coverage.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,829 copying sequana/modules_report/bwa_bam_to_fastq.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,831 copying sequana/modules_report/cutadapt.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,834 copying sequana/modules_report/multi_summary.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,837 copying sequana/modules_report/base_module.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,839 copying sequana/modules_report/variant_calling.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,842 copying sequana/modules_report/quast.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,844 copying sequana/modules_report/pacbio_input_bam.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,846 copying sequana/modules_report/rnadiff.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,849 copying sequana/modules_report/fastqc.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,851 copying sequana/modules_report/bamqc.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,854 copying sequana/modules_report/summary.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,857 copying sequana/modules_report/phix.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,859 copying sequana/modules_report/joint_calling.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,862 copying sequana/modules_report/enrichment.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,865 copying sequana/modules_report/__init__.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,867 copying sequana/modules_report/fastq_stats.py -> build/lib/sequana/modules_report 2021-04-09T21:03:47,870 creating build/lib/sequana/resources/data 2021-04-09T21:03:47,871 copying sequana/resources/data/__init__.py -> build/lib/sequana/resources/data 2021-04-09T21:03:47,874 creating build/lib/sequana/resources/testing 2021-04-09T21:03:47,875 copying sequana/resources/testing/__init__.py -> build/lib/sequana/resources/testing 2021-04-09T21:03:47,878 creating build/lib/sequana/resources/snpeff 2021-04-09T21:03:47,879 copying sequana/resources/snpeff/__init__.py -> build/lib/sequana/resources/snpeff 2021-04-09T21:03:47,881 creating build/lib/sequana/resources/canvas 2021-04-09T21:03:47,882 copying sequana/resources/canvas/__init__.py -> build/lib/sequana/resources/canvas 2021-04-09T21:03:47,884 copying sequana/resources/canvas/bar.py -> build/lib/sequana/resources/canvas 2021-04-09T21:03:47,887 creating build/lib/sequana/resources/busco 2021-04-09T21:03:47,888 copying sequana/resources/busco/__init__.py -> build/lib/sequana/resources/busco 2021-04-09T21:03:47,890 creating build/lib/sequana/resources/templates 2021-04-09T21:03:47,891 copying sequana/resources/templates/__init__.py -> build/lib/sequana/resources/templates 2021-04-09T21:03:47,894 creating build/lib/sequana/resources/images 2021-04-09T21:03:47,895 copying sequana/resources/images/__init__.py -> build/lib/sequana/resources/images 2021-04-09T21:03:47,897 creating build/lib/sequana/resources/css 2021-04-09T21:03:47,899 copying sequana/resources/css/__init__.py -> build/lib/sequana/resources/css 2021-04-09T21:03:47,901 creating build/lib/sequana/resources/js 2021-04-09T21:03:47,902 copying sequana/resources/js/__init__.py -> build/lib/sequana/resources/js 2021-04-09T21:03:47,905 creating build/lib/sequana/resources/data/adapters 2021-04-09T21:03:47,906 copying sequana/resources/data/adapters/__init__.py -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:47,908 creating build/lib/sequana/resources/testing/rnadiff 2021-04-09T21:03:47,909 copying sequana/resources/testing/rnadiff/__init__.py -> build/lib/sequana/resources/testing/rnadiff 2021-04-09T21:03:47,912 creating build/lib/sequana/resources/testing/featurecounts 2021-04-09T21:03:47,913 copying sequana/resources/testing/featurecounts/__init__.py -> build/lib/sequana/resources/testing/featurecounts 2021-04-09T21:03:47,915 creating build/lib/sequana/resources/testing/enrichment 2021-04-09T21:03:47,916 copying sequana/resources/testing/enrichment/__init__.py -> build/lib/sequana/resources/testing/enrichment 2021-04-09T21:03:47,919 creating build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_1 2021-04-09T21:03:47,920 copying sequana/resources/testing/rnadiff/rnadiff_onecond_1/__init__.py -> build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_1 2021-04-09T21:03:47,923 creating build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1 2021-04-09T21:03:47,924 copying sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/__init__.py -> build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1 2021-04-09T21:03:47,926 creating build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:47,927 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/__init__.py -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:47,930 creating build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables 2021-04-09T21:03:47,931 copying sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables/__init__.py -> build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables 2021-04-09T21:03:47,933 creating build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:47,934 copying sequana/resources/testing/featurecounts/featurecounts_ex1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:47,937 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_0 2021-04-09T21:03:47,938 copying sequana/resources/testing/featurecounts/rnaseq_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0 2021-04-09T21:03:47,940 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1 2021-04-09T21:03:47,941 copying sequana/resources/testing/featurecounts/rnaseq_0/sample1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1 2021-04-09T21:03:47,944 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2 2021-04-09T21:03:47,945 copying sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2 2021-04-09T21:03:47,948 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0 2021-04-09T21:03:47,949 copying sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0 2021-04-09T21:03:47,952 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1 2021-04-09T21:03:47,953 copying sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1 2021-04-09T21:03:47,955 creating build/lib/sequana/rules/sambamba 2021-04-09T21:03:47,956 copying sequana/rules/sambamba/__init__.py -> build/lib/sequana/rules/sambamba 2021-04-09T21:03:47,959 creating build/lib/sequana/rules/Variant_caller 2021-04-09T21:03:47,960 copying sequana/rules/Variant_caller/__init__.py -> build/lib/sequana/rules/Variant_caller 2021-04-09T21:03:47,963 creating build/lib/sequana/rules/idr 2021-04-09T21:03:47,964 copying sequana/rules/idr/__init__.py -> build/lib/sequana/rules/idr 2021-04-09T21:03:47,966 creating build/lib/sequana/rules/Pacbio 2021-04-09T21:03:47,967 copying sequana/rules/Pacbio/__init__.py -> build/lib/sequana/rules/Pacbio 2021-04-09T21:03:47,970 creating build/lib/sequana/rules/Utils 2021-04-09T21:03:47,971 copying sequana/rules/Utils/__init__.py -> build/lib/sequana/rules/Utils 2021-04-09T21:03:47,973 creating build/lib/sequana/rules/picard-tools 2021-04-09T21:03:47,974 copying sequana/rules/picard-tools/__init__.py -> build/lib/sequana/rules/picard-tools 2021-04-09T21:03:47,976 creating build/lib/sequana/rules/codecs 2021-04-09T21:03:47,977 copying sequana/rules/codecs/__init__.py -> build/lib/sequana/rules/codecs 2021-04-09T21:03:47,980 creating build/lib/sequana/rules/SnpEff 2021-04-09T21:03:47,981 copying sequana/rules/SnpEff/__init__.py -> build/lib/sequana/rules/SnpEff 2021-04-09T21:03:47,983 creating build/lib/sequana/rules/Assembly 2021-04-09T21:03:47,984 copying sequana/rules/Assembly/__init__.py -> build/lib/sequana/rules/Assembly 2021-04-09T21:03:47,987 creating build/lib/sequana/rules/Adapters 2021-04-09T21:03:47,988 copying sequana/rules/Adapters/__init__.py -> build/lib/sequana/rules/Adapters 2021-04-09T21:03:47,990 creating build/lib/sequana/rules/deeptools 2021-04-09T21:03:47,991 copying sequana/rules/deeptools/__init__.py -> build/lib/sequana/rules/deeptools 2021-04-09T21:03:48,381 copying sequana/multiqc/multiqc_config.yaml -> build/lib/sequana/multiqc 2021-04-09T21:03:48,384 copying sequana/rules/README.rst -> build/lib/sequana/rules 2021-04-09T21:03:48,386 creating build/lib/sequana/rules/bowtie2_mapping_dynamic 2021-04-09T21:03:48,387 copying sequana/rules/bowtie2_mapping_dynamic/bowtie2_mapping_dynamic.rules -> build/lib/sequana/rules/bowtie2_mapping_dynamic 2021-04-09T21:03:48,390 creating build/lib/sequana/rules/fastq_sampling 2021-04-09T21:03:48,391 copying sequana/rules/fastq_sampling/fastq_sampling.rules -> build/lib/sequana/rules/fastq_sampling 2021-04-09T21:03:48,393 creating build/lib/sequana/rules/fastq_screen 2021-04-09T21:03:48,394 copying sequana/rules/fastq_screen/fastq_screen.rules -> build/lib/sequana/rules/fastq_screen 2021-04-09T21:03:48,397 creating build/lib/sequana/rules/bam_analysis 2021-04-09T21:03:48,398 copying sequana/rules/bam_analysis/bam_analysis.rules -> build/lib/sequana/rules/bam_analysis 2021-04-09T21:03:48,401 creating build/lib/sequana/rules/remove_blacklist 2021-04-09T21:03:48,402 copying sequana/rules/remove_blacklist/remove_blacklist.rules -> build/lib/sequana/rules/remove_blacklist 2021-04-09T21:03:48,406 creating build/lib/sequana/rules/dag 2021-04-09T21:03:48,407 copying sequana/rules/dag/dag.rules -> build/lib/sequana/rules/dag 2021-04-09T21:03:48,409 creating build/lib/sequana/rules/conda 2021-04-09T21:03:48,410 copying sequana/rules/conda/conda.rules -> build/lib/sequana/rules/conda 2021-04-09T21:03:48,413 creating build/lib/sequana/rules/fastq_stats_dynamic 2021-04-09T21:03:48,414 copying sequana/rules/fastq_stats_dynamic/fastq_stats_dynamic.rules -> build/lib/sequana/rules/fastq_stats_dynamic 2021-04-09T21:03:48,417 creating build/lib/sequana/rules/DupRadar 2021-04-09T21:03:48,418 copying sequana/rules/DupRadar/DupRadar.rules -> build/lib/sequana/rules/DupRadar 2021-04-09T21:03:48,421 creating build/lib/sequana/rules/preSARTools 2021-04-09T21:03:48,422 copying sequana/rules/preSARTools/preSARTools.rules -> build/lib/sequana/rules/preSARTools 2021-04-09T21:03:48,425 creating build/lib/sequana/rules/bowtie2_index_dynamic 2021-04-09T21:03:48,426 copying sequana/rules/bowtie2_index_dynamic/bowtie2_index_dynamic.rules -> build/lib/sequana/rules/bowtie2_index_dynamic 2021-04-09T21:03:48,429 creating build/lib/sequana/rules/extract_fasta_from_bed 2021-04-09T21:03:48,430 copying sequana/rules/extract_fasta_from_bed/extract_fasta_from_bed.rules -> build/lib/sequana/rules/extract_fasta_from_bed 2021-04-09T21:03:48,433 creating build/lib/sequana/rules/prokka 2021-04-09T21:03:48,435 copying sequana/rules/prokka/prokka.rules -> build/lib/sequana/rules/prokka 2021-04-09T21:03:48,438 creating build/lib/sequana/rules/indel_realigner 2021-04-09T21:03:48,439 copying sequana/rules/indel_realigner/indel_realigner.rules -> build/lib/sequana/rules/indel_realigner 2021-04-09T21:03:48,442 creating build/lib/sequana/rules/salmon_index 2021-04-09T21:03:48,443 copying sequana/rules/salmon_index/salmon_index.rules -> build/lib/sequana/rules/salmon_index 2021-04-09T21:03:48,447 creating build/lib/sequana/rules/summary_pipeline 2021-04-09T21:03:48,448 copying sequana/rules/summary_pipeline/summary_pipeline.rules -> build/lib/sequana/rules/summary_pipeline 2021-04-09T21:03:48,452 creating build/lib/sequana/rules/revcomp_rule 2021-04-09T21:03:48,453 copying sequana/rules/revcomp_rule/revcomp_rule.rules -> build/lib/sequana/rules/revcomp_rule 2021-04-09T21:03:48,456 creating build/lib/sequana/rules/bam_quality_filter 2021-04-09T21:03:48,457 copying sequana/rules/bam_quality_filter/bam_quality_filter.rules -> build/lib/sequana/rules/bam_quality_filter 2021-04-09T21:03:48,460 creating build/lib/sequana/rules/fastp 2021-04-09T21:03:48,461 copying sequana/rules/fastp/fastp.rules -> build/lib/sequana/rules/fastp 2021-04-09T21:03:48,464 creating build/lib/sequana/rules/feature_counts 2021-04-09T21:03:48,465 copying sequana/rules/feature_counts/feature_counts.rules -> build/lib/sequana/rules/feature_counts 2021-04-09T21:03:48,469 creating build/lib/sequana/rules/rnaseqc 2021-04-09T21:03:48,470 copying sequana/rules/rnaseqc/rnaseqc.rules -> build/lib/sequana/rules/rnaseqc 2021-04-09T21:03:48,473 creating build/lib/sequana/rules/pacbio_quality 2021-04-09T21:03:48,474 copying sequana/rules/pacbio_quality/pacbio_quality.rules -> build/lib/sequana/rules/pacbio_quality 2021-04-09T21:03:48,478 creating build/lib/sequana/rules/bed_to_gff 2021-04-09T21:03:48,479 copying sequana/rules/bed_to_gff/bed_to_gff.rules -> build/lib/sequana/rules/bed_to_gff 2021-04-09T21:03:48,482 creating build/lib/sequana/rules/multiqc 2021-04-09T21:03:48,483 copying sequana/rules/multiqc/multiqc.rules -> build/lib/sequana/rules/multiqc 2021-04-09T21:03:48,486 creating build/lib/sequana/rules/bwa_bam_to_fastq 2021-04-09T21:03:48,487 copying sequana/rules/bwa_bam_to_fastq/bwa_bam_to_fastq.rules -> build/lib/sequana/rules/bwa_bam_to_fastq 2021-04-09T21:03:48,491 creating build/lib/sequana/rules/bowtie1_index_dynamic 2021-04-09T21:03:48,492 copying sequana/rules/bowtie1_index_dynamic/bowtie1_index_dynamic.rules -> build/lib/sequana/rules/bowtie1_index_dynamic 2021-04-09T21:03:48,495 creating build/lib/sequana/rules/spikes_counting 2021-04-09T21:03:48,496 copying sequana/rules/spikes_counting/spikes_counting.rules -> build/lib/sequana/rules/spikes_counting 2021-04-09T21:03:48,500 creating build/lib/sequana/rules/sequana_coverage 2021-04-09T21:03:48,501 copying sequana/rules/sequana_coverage/sequana_coverage.rules -> build/lib/sequana/rules/sequana_coverage 2021-04-09T21:03:48,505 creating build/lib/sequana/rules/chipuanar 2021-04-09T21:03:48,506 copying sequana/rules/chipuanar/chipuanar.rules -> build/lib/sequana/rules/chipuanar 2021-04-09T21:03:48,509 creating build/lib/sequana/rules/star_mapping 2021-04-09T21:03:48,510 copying sequana/rules/star_mapping/star_mapping.rules -> build/lib/sequana/rules/star_mapping 2021-04-09T21:03:48,514 creating build/lib/sequana/rules/multiqc2 2021-04-09T21:03:48,515 copying sequana/rules/multiqc2/multiqc2.rules -> build/lib/sequana/rules/multiqc2 2021-04-09T21:03:48,519 creating build/lib/sequana/rules/bamCoverage 2021-04-09T21:03:48,520 copying sequana/rules/bamCoverage/bamCoverage.rules -> build/lib/sequana/rules/bamCoverage 2021-04-09T21:03:48,523 creating build/lib/sequana/rules/rulegraph 2021-04-09T21:03:48,524 copying sequana/rules/rulegraph/rulegraph.rules -> build/lib/sequana/rules/rulegraph 2021-04-09T21:03:48,528 creating build/lib/sequana/rules/bowtie2_index 2021-04-09T21:03:48,529 copying sequana/rules/bowtie2_index/bowtie2_index.rules -> build/lib/sequana/rules/bowtie2_index 2021-04-09T21:03:48,533 creating build/lib/sequana/rules/spp 2021-04-09T21:03:48,534 copying sequana/rules/spp/spp.rules -> build/lib/sequana/rules/spp 2021-04-09T21:03:48,537 creating build/lib/sequana/rules/quast 2021-04-09T21:03:48,538 copying sequana/rules/quast/quast.rules -> build/lib/sequana/rules/quast 2021-04-09T21:03:48,541 creating build/lib/sequana/rules/falco_dynamic 2021-04-09T21:03:48,542 copying sequana/rules/falco_dynamic/falco_dynamic.rules -> build/lib/sequana/rules/falco_dynamic 2021-04-09T21:03:48,546 creating build/lib/sequana/rules/copy_multiple_files 2021-04-09T21:03:48,547 copying sequana/rules/copy_multiple_files/copy_multiple_files.rules -> build/lib/sequana/rules/copy_multiple_files 2021-04-09T21:03:48,550 creating build/lib/sequana/rules/digital_normalisation 2021-04-09T21:03:48,551 copying sequana/rules/digital_normalisation/digital_normalisation.rules -> build/lib/sequana/rules/digital_normalisation 2021-04-09T21:03:48,554 creating build/lib/sequana/rules/bwa_index 2021-04-09T21:03:48,555 copying sequana/rules/bwa_index/bwa_index.rules -> build/lib/sequana/rules/bwa_index 2021-04-09T21:03:48,558 creating build/lib/sequana/rules/miRNA_count_dynamic 2021-04-09T21:03:48,559 copying sequana/rules/miRNA_count_dynamic/miRNA_count_dynamic.rules -> build/lib/sequana/rules/miRNA_count_dynamic 2021-04-09T21:03:48,562 creating build/lib/sequana/rules/format_contigs 2021-04-09T21:03:48,563 copying sequana/rules/format_contigs/format_contigs.rules -> build/lib/sequana/rules/format_contigs 2021-04-09T21:03:48,567 creating build/lib/sequana/rules/salmon_mapping 2021-04-09T21:03:48,568 copying sequana/rules/salmon_mapping/salmon_mapping.rules -> build/lib/sequana/rules/salmon_mapping 2021-04-09T21:03:48,571 creating build/lib/sequana/rules/SARTools 2021-04-09T21:03:48,572 copying sequana/rules/SARTools/SARTools.rules -> build/lib/sequana/rules/SARTools 2021-04-09T21:03:48,575 creating build/lib/sequana/rules/samtools_sort 2021-04-09T21:03:48,576 copying sequana/rules/samtools_sort/samtools_sort.rules -> build/lib/sequana/rules/samtools_sort 2021-04-09T21:03:48,579 creating build/lib/sequana/rules/fastq_screen_report 2021-04-09T21:03:48,580 copying sequana/rules/fastq_screen_report/fastq_screen_report.rules -> build/lib/sequana/rules/fastq_screen_report 2021-04-09T21:03:48,583 creating build/lib/sequana/rules/fastqc_dynamic 2021-04-09T21:03:48,584 copying sequana/rules/fastqc_dynamic/fastqc_dynamic.rules -> build/lib/sequana/rules/fastqc_dynamic 2021-04-09T21:03:48,588 creating build/lib/sequana/rules/tophat_mapping 2021-04-09T21:03:48,589 copying sequana/rules/tophat_mapping/tophat_mapping.rules -> build/lib/sequana/rules/tophat_mapping 2021-04-09T21:03:48,592 creating build/lib/sequana/rules/bowtie1_mapping_dynamic 2021-04-09T21:03:48,593 copying sequana/rules/bowtie1_mapping_dynamic/bowtie1_mapping_dynamic.rules -> build/lib/sequana/rules/bowtie1_mapping_dynamic 2021-04-09T21:03:48,596 creating build/lib/sequana/rules/feature_counts_dynamic 2021-04-09T21:03:48,597 copying sequana/rules/feature_counts_dynamic/feature_counts_dynamic.rules -> build/lib/sequana/rules/feature_counts_dynamic 2021-04-09T21:03:48,600 creating build/lib/sequana/rules/samtools_depth 2021-04-09T21:03:48,601 copying sequana/rules/samtools_depth/samtools_depth.rules -> build/lib/sequana/rules/samtools_depth 2021-04-09T21:03:48,604 creating build/lib/sequana/rules/macs3_dynamic 2021-04-09T21:03:48,605 copying sequana/rules/macs3_dynamic/macs3_dynamic.rules -> build/lib/sequana/rules/macs3_dynamic 2021-04-09T21:03:48,609 creating build/lib/sequana/rules/star_index 2021-04-09T21:03:48,610 copying sequana/rules/star_index/star_index.rules -> build/lib/sequana/rules/star_index 2021-04-09T21:03:48,613 creating build/lib/sequana/rules/bwa_mem_dynamic 2021-04-09T21:03:48,614 copying sequana/rules/bwa_mem_dynamic/bwa_mem_dynamic.rules -> build/lib/sequana/rules/bwa_mem_dynamic 2021-04-09T21:03:48,618 creating build/lib/sequana/rules/mapping_analysis 2021-04-09T21:03:48,619 copying sequana/rules/mapping_analysis/mapping_analysis.rules -> build/lib/sequana/rules/mapping_analysis 2021-04-09T21:03:48,622 creating build/lib/sequana/rules/igvtools 2021-04-09T21:03:48,623 copying sequana/rules/igvtools/igvtools.rules -> build/lib/sequana/rules/igvtools 2021-04-09T21:03:48,627 creating build/lib/sequana/rules/sambamba/sambamba_filter 2021-04-09T21:03:48,628 copying sequana/rules/sambamba/sambamba_filter/sambamba_filter.rules -> build/lib/sequana/rules/sambamba/sambamba_filter 2021-04-09T21:03:48,631 creating build/lib/sequana/rules/sambamba/sambamba_markdup 2021-04-09T21:03:48,632 copying sequana/rules/sambamba/sambamba_markdup/sambamba_markdup.rules -> build/lib/sequana/rules/sambamba/sambamba_markdup 2021-04-09T21:03:48,636 creating build/lib/sequana/rules/Variant_caller/joint_freebayes 2021-04-09T21:03:48,637 copying sequana/rules/Variant_caller/joint_freebayes/joint_freebayes.rules -> build/lib/sequana/rules/Variant_caller/joint_freebayes 2021-04-09T21:03:48,640 creating build/lib/sequana/rules/Variant_caller/joint_freebayes_vcf_filter 2021-04-09T21:03:48,641 copying sequana/rules/Variant_caller/joint_freebayes_vcf_filter/joint_freebayes_vcf_filter.rules -> build/lib/sequana/rules/Variant_caller/joint_freebayes_vcf_filter 2021-04-09T21:03:48,644 creating build/lib/sequana/rules/Variant_caller/freebayes_bcf_filter 2021-04-09T21:03:48,646 copying sequana/rules/Variant_caller/freebayes_bcf_filter/freebayes_bcf_filter.rules -> build/lib/sequana/rules/Variant_caller/freebayes_bcf_filter 2021-04-09T21:03:48,649 creating build/lib/sequana/rules/Variant_caller/freebayes_vcf_filter 2021-04-09T21:03:48,650 copying sequana/rules/Variant_caller/freebayes_vcf_filter/freebayes_vcf_filter.rules -> build/lib/sequana/rules/Variant_caller/freebayes_vcf_filter 2021-04-09T21:03:48,653 creating build/lib/sequana/rules/Variant_caller/freebayes 2021-04-09T21:03:48,654 copying sequana/rules/Variant_caller/freebayes/freebayes.rules -> build/lib/sequana/rules/Variant_caller/freebayes 2021-04-09T21:03:48,657 creating build/lib/sequana/rules/idr/preIDR_dynamic 2021-04-09T21:03:48,659 copying sequana/rules/idr/preIDR_dynamic/preIDR_dynamic.rules -> build/lib/sequana/rules/idr/preIDR_dynamic 2021-04-09T21:03:48,662 creating build/lib/sequana/rules/idr/select_peaks 2021-04-09T21:03:48,663 copying sequana/rules/idr/select_peaks/select_peaks.rules -> build/lib/sequana/rules/idr/select_peaks 2021-04-09T21:03:48,666 creating build/lib/sequana/rules/idr/metrics_peaks 2021-04-09T21:03:48,667 copying sequana/rules/idr/metrics_peaks/metrics_peaks.rules -> build/lib/sequana/rules/idr/metrics_peaks 2021-04-09T21:03:48,671 creating build/lib/sequana/rules/idr/stats_peakCalling 2021-04-09T21:03:48,672 copying sequana/rules/idr/stats_peakCalling/stats_peakCalling.rules -> build/lib/sequana/rules/idr/stats_peakCalling 2021-04-09T21:03:48,675 creating build/lib/sequana/rules/idr/intersectionApproach 2021-04-09T21:03:48,676 copying sequana/rules/idr/intersectionApproach/intersectionApproach.rules -> build/lib/sequana/rules/idr/intersectionApproach 2021-04-09T21:03:48,679 creating build/lib/sequana/rules/idr/compute_idr 2021-04-09T21:03:48,680 copying sequana/rules/idr/compute_idr/compute_idr.rules -> build/lib/sequana/rules/idr/compute_idr 2021-04-09T21:03:48,683 creating build/lib/sequana/rules/idr/union_peaks 2021-04-09T21:03:48,685 copying sequana/rules/idr/union_peaks/union_peaks.rules -> build/lib/sequana/rules/idr/union_peaks 2021-04-09T21:03:48,688 creating build/lib/sequana/rules/Utils/dynamic_unpigz 2021-04-09T21:03:48,689 copying sequana/rules/Utils/dynamic_unpigz/dynamic_unpigz.rules -> build/lib/sequana/rules/Utils/dynamic_unpigz 2021-04-09T21:03:48,692 creating build/lib/sequana/rules/Utils/dynamic_copy 2021-04-09T21:03:48,693 copying sequana/rules/Utils/dynamic_copy/dynamic_copy.rules -> build/lib/sequana/rules/Utils/dynamic_copy 2021-04-09T21:03:48,696 creating build/lib/sequana/rules/Utils/dynamic_vcf_to_bcf 2021-04-09T21:03:48,697 copying sequana/rules/Utils/dynamic_vcf_to_bcf/dynamic_vcf_to_bcf.rules -> build/lib/sequana/rules/Utils/dynamic_vcf_to_bcf 2021-04-09T21:03:48,700 creating build/lib/sequana/rules/picard-tools/reorderSam 2021-04-09T21:03:48,702 copying sequana/rules/picard-tools/reorderSam/reorderSam.rules -> build/lib/sequana/rules/picard-tools/reorderSam 2021-04-09T21:03:48,705 creating build/lib/sequana/rules/picard-tools/add_read_group 2021-04-09T21:03:48,706 copying sequana/rules/picard-tools/add_read_group/add_read_group.rules -> build/lib/sequana/rules/picard-tools/add_read_group 2021-04-09T21:03:48,710 creating build/lib/sequana/rules/picard-tools/mark_duplicates_dynamic 2021-04-09T21:03:48,711 copying sequana/rules/picard-tools/mark_duplicates_dynamic/mark_duplicates_dynamic.rules -> build/lib/sequana/rules/picard-tools/mark_duplicates_dynamic 2021-04-09T21:03:48,714 creating build/lib/sequana/rules/picard-tools/create_sequence_dictionary 2021-04-09T21:03:48,715 copying sequana/rules/picard-tools/create_sequence_dictionary/create_sequence_dictionary.rules -> build/lib/sequana/rules/picard-tools/create_sequence_dictionary 2021-04-09T21:03:48,718 creating build/lib/sequana/rules/picard-tools/CollectInsertSizeMetrics 2021-04-09T21:03:48,720 copying sequana/rules/picard-tools/CollectInsertSizeMetrics/CollectInsertSizeMetrics.rules -> build/lib/sequana/rules/picard-tools/CollectInsertSizeMetrics 2021-04-09T21:03:48,723 creating build/lib/sequana/rules/codecs/fastq_to_dsrc 2021-04-09T21:03:48,724 copying sequana/rules/codecs/fastq_to_dsrc/fastq_to_dsrc.rules -> build/lib/sequana/rules/codecs/fastq_to_dsrc 2021-04-09T21:03:48,727 creating build/lib/sequana/rules/codecs/dsrc_to_fastq 2021-04-09T21:03:48,728 copying sequana/rules/codecs/dsrc_to_fastq/dsrc_to_fastq.rules -> build/lib/sequana/rules/codecs/dsrc_to_fastq 2021-04-09T21:03:48,731 creating build/lib/sequana/rules/codecs/bz2_to_gz 2021-04-09T21:03:48,732 copying sequana/rules/codecs/bz2_to_gz/bz2_to_gz.rules -> build/lib/sequana/rules/codecs/bz2_to_gz 2021-04-09T21:03:48,735 creating build/lib/sequana/rules/codecs/bz2_to_fastq 2021-04-09T21:03:48,736 copying sequana/rules/codecs/bz2_to_fastq/bz2_to_fastq.rules -> build/lib/sequana/rules/codecs/bz2_to_fastq 2021-04-09T21:03:48,740 creating build/lib/sequana/rules/codecs/gz_to_dsrc 2021-04-09T21:03:48,741 copying sequana/rules/codecs/gz_to_dsrc/gz_to_dsrc.rules -> build/lib/sequana/rules/codecs/gz_to_dsrc 2021-04-09T21:03:48,744 creating build/lib/sequana/rules/codecs/gz_to_bz2 2021-04-09T21:03:48,745 copying sequana/rules/codecs/gz_to_bz2/gz_to_bz2.rules -> build/lib/sequana/rules/codecs/gz_to_bz2 2021-04-09T21:03:48,748 creating build/lib/sequana/rules/codecs/dsrc_to_bz2 2021-04-09T21:03:48,750 copying sequana/rules/codecs/dsrc_to_bz2/dsrc_to_bz2.rules -> build/lib/sequana/rules/codecs/dsrc_to_bz2 2021-04-09T21:03:48,753 creating build/lib/sequana/rules/codecs/gz_to_fastq 2021-04-09T21:03:48,754 copying sequana/rules/codecs/gz_to_fastq/gz_to_fastq.rules -> build/lib/sequana/rules/codecs/gz_to_fastq 2021-04-09T21:03:48,757 creating build/lib/sequana/rules/codecs/dsrc_to_gz 2021-04-09T21:03:48,759 copying sequana/rules/codecs/dsrc_to_gz/dsrc_to_gz.rules -> build/lib/sequana/rules/codecs/dsrc_to_gz 2021-04-09T21:03:48,762 creating build/lib/sequana/rules/codecs/fastq_to_gz 2021-04-09T21:03:48,763 copying sequana/rules/codecs/fastq_to_gz/fastq_to_gz.rules -> build/lib/sequana/rules/codecs/fastq_to_gz 2021-04-09T21:03:48,766 creating build/lib/sequana/rules/codecs/bz2_to_dsrc 2021-04-09T21:03:48,768 copying sequana/rules/codecs/bz2_to_dsrc/bz2_to_dsrc.rules -> build/lib/sequana/rules/codecs/bz2_to_dsrc 2021-04-09T21:03:48,771 creating build/lib/sequana/rules/codecs/fastq_to_bz2 2021-04-09T21:03:48,772 copying sequana/rules/codecs/fastq_to_bz2/fastq_to_bz2.rules -> build/lib/sequana/rules/codecs/fastq_to_bz2 2021-04-09T21:03:48,776 creating build/lib/sequana/rules/codecs/bam_to_fasta 2021-04-09T21:03:48,777 copying sequana/rules/codecs/bam_to_fasta/bam_to_fasta.rules -> build/lib/sequana/rules/codecs/bam_to_fasta 2021-04-09T21:03:48,780 creating build/lib/sequana/rules/SnpEff/snpeff_create_database 2021-04-09T21:03:48,782 copying sequana/rules/SnpEff/snpeff_create_database/snpeff_create_database.rules -> build/lib/sequana/rules/SnpEff/snpeff_create_database 2021-04-09T21:03:48,785 creating build/lib/sequana/rules/SnpEff/snpeff_dynamic 2021-04-09T21:03:48,786 copying sequana/rules/SnpEff/snpeff_dynamic/snpeff_dynamic.rules -> build/lib/sequana/rules/SnpEff/snpeff_dynamic 2021-04-09T21:03:48,790 creating build/lib/sequana/rules/multiqc/2.0 2021-04-09T21:03:48,791 copying sequana/rules/multiqc/2.0/multiqc.rules -> build/lib/sequana/rules/multiqc/2.0 2021-04-09T21:03:48,794 creating build/lib/sequana/rules/kraken 2021-04-09T21:03:48,795 creating build/lib/sequana/rules/kraken/1.0 2021-04-09T21:03:48,797 copying sequana/rules/kraken/1.0/kraken.rules -> build/lib/sequana/rules/kraken/1.0 2021-04-09T21:03:48,800 creating build/lib/sequana/rules/kraken/1.1 2021-04-09T21:03:48,801 copying sequana/rules/kraken/1.1/kraken.rules -> build/lib/sequana/rules/kraken/1.1 2021-04-09T21:03:48,805 creating build/lib/sequana/rules/Assembly/busco_analysis 2021-04-09T21:03:48,807 copying sequana/rules/Assembly/busco_analysis/busco_analysis.rules -> build/lib/sequana/rules/Assembly/busco_analysis 2021-04-09T21:03:48,810 creating build/lib/sequana/rules/Assembly/busco 2021-04-09T21:03:48,812 copying sequana/rules/Assembly/busco/busco.rules -> build/lib/sequana/rules/Assembly/busco 2021-04-09T21:03:48,815 creating build/lib/sequana/rules/Assembly/canu 2021-04-09T21:03:48,817 copying sequana/rules/Assembly/canu/canu.rules -> build/lib/sequana/rules/Assembly/canu 2021-04-09T21:03:48,820 creating build/lib/sequana/rules/Assembly/spades 2021-04-09T21:03:48,822 copying sequana/rules/Assembly/spades/spades.rules -> build/lib/sequana/rules/Assembly/spades 2021-04-09T21:03:48,825 creating build/lib/sequana/rules/Assembly/spades_get_fastq 2021-04-09T21:03:48,826 copying sequana/rules/Assembly/spades_get_fastq/spades_get_fastq.rules -> build/lib/sequana/rules/Assembly/spades_get_fastq 2021-04-09T21:03:48,830 creating build/lib/sequana/rules/peak_calling 2021-04-09T21:03:48,830 creating build/lib/sequana/rules/peak_calling/macs2_dynamic 2021-04-09T21:03:48,832 copying sequana/rules/peak_calling/macs2_dynamic/macs2_dynamic.rules -> build/lib/sequana/rules/peak_calling/macs2_dynamic 2021-04-09T21:03:48,835 creating build/lib/sequana/rules/Adapters/alien_trimmer 2021-04-09T21:03:48,837 copying sequana/rules/Adapters/alien_trimmer/alien_trimmer.rules -> build/lib/sequana/rules/Adapters/alien_trimmer 2021-04-09T21:03:48,840 creating build/lib/sequana/rules/Adapters/cutadapt 2021-04-09T21:03:48,841 copying sequana/rules/Adapters/cutadapt/cutadapt.rules -> build/lib/sequana/rules/Adapters/cutadapt 2021-04-09T21:03:48,845 creating build/lib/sequana/rules/Adapters/adapter_removal 2021-04-09T21:03:48,847 copying sequana/rules/Adapters/adapter_removal/adapter_removal.rules -> build/lib/sequana/rules/Adapters/adapter_removal 2021-04-09T21:03:48,850 creating build/lib/sequana/rules/Adapters/identify_adapters 2021-04-09T21:03:48,852 copying sequana/rules/Adapters/identify_adapters/identify_adapters.rules -> build/lib/sequana/rules/Adapters/identify_adapters 2021-04-09T21:03:48,855 creating build/lib/sequana/rules/deeptools/plotCoverage 2021-04-09T21:03:48,856 copying sequana/rules/deeptools/plotCoverage/plotCoverage.rules -> build/lib/sequana/rules/deeptools/plotCoverage 2021-04-09T21:03:48,859 creating build/lib/sequana/rules/deeptools/plotCorrelation 2021-04-09T21:03:48,860 copying sequana/rules/deeptools/plotCorrelation/plotCorrelation.rules -> build/lib/sequana/rules/deeptools/plotCorrelation 2021-04-09T21:03:48,863 creating build/lib/sequana/rules/deeptools/multiBamSummary 2021-04-09T21:03:48,865 copying sequana/rules/deeptools/multiBamSummary/multiBamSummary.rules -> build/lib/sequana/rules/deeptools/multiBamSummary 2021-04-09T21:03:48,868 creating build/lib/sequana/rules/deeptools/BamPEFragmentSize 2021-04-09T21:03:48,870 copying sequana/rules/deeptools/BamPEFragmentSize/BamPEFragmentSize.rules -> build/lib/sequana/rules/deeptools/BamPEFragmentSize 2021-04-09T21:03:48,873 creating build/lib/sequana/rules/SnpEff/snpeff_add_locus_in_fasta 2021-04-09T21:03:48,873 creating build/lib/sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.0 2021-04-09T21:03:48,875 copying sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.0/snpeff_add_locus_in_fasta.rules -> build/lib/sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.0 2021-04-09T21:03:48,878 creating build/lib/sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.1 2021-04-09T21:03:48,879 copying sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.1/snpeff_add_locus_in_fasta.rules -> build/lib/sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.1 2021-04-09T21:03:48,882 creating build/lib/sequana/rules/SnpEff/snpeff 2021-04-09T21:03:48,883 creating build/lib/sequana/rules/SnpEff/snpeff/1.0 2021-04-09T21:03:48,884 copying sequana/rules/SnpEff/snpeff/1.0/snpeff.rules -> build/lib/sequana/rules/SnpEff/snpeff/1.0 2021-04-09T21:03:48,887 creating build/lib/sequana/rules/SnpEff/snpeff/1.1 2021-04-09T21:03:48,889 copying sequana/rules/SnpEff/snpeff/1.1/snpeff.rules -> build/lib/sequana/rules/SnpEff/snpeff/1.1 2021-04-09T21:03:48,892 creating build/lib/sequana/pipelines/compressor 2021-04-09T21:03:48,893 copying sequana/pipelines/compressor/cluster_config.json -> build/lib/sequana/pipelines/compressor 2021-04-09T21:03:48,896 copying sequana/pipelines/compressor/schema.yaml -> build/lib/sequana/pipelines/compressor 2021-04-09T21:03:48,899 copying sequana/pipelines/compressor/dag.png -> build/lib/sequana/pipelines/compressor 2021-04-09T21:03:48,903 copying sequana/pipelines/compressor/requirements.txt -> build/lib/sequana/pipelines/compressor 2021-04-09T21:03:48,906 copying sequana/pipelines/compressor/config.yaml -> build/lib/sequana/pipelines/compressor 2021-04-09T21:03:48,909 copying sequana/pipelines/compressor/README.rst -> build/lib/sequana/pipelines/compressor 2021-04-09T21:03:48,912 copying sequana/pipelines/compressor/compressor.rules -> build/lib/sequana/pipelines/compressor 2021-04-09T21:03:48,914 copying sequana/resources/data/README.rst -> build/lib/sequana/resources/data 2021-04-09T21:03:48,917 copying sequana/resources/data/phiX174.fa -> build/lib/sequana/resources/data 2021-04-09T21:03:48,920 copying sequana/resources/data/SIRV.fa -> build/lib/sequana/resources/data 2021-04-09T21:03:48,926 copying sequana/resources/data/measles.fa -> build/lib/sequana/resources/data 2021-04-09T21:03:48,929 copying sequana/resources/data/JB409847.filter.vcf -> build/lib/sequana/resources/data 2021-04-09T21:03:48,933 copying sequana/resources/data/JB409847.vc.csv -> build/lib/sequana/resources/data 2021-04-09T21:03:48,936 copying sequana/resources/data/JB409847.bcf -> build/lib/sequana/resources/data 2021-04-09T21:03:48,939 copying sequana/resources/data/lima_output.lbc32--lbc32.ccs.bam -> build/lib/sequana/resources/data 2021-04-09T21:03:48,955 copying sequana/resources/data/measles.fa.sa -> build/lib/sequana/resources/data 2021-04-09T21:03:48,958 copying sequana/resources/data/measles.fa.sorted.bam -> build/lib/sequana/resources/data 2021-04-09T21:03:48,971 copying sequana/resources/data/measles.fa.ann -> build/lib/sequana/resources/data 2021-04-09T21:03:48,973 copying sequana/resources/data/measles.fa.sorted.bam.bai -> build/lib/sequana/resources/data 2021-04-09T21:03:48,976 copying sequana/resources/data/JB409847.csv -> build/lib/sequana/resources/data 2021-04-09T21:03:48,978 copying sequana/resources/data/test_hg38_chr18.bam -> build/lib/sequana/resources/data 2021-04-09T21:03:48,984 copying sequana/resources/data/hg38_chr18.bed -> build/lib/sequana/resources/data 2021-04-09T21:03:49,007 copying sequana/resources/data/JB409847.cov.csv -> build/lib/sequana/resources/data 2021-04-09T21:03:49,032 copying sequana/resources/data/measles.fa.pac -> build/lib/sequana/resources/data 2021-04-09T21:03:49,035 copying sequana/resources/data/test_small.gff3 -> build/lib/sequana/resources/data 2021-04-09T21:03:49,038 copying sequana/resources/data/test_L001_R1_001.fastq.gz -> build/lib/sequana/resources/data 2021-04-09T21:03:49,045 copying sequana/resources/data/WT_ATCACG_L001_R1_001.fastq.gz -> build/lib/sequana/resources/data 2021-04-09T21:03:49,196 copying sequana/resources/data/JB409847.vcf -> build/lib/sequana/resources/data 2021-04-09T21:03:49,202 copying sequana/resources/data/Hm2_GTGAAA_L005_R1_001.fastq.gz -> build/lib/sequana/resources/data 2021-04-09T21:03:49,209 copying sequana/resources/data/JB409847.gbk -> build/lib/sequana/resources/data 2021-04-09T21:03:49,214 copying sequana/resources/data/Hm2_GTGAAA_L005_R2_001.fastq.gz -> build/lib/sequana/resources/data 2021-04-09T21:03:49,221 copying sequana/resources/data/JB409847.bed -> build/lib/sequana/resources/data 2021-04-09T21:03:49,236 copying sequana/resources/data/test_L002_R1_001.fastq.gz -> build/lib/sequana/resources/data 2021-04-09T21:03:49,244 copying sequana/resources/data/JB409847.fasta -> build/lib/sequana/resources/data 2021-04-09T21:03:49,248 copying sequana/resources/data/JB409847.expected.vcf -> build/lib/sequana/resources/data 2021-04-09T21:03:49,252 copying sequana/resources/data/panther.csv -> build/lib/sequana/resources/data 2021-04-09T21:03:49,256 copying sequana/resources/data/KO_ATCACG_R1_test.fastq.gz -> build/lib/sequana/resources/data 2021-04-09T21:03:49,260 copying sequana/resources/data/KO_ATCACG_L001_R1_001.fastq.gz -> build/lib/sequana/resources/data 2021-04-09T21:03:49,356 copying sequana/resources/data/virus.bed -> build/lib/sequana/resources/data 2021-04-09T21:03:49,368 copying sequana/resources/data/kegg.csv -> build/lib/sequana/resources/data 2021-04-09T21:03:49,384 copying sequana/resources/data/test_wrong_bed.bed -> build/lib/sequana/resources/data 2021-04-09T21:03:49,388 copying sequana/resources/data/measles.fa.amb -> build/lib/sequana/resources/data 2021-04-09T21:03:49,392 copying sequana/resources/data/measles.fa.bwt -> build/lib/sequana/resources/data 2021-04-09T21:03:49,396 copying sequana/resources/testing/README.rst -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,400 copying sequana/resources/testing/test_fasta_filtering.fa -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,404 copying sequana/resources/testing/adapters_with_duplicates.fa -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,408 copying sequana/resources/testing/measles.fa -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,411 copying sequana/resources/testing/test_gui_generic_snakefile_configfile.rules -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,415 copying sequana/resources/testing/test_gui_generic_snakefile_config.rules -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,418 copying sequana/resources/testing/test_gui_generic_snakefile_noconfig.rules -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,422 copying sequana/resources/testing/test_generic.rules -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,425 copying sequana/resources/testing/test.bam -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,430 copying sequana/resources/testing/test_krona_k1.tsv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,434 copying sequana/resources/testing/test_taxon_rtd.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,438 copying sequana/resources/testing/test_expdesign_miseq_illumina_semicommas.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,441 copying sequana/resources/testing/test_R2_.mapped.fastq -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,447 copying sequana/resources/testing/test_gui_generic_config.yaml -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,450 copying sequana/resources/testing/test_samplesheet_wrong_characters.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,454 copying sequana/resources/testing/test_dag.ann.dot -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,457 copying sequana/resources/testing/test_blast_local.xml -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,461 copying sequana/resources/testing/test_measles.sam -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,465 copying sequana/resources/testing/test.fastq -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,471 copying sequana/resources/testing/test_iem_samplesheet_miseq_double.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,475 copying sequana/resources/testing/test_atropos_se.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,481 copying sequana/resources/testing/test_summary_fastq_stats.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,486 copying sequana/resources/testing/test_atropos_paired.txt -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,491 copying sequana/resources/testing/test_trf1.dat -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,498 copying sequana/resources/testing/test_expdesign_miseq_illumina_1.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,502 copying sequana/resources/testing/test_expdesign_hiseq_doubleindex.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,506 copying sequana/resources/testing/test_pca.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,515 copying sequana/resources/testing/test_cutadapt_paired.txt -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,519 copying sequana/resources/testing/test_fasta.fasta -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,523 copying sequana/resources/testing/test_R1_.mapped.fastq -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,529 copying sequana/resources/testing/test_itol_basic.tree.txt -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,533 copying sequana/resources/testing/test_expdesign_miseq_illumina_semicommas.csv.fixed -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,536 copying sequana/resources/testing/test_iem_samplesheet_nextseq_single.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,540 copying sequana/resources/testing/test_CS_tiny.bam -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,544 copying sequana/resources/testing/test_atropos_se.txt -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,549 copying sequana/resources/testing/test_sirv.xls -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,561 copying sequana/resources/testing/measles.fa.fai -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,564 copying sequana/resources/testing/test_laa_amplicon_analysis_summary_bc25.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,568 copying sequana/resources/testing/test_fastqc_report.zip -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,574 copying sequana/resources/testing/test_kraken_multiple_1.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,577 copying sequana/resources/testing/test_atropos_pe.txt -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,581 copying sequana/resources/testing/test_mgi.fqStat.txt -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,585 copying sequana/resources/testing/test_laa_amplicon_analysis_summary_bc24.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,589 copying sequana/resources/testing/test_pacbio_subreads.bam.bai -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,592 copying sequana/resources/testing/test_expdesign_rubicon.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,596 copying sequana/resources/testing/test_heatmap.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,599 copying sequana/resources/testing/test_cnvnator.txt -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,602 copying sequana/resources/testing/test.fasta -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,606 copying sequana/resources/testing/summary_bamtools_stats.txt -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,609 copying sequana/resources/testing/test_expdesign_Hm2.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,613 copying sequana/resources/testing/test_expdesign_miseq_illumina2.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,622 copying sequana/resources/testing/test_contigs_spades.fasta -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,626 copying sequana/resources/testing/test_measles.bam -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,630 copying sequana/resources/testing/test_pacbio_subreads.bam -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,646 copying sequana/resources/testing/test.vcf -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,650 copying sequana/resources/testing/test_krona_k2.tsv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,653 copying sequana/resources/testing/test_expdesign_hiseq_duplicated_index.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,656 copying sequana/resources/testing/test_summary_module.svg -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,660 copying sequana/resources/testing/test.bam.bai -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,664 copying sequana/resources/testing/test_R2_.unmapped.fastq -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,667 copying sequana/resources/testing/test_expdesign_miseq_illumina.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,670 copying sequana/resources/testing/test_snakemake_stats.txt -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,673 copying sequana/resources/testing/test_expdesign_generic.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,676 copying sequana/resources/testing/test_adapter_removal_output.txt -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,679 copying sequana/resources/testing/test_vcf_mpileup_4dot1.vcf -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,686 copying sequana/resources/testing/test_contigs_ex1.fasta -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,691 copying sequana/resources/testing/summary_pacbio_qc1.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,694 copying sequana/resources/testing/test_snpeff_ref.gb -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,715 copying sequana/resources/testing/test_generic.yaml -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,718 copying sequana/resources/testing/test_isoseq_lq_sirv.bam -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,725 copying sequana/resources/testing/test_expdesign_hiseq.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,728 copying sequana/resources/testing/test_gtf_fixer.gtf -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,730 copying sequana/resources/testing/test_kraken_mkr2_summary_1.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,733 copying sequana/resources/testing/test_iem_samplesheet_misnieq.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,737 copying sequana/resources/testing/summary_pacbio_qc3.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,740 copying sequana/resources/testing/test_JB409847.bed -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,756 copying sequana/resources/testing/summary_kraken.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,759 copying sequana/resources/testing/test.sam -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,765 copying sequana/resources/testing/test_kraken_multiple_2.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,768 copying sequana/resources/testing/test_iem_samplesheet_iseq100.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,771 copying sequana/resources/testing/test_dag.dot -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,774 copying sequana/resources/testing/test_atropos_pe.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,782 copying sequana/resources/testing/test_pacbio_barcode_report.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,786 copying sequana/resources/testing/test.fastq.gz -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,791 copying sequana/resources/testing/test_expdesign_wrong.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,793 copying sequana/resources/testing/test_demultiplex_Stats.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,798 copying sequana/resources/testing/test_busco_full_table.tsv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,802 copying sequana/resources/testing/test_kraken_mkr2_summary_2.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,805 copying sequana/resources/testing/test_kraken.out.summary -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,809 copying sequana/resources/testing/test_R1_.unmapped.fastq -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,811 copying sequana/resources/testing/test_kraken.out -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,820 copying sequana/resources/testing/summary_coverage2.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,823 copying sequana/resources/testing/test_coverage.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,835 copying sequana/resources/testing/test_1_1000.fastq.gz -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,838 copying sequana/resources/testing/summary_coverage1.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,841 copying sequana/resources/testing/test_index_mapper.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,843 copying sequana/resources/testing/summary_qc.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,846 copying sequana/resources/testing/test_demultiplex_Stats_undetermined.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,849 copying sequana/resources/testing/summary_pacbio_qc2.json -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,853 copying sequana/resources/testing/test_iem_samplesheet_hiseq_single.csv -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,856 copying sequana/resources/testing/test_measles.cram -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,859 copying sequana/resources/testing/saccer3_truncated.gff -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,863 copying sequana/resources/testing/test_blast_ebi.xml -> build/lib/sequana/resources/testing 2021-04-09T21:03:49,878 copying sequana/resources/testing/rnadiff/rnadiff_bowtie.csv -> build/lib/sequana/resources/testing/rnadiff 2021-04-09T21:03:49,894 copying sequana/resources/testing/rnadiff/design.csv -> build/lib/sequana/resources/testing/rnadiff 2021-04-09T21:03:49,897 copying sequana/resources/testing/rnadiff/design_twocond.csv -> build/lib/sequana/resources/testing/rnadiff 2021-04-09T21:03:49,900 copying sequana/resources/testing/rnadiff/rnadiff_salmon.csv -> build/lib/sequana/resources/testing/rnadiff 2021-04-09T21:03:49,914 copying sequana/resources/testing/rnadiff/README.txt -> build/lib/sequana/resources/testing/rnadiff 2021-04-09T21:03:49,917 copying sequana/resources/testing/featurecounts/README.txt -> build/lib/sequana/resources/testing/featurecounts 2021-04-09T21:03:49,920 copying sequana/resources/testing/enrichment/ecoli_all_gene.csv -> build/lib/sequana/resources/testing/enrichment 2021-04-09T21:03:49,937 copying sequana/resources/testing/enrichment/ecoli_up_gene.csv -> build/lib/sequana/resources/testing/enrichment 2021-04-09T21:03:49,943 copying sequana/resources/testing/enrichment/ecoli_down_gene.csv -> build/lib/sequana/resources/testing/enrichment 2021-04-09T21:03:49,950 creating build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:49,951 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/counts_raw.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:49,959 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/counts_vst_norm.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:49,977 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/counts_normed.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:49,995 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/overall_dds.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:50,031 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/Mut_csrA_vs_WT_degs_DESeq2.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:50,044 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/Complemented_csrA_vs_WT_degs_DESeq2.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:50,059 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/Complemented_csrA_vs_Mut_csrA_degs_DESeq2.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:50,072 copying sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/counts.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1 2021-04-09T21:03:50,078 copying sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/design.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1 2021-04-09T21:03:50,081 copying sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/Lepto.gff -> build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1 2021-04-09T21:03:50,121 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/counts_raw.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:50,127 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/counts_vst_norm.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:50,145 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/counts_normed.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:50,162 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/overall_dds.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:50,211 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/Mut_csrA_vs_WT_degs_DESeq2.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:50,225 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/Complemented_csrA_vs_WT_degs_DESeq2.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:50,241 copying sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/Complemented_csrA_vs_Mut_csrA_degs_DESeq2.csv -> build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:50,255 copying sequana/resources/testing/featurecounts/featurecounts_ex1/Complemented_csrA_3_S9_feature.out -> build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:50,259 copying sequana/resources/testing/featurecounts/featurecounts_ex1/Complemented_csrA_2_S8_feature.out -> build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:50,263 copying sequana/resources/testing/featurecounts/featurecounts_ex1/WT__2_S2_feature.out -> build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:50,268 copying sequana/resources/testing/featurecounts/featurecounts_ex1/WT__1_S1_feature.out -> build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:50,272 copying sequana/resources/testing/featurecounts/featurecounts_ex1/Complemented_csrA_1_S7_feature.out -> build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:50,276 copying sequana/resources/testing/featurecounts/featurecounts_ex1/all_features.out -> build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:50,280 copying sequana/resources/testing/featurecounts/featurecounts_ex1/WT__3_S3_feature.out -> build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:50,284 copying sequana/resources/testing/featurecounts/featurecounts_ex1/README.txt -> build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:50,288 copying sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables/B3789-v1.surexpvsref.complete.xls -> build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables 2021-04-09T21:03:50,315 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_undef 2021-04-09T21:03:50,316 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2 2021-04-09T21:03:50,317 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2 2021-04-09T21:03:50,318 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2 2021-04-09T21:03:50,321 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2 2021-04-09T21:03:50,324 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0 2021-04-09T21:03:50,325 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0 2021-04-09T21:03:50,327 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0 2021-04-09T21:03:50,330 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1 2021-04-09T21:03:50,331 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1 2021-04-09T21:03:50,333 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1 2021-04-09T21:03:50,336 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1 2021-04-09T21:03:50,336 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2 2021-04-09T21:03:50,338 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2 2021-04-09T21:03:50,341 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2 2021-04-09T21:03:50,344 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0 2021-04-09T21:03:50,345 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0 2021-04-09T21:03:50,348 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0 2021-04-09T21:03:50,350 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1 2021-04-09T21:03:50,351 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1 2021-04-09T21:03:50,354 copying sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1 2021-04-09T21:03:50,356 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_1 2021-04-09T21:03:50,357 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2 2021-04-09T21:03:50,357 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_2 2021-04-09T21:03:50,359 copying sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_2/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_2 2021-04-09T21:03:50,362 copying sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_2/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_2 2021-04-09T21:03:50,364 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_0 2021-04-09T21:03:50,365 copying sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_0 2021-04-09T21:03:50,368 copying sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_0/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_0 2021-04-09T21:03:50,371 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_1 2021-04-09T21:03:50,372 copying sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_1 2021-04-09T21:03:50,375 copying sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_1/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_1 2021-04-09T21:03:50,378 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1 2021-04-09T21:03:50,379 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_2 2021-04-09T21:03:50,380 copying sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_2/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_2 2021-04-09T21:03:50,383 copying sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_2/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_2 2021-04-09T21:03:50,386 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_0 2021-04-09T21:03:50,387 copying sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_0 2021-04-09T21:03:50,389 copying sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_0/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_0 2021-04-09T21:03:50,392 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_1 2021-04-09T21:03:50,393 copying sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_1 2021-04-09T21:03:50,396 copying sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_1/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_1 2021-04-09T21:03:50,398 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_2 2021-04-09T21:03:50,399 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2 2021-04-09T21:03:50,400 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_2 2021-04-09T21:03:50,401 copying sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_2/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_2 2021-04-09T21:03:50,404 copying sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_2/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_2 2021-04-09T21:03:50,406 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_0 2021-04-09T21:03:50,407 copying sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_0 2021-04-09T21:03:50,410 copying sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_0/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_0 2021-04-09T21:03:50,413 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_1 2021-04-09T21:03:50,414 copying sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_1 2021-04-09T21:03:50,416 copying sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_1/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_1 2021-04-09T21:03:50,419 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1 2021-04-09T21:03:50,420 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_2 2021-04-09T21:03:50,421 copying sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_2/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_2 2021-04-09T21:03:50,423 copying sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_2/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_2 2021-04-09T21:03:50,426 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_0 2021-04-09T21:03:50,427 copying sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_0 2021-04-09T21:03:50,430 copying sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_0/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_0 2021-04-09T21:03:50,432 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_1 2021-04-09T21:03:50,433 copying sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_1 2021-04-09T21:03:50,436 copying sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_1/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_1 2021-04-09T21:03:50,439 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus 2021-04-09T21:03:50,439 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2 2021-04-09T21:03:50,440 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2 2021-04-09T21:03:50,441 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2 2021-04-09T21:03:50,444 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2 2021-04-09T21:03:50,447 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_0 2021-04-09T21:03:50,448 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_0 2021-04-09T21:03:50,452 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_0/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_0 2021-04-09T21:03:50,455 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1 2021-04-09T21:03:50,456 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1 2021-04-09T21:03:50,459 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1 2021-04-09T21:03:50,462 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1 2021-04-09T21:03:50,464 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_2 2021-04-09T21:03:50,464 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_2/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_2 2021-04-09T21:03:50,467 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_2/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_2 2021-04-09T21:03:50,470 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_0 2021-04-09T21:03:50,471 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_0 2021-04-09T21:03:50,474 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_0/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_0 2021-04-09T21:03:50,477 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_1 2021-04-09T21:03:50,478 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_1 2021-04-09T21:03:50,481 copying sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_1/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_1 2021-04-09T21:03:50,484 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2 2021-04-09T21:03:50,485 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_2 2021-04-09T21:03:50,486 copying sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_2/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_2 2021-04-09T21:03:50,489 copying sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_2/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_2 2021-04-09T21:03:50,492 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_0 2021-04-09T21:03:50,493 copying sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_0/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_0 2021-04-09T21:03:50,495 copying sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_0/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_0 2021-04-09T21:03:50,498 creating build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_1 2021-04-09T21:03:50,499 copying sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_1/__init__.py -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_1 2021-04-09T21:03:50,501 copying sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_1/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_1 2021-04-09T21:03:50,505 copying sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2 2021-04-09T21:03:50,509 copying sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0 2021-04-09T21:03:50,513 copying sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1/sample_feature.out -> build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1 2021-04-09T21:03:50,516 copying sequana/resources/snpeff/snpEff.config -> build/lib/sequana/resources/snpeff 2021-04-09T21:03:50,521 copying sequana/resources/busco/config.ini -> build/lib/sequana/resources/busco 2021-04-09T21:03:50,523 copying sequana/resources/templates/joint_calling.html -> build/lib/sequana/resources/templates 2021-04-09T21:03:50,526 copying sequana/resources/templates/base.html -> build/lib/sequana/resources/templates 2021-04-09T21:03:50,530 copying sequana/resources/templates/standard.html -> build/lib/sequana/resources/templates 2021-04-09T21:03:50,532 copying sequana/resources/templates/rnadiff_light_template.R -> build/lib/sequana/resources/templates 2021-04-09T21:03:50,535 copying sequana/resources/images/no_data.jpg -> build/lib/sequana/resources/images 2021-04-09T21:03:50,538 copying sequana/resources/images/no_data.png -> build/lib/sequana/resources/images 2021-04-09T21:03:50,542 copying sequana/resources/images/Institut_Pasteur.png -> build/lib/sequana/resources/images 2021-04-09T21:03:50,548 copying sequana/resources/css/jquery.dropdown.min.css -> build/lib/sequana/resources/css 2021-04-09T21:03:50,552 copying sequana/resources/css/bootstrap.min.css -> build/lib/sequana/resources/css 2021-04-09T21:03:50,558 copying sequana/resources/css/jquery.dataTables.min.css -> build/lib/sequana/resources/css 2021-04-09T21:03:50,562 copying sequana/resources/css/buttons.dataTables.min.css -> build/lib/sequana/resources/css 2021-04-09T21:03:50,565 copying sequana/resources/css/report.css -> build/lib/sequana/resources/css 2021-04-09T21:03:50,569 copying sequana/resources/js/bootstrap.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,576 copying sequana/resources/js/buttons.html5.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,580 copying sequana/resources/js/jquery-3.2.1.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,586 copying sequana/resources/js/buttons.print.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,589 copying sequana/resources/js/papaparse.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,593 copying sequana/resources/js/jquery.dropdown.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,595 copying sequana/resources/js/jquery.dataTables.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,600 copying sequana/resources/js/canvasjs.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,613 copying sequana/resources/js/jquery-3.5.1.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,618 copying sequana/resources/js/jquery-2.1.1.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,626 copying sequana/resources/js/jquery.tocPlugin.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,628 copying sequana/resources/js/jquery-3.1.1.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,633 copying sequana/resources/js/dataTables.buttons.min.js -> build/lib/sequana/resources/js 2021-04-09T21:03:50,636 copying sequana/resources/data/adapters/README.rst -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,639 copying sequana/resources/data/adapters/TruSeqUD_DNA_revcomp.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,642 copying sequana/resources/data/adapters/adapters_Small_revcomp.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,645 copying sequana/resources/data/adapters/NEXTFlex48_DNA_rev.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,649 copying sequana/resources/data/adapters/TruSeqUD_DNA_fwd.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,652 copying sequana/resources/data/adapters/NEXTFlex96_DNA_revcomp.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,655 copying sequana/resources/data/adapters/NEXTFlex96_DNA_fwd.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,658 copying sequana/resources/data/adapters/adapters_SMARTer_revcomp.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,662 copying sequana/resources/data/adapters/adapters_Nextera_revcomp.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,665 copying sequana/resources/data/adapters/adapters_NEBNext_fwd.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,669 copying sequana/resources/data/adapters/NEXTFlex48_DNA_revcomp.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,672 copying sequana/resources/data/adapters/adapters_SMARTer_rev.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,675 copying sequana/resources/data/adapters/TruSeqCD_DNA_rev.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,678 copying sequana/resources/data/adapters/TruSeqCD_alt_DNA_revcomp.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,681 copying sequana/resources/data/adapters/adapters_SMARTer_fwd.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,684 copying sequana/resources/data/adapters/adapters_Nextera_fwd.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,687 copying sequana/resources/data/adapters/adapters_NEBNext_revcomp.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,690 copying sequana/resources/data/adapters/adapters_TruSeq_revcomp.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,693 copying sequana/resources/data/adapters/TruSeqCD_DNA_fwd.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,696 copying sequana/resources/data/adapters/TruSeqCD_alt_DNA_rev.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,699 copying sequana/resources/data/adapters/adapters_TruSeq_fwd.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,701 copying sequana/resources/data/adapters/TruSeqUD_DNA_rev.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,704 copying sequana/resources/data/adapters/NEXTFlex96_DNA_rev.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,708 copying sequana/resources/data/adapters/adapters_Nextera_rev.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,711 copying sequana/resources/data/adapters/adapters_Small_rev.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,714 copying sequana/resources/data/adapters/TruSeqCD_DNA_revcomp.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,717 copying sequana/resources/data/adapters/NEXTFlex48_DNA_fwd.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,721 copying sequana/resources/data/adapters/TruSeqCD_alt_DNA_fwd.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,724 copying sequana/resources/data/adapters/adapters_NEBNext_rev.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,728 copying sequana/resources/data/adapters/adapters_TruSeq_rev.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,731 copying sequana/resources/data/adapters/adapters_Small_fwd.fa -> build/lib/sequana/resources/data/adapters 2021-04-09T21:03:50,775 installing to build/bdist.linux-armv7l/wheel 2021-04-09T21:03:50,776 running install 2021-04-09T21:03:50,777 running install_lib 2021-04-09T21:03:50,781 creating build/bdist.linux-armv7l 2021-04-09T21:03:50,781 creating build/bdist.linux-armv7l/wheel 2021-04-09T21:03:50,785 creating build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:50,786 copying build/lib/sequana/snpeff.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:50,789 copying build/lib/sequana/criteria.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:50,791 copying build/lib/sequana/kegg.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:50,793 copying build/lib/sequana/freebayes_bcf_filter.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:50,796 copying build/lib/sequana/kraken.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:50,800 copying build/lib/sequana/mgi.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:50,802 copying build/lib/sequana/databases.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:50,805 creating build/bdist.linux-armv7l/wheel/sequana/resources 2021-04-09T21:03:50,808 creating build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,809 copying build/lib/sequana/resources/data/JB409847.filter.vcf -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,813 copying build/lib/sequana/resources/data/phiX174.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,816 copying build/lib/sequana/resources/data/JB409847.vc.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,819 copying build/lib/sequana/resources/data/JB409847.bcf -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,822 copying build/lib/sequana/resources/data/lima_output.lbc32--lbc32.ccs.bam -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,838 copying build/lib/sequana/resources/data/measles.fa.sa -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,841 copying build/lib/sequana/resources/data/measles.fa.sorted.bam -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,850 copying build/lib/sequana/resources/data/measles.fa.ann -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,852 copying build/lib/sequana/resources/data/measles.fa.sorted.bam.bai -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,854 copying build/lib/sequana/resources/data/JB409847.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,857 copying build/lib/sequana/resources/data/test_hg38_chr18.bam -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,860 copying build/lib/sequana/resources/data/hg38_chr18.bed -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,879 copying build/lib/sequana/resources/data/JB409847.cov.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,904 copying build/lib/sequana/resources/data/measles.fa.pac -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,907 copying build/lib/sequana/resources/data/SIRV.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,911 copying build/lib/sequana/resources/data/test_small.gff3 -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:50,915 creating build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,917 copying build/lib/sequana/resources/data/adapters/TruSeqUD_DNA_revcomp.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,920 copying build/lib/sequana/resources/data/adapters/adapters_Small_revcomp.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,923 copying build/lib/sequana/resources/data/adapters/NEXTFlex48_DNA_rev.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,926 copying build/lib/sequana/resources/data/adapters/TruSeqUD_DNA_fwd.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,928 copying build/lib/sequana/resources/data/adapters/NEXTFlex96_DNA_revcomp.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,931 copying build/lib/sequana/resources/data/adapters/NEXTFlex96_DNA_fwd.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,935 copying build/lib/sequana/resources/data/adapters/adapters_SMARTer_revcomp.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,938 copying build/lib/sequana/resources/data/adapters/adapters_Nextera_revcomp.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,942 copying build/lib/sequana/resources/data/adapters/adapters_NEBNext_fwd.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,946 copying build/lib/sequana/resources/data/adapters/NEXTFlex48_DNA_revcomp.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,952 copying build/lib/sequana/resources/data/adapters/adapters_SMARTer_rev.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,955 copying build/lib/sequana/resources/data/adapters/TruSeqCD_DNA_rev.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,958 copying build/lib/sequana/resources/data/adapters/TruSeqCD_alt_DNA_revcomp.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,961 copying build/lib/sequana/resources/data/adapters/adapters_SMARTer_fwd.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,964 copying build/lib/sequana/resources/data/adapters/adapters_Nextera_fwd.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,968 copying build/lib/sequana/resources/data/adapters/adapters_NEBNext_revcomp.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,971 copying build/lib/sequana/resources/data/adapters/adapters_TruSeq_revcomp.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,974 copying build/lib/sequana/resources/data/adapters/TruSeqCD_DNA_fwd.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,977 copying build/lib/sequana/resources/data/adapters/TruSeqCD_alt_DNA_rev.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,980 copying build/lib/sequana/resources/data/adapters/adapters_TruSeq_fwd.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,983 copying build/lib/sequana/resources/data/adapters/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,985 copying build/lib/sequana/resources/data/adapters/README.rst -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,989 copying build/lib/sequana/resources/data/adapters/TruSeqUD_DNA_rev.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,991 copying build/lib/sequana/resources/data/adapters/NEXTFlex96_DNA_rev.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,995 copying build/lib/sequana/resources/data/adapters/adapters_Nextera_rev.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:50,998 copying build/lib/sequana/resources/data/adapters/adapters_Small_rev.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:51,001 copying build/lib/sequana/resources/data/adapters/TruSeqCD_DNA_revcomp.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:51,003 copying build/lib/sequana/resources/data/adapters/NEXTFlex48_DNA_fwd.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:51,006 copying build/lib/sequana/resources/data/adapters/TruSeqCD_alt_DNA_fwd.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:51,009 copying build/lib/sequana/resources/data/adapters/adapters_NEBNext_rev.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:51,012 copying build/lib/sequana/resources/data/adapters/adapters_TruSeq_rev.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:51,014 copying build/lib/sequana/resources/data/adapters/adapters_Small_fwd.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data/adapters 2021-04-09T21:03:51,017 copying build/lib/sequana/resources/data/test_L001_R1_001.fastq.gz -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,023 copying build/lib/sequana/resources/data/WT_ATCACG_L001_R1_001.fastq.gz -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,195 copying build/lib/sequana/resources/data/JB409847.vcf -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,199 copying build/lib/sequana/resources/data/Hm2_GTGAAA_L005_R1_001.fastq.gz -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,205 copying build/lib/sequana/resources/data/JB409847.gbk -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,209 copying build/lib/sequana/resources/data/Hm2_GTGAAA_L005_R2_001.fastq.gz -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,215 copying build/lib/sequana/resources/data/JB409847.bed -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,229 copying build/lib/sequana/resources/data/test_L002_R1_001.fastq.gz -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,235 copying build/lib/sequana/resources/data/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,238 copying build/lib/sequana/resources/data/JB409847.fasta -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,241 copying build/lib/sequana/resources/data/README.rst -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,243 copying build/lib/sequana/resources/data/JB409847.expected.vcf -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,246 copying build/lib/sequana/resources/data/panther.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,249 copying build/lib/sequana/resources/data/KO_ATCACG_R1_test.fastq.gz -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,252 copying build/lib/sequana/resources/data/KO_ATCACG_L001_R1_001.fastq.gz -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,364 copying build/lib/sequana/resources/data/virus.bed -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,372 copying build/lib/sequana/resources/data/kegg.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,385 copying build/lib/sequana/resources/data/test_wrong_bed.bed -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,388 copying build/lib/sequana/resources/data/measles.fa.amb -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,391 copying build/lib/sequana/resources/data/measles.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,394 copying build/lib/sequana/resources/data/measles.fa.bwt -> build/bdist.linux-armv7l/wheel/sequana/resources/data 2021-04-09T21:03:51,402 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,403 copying build/lib/sequana/resources/testing/test.bam -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,408 copying build/lib/sequana/resources/testing/test_krona_k1.tsv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,411 copying build/lib/sequana/resources/testing/test_taxon_rtd.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,413 copying build/lib/sequana/resources/testing/test_expdesign_miseq_illumina_semicommas.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,416 copying build/lib/sequana/resources/testing/test_R2_.mapped.fastq -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,422 copying build/lib/sequana/resources/testing/test_gui_generic_config.yaml -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,425 copying build/lib/sequana/resources/testing/test_samplesheet_wrong_characters.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,428 copying build/lib/sequana/resources/testing/test_dag.ann.dot -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,430 copying build/lib/sequana/resources/testing/test_blast_local.xml -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,434 copying build/lib/sequana/resources/testing/test_measles.sam -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,437 copying build/lib/sequana/resources/testing/test.fastq -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,443 copying build/lib/sequana/resources/testing/test_iem_samplesheet_miseq_double.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,446 copying build/lib/sequana/resources/testing/test_atropos_se.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,452 copying build/lib/sequana/resources/testing/test_summary_fastq_stats.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,455 copying build/lib/sequana/resources/testing/test_atropos_paired.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,459 copying build/lib/sequana/resources/testing/test_trf1.dat -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,465 copying build/lib/sequana/resources/testing/test_expdesign_miseq_illumina_1.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,469 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff 2021-04-09T21:03:51,470 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_bowtie.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff 2021-04-09T21:03:51,485 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_onecond_1 2021-04-09T21:03:51,488 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables 2021-04-09T21:03:51,489 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables/B3789-v1.surexpvsref.complete.xls -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables 2021-04-09T21:03:51,516 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables 2021-04-09T21:03:51,519 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_onecond_1 2021-04-09T21:03:51,521 copying build/lib/sequana/resources/testing/rnadiff/design.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff 2021-04-09T21:03:51,524 copying build/lib/sequana/resources/testing/rnadiff/design_twocond.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff 2021-04-09T21:03:51,528 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:51,529 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/counts_raw.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:51,538 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/counts_vst_norm.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:51,555 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/counts_normed.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:51,573 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/overall_dds.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:51,610 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/Mut_csrA_vs_WT_degs_DESeq2.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:51,621 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/Complemented_csrA_vs_WT_degs_DESeq2.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:51,635 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/Complemented_csrA_vs_Mut_csrA_degs_DESeq2.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex1 2021-04-09T21:03:51,651 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1 2021-04-09T21:03:51,652 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/counts.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1 2021-04-09T21:03:51,659 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/design.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1 2021-04-09T21:03:51,661 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/Lepto.gff -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1 2021-04-09T21:03:51,713 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_onecond_ex1 2021-04-09T21:03:51,715 copying build/lib/sequana/resources/testing/rnadiff/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff 2021-04-09T21:03:51,718 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:51,719 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/counts_raw.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:51,724 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/counts_vst_norm.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:51,742 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/counts_normed.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:51,759 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/overall_dds.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:51,795 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/Mut_csrA_vs_WT_degs_DESeq2.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:51,806 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/Complemented_csrA_vs_WT_degs_DESeq2.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:51,820 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/Complemented_csrA_vs_Mut_csrA_degs_DESeq2.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:51,834 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff/rnadiff_twocond_ex2 2021-04-09T21:03:51,835 copying build/lib/sequana/resources/testing/rnadiff/rnadiff_salmon.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff 2021-04-09T21:03:51,850 copying build/lib/sequana/resources/testing/rnadiff/README.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/rnadiff 2021-04-09T21:03:51,853 copying build/lib/sequana/resources/testing/test_expdesign_hiseq_doubleindex.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:51,856 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts 2021-04-09T21:03:51,858 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef 2021-04-09T21:03:51,861 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample2 2021-04-09T21:03:51,863 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2 2021-04-09T21:03:51,864 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2 2021-04-09T21:03:51,866 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2 2021-04-09T21:03:51,870 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0 2021-04-09T21:03:51,871 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0 2021-04-09T21:03:51,873 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0 2021-04-09T21:03:51,877 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1 2021-04-09T21:03:51,878 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1 2021-04-09T21:03:51,880 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1 2021-04-09T21:03:51,884 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample1 2021-04-09T21:03:51,886 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2 2021-04-09T21:03:51,887 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2 2021-04-09T21:03:51,890 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2 2021-04-09T21:03:51,893 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0 2021-04-09T21:03:51,894 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0 2021-04-09T21:03:51,896 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0 2021-04-09T21:03:51,900 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1 2021-04-09T21:03:51,901 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1 2021-04-09T21:03:51,903 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1 2021-04-09T21:03:51,906 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:51,908 copying build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1/Complemented_csrA_3_S9_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:51,911 copying build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1/Complemented_csrA_2_S8_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:51,914 copying build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1/WT__2_S2_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:51,917 copying build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1/WT__1_S1_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:51,920 copying build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1/Complemented_csrA_1_S7_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:51,923 copying build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1/all_features.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:51,927 copying build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:51,929 copying build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1/WT__3_S3_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:51,932 copying build/lib/sequana/resources/testing/featurecounts/featurecounts_ex1/README.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/featurecounts_ex1 2021-04-09T21:03:51,936 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1 2021-04-09T21:03:51,938 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample2 2021-04-09T21:03:51,940 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_2 2021-04-09T21:03:51,941 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_2 2021-04-09T21:03:51,943 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_2/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_2 2021-04-09T21:03:51,947 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_0 2021-04-09T21:03:51,948 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_0 2021-04-09T21:03:51,950 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_0/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_0 2021-04-09T21:03:51,954 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_1 2021-04-09T21:03:51,955 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_1 2021-04-09T21:03:51,957 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_1/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample2/feature_counts_1 2021-04-09T21:03:51,960 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample1 2021-04-09T21:03:51,962 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_2 2021-04-09T21:03:51,963 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_2 2021-04-09T21:03:51,966 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_2/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_2 2021-04-09T21:03:51,969 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_0 2021-04-09T21:03:51,970 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_0 2021-04-09T21:03:51,972 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_0/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_0 2021-04-09T21:03:51,976 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_1 2021-04-09T21:03:51,977 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_1 2021-04-09T21:03:51,979 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_1/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_1/sample1/feature_counts_1 2021-04-09T21:03:51,982 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2 2021-04-09T21:03:51,984 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample2 2021-04-09T21:03:51,986 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_2 2021-04-09T21:03:51,988 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_2 2021-04-09T21:03:51,990 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_2/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_2 2021-04-09T21:03:51,994 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_0 2021-04-09T21:03:51,995 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_0 2021-04-09T21:03:51,997 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_0/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_0 2021-04-09T21:03:52,001 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_1 2021-04-09T21:03:52,002 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_1 2021-04-09T21:03:52,005 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_1/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample2/feature_counts_1 2021-04-09T21:03:52,008 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample1 2021-04-09T21:03:52,010 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_2 2021-04-09T21:03:52,012 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_2 2021-04-09T21:03:52,014 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_2/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_2 2021-04-09T21:03:52,018 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_0 2021-04-09T21:03:52,019 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_0 2021-04-09T21:03:52,022 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_0/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_0 2021-04-09T21:03:52,025 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_1 2021-04-09T21:03:52,026 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_1 2021-04-09T21:03:52,029 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_1/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_2/sample1/feature_counts_1 2021-04-09T21:03:52,032 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus 2021-04-09T21:03:52,034 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2 2021-04-09T21:03:52,037 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2 2021-04-09T21:03:52,038 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2 2021-04-09T21:03:52,041 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2 2021-04-09T21:03:52,044 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_0 2021-04-09T21:03:52,045 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_0 2021-04-09T21:03:52,048 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_0/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_0 2021-04-09T21:03:52,052 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1 2021-04-09T21:03:52,053 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1 2021-04-09T21:03:52,055 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1 2021-04-09T21:03:52,059 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1 2021-04-09T21:03:52,061 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_2 2021-04-09T21:03:52,063 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_2 2021-04-09T21:03:52,065 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_2/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_2 2021-04-09T21:03:52,069 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_0 2021-04-09T21:03:52,070 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_0 2021-04-09T21:03:52,072 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_0/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_0 2021-04-09T21:03:52,076 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_1 2021-04-09T21:03:52,077 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_1 2021-04-09T21:03:52,079 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_1/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample1/feature_counts_1 2021-04-09T21:03:52,082 copying build/lib/sequana/resources/testing/featurecounts/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts 2021-04-09T21:03:52,085 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0 2021-04-09T21:03:52,087 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample2 2021-04-09T21:03:52,090 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_2 2021-04-09T21:03:52,091 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_2 2021-04-09T21:03:52,094 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_2/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_2 2021-04-09T21:03:52,097 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_0 2021-04-09T21:03:52,098 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_0 2021-04-09T21:03:52,101 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_0/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_0 2021-04-09T21:03:52,104 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_1 2021-04-09T21:03:52,106 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_1 2021-04-09T21:03:52,108 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_1/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample2/feature_counts_1 2021-04-09T21:03:52,111 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0 2021-04-09T21:03:52,114 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1 2021-04-09T21:03:52,116 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2 2021-04-09T21:03:52,118 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2 2021-04-09T21:03:52,120 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2 2021-04-09T21:03:52,124 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0 2021-04-09T21:03:52,125 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0 2021-04-09T21:03:52,128 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0 2021-04-09T21:03:52,130 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1 2021-04-09T21:03:52,133 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1 2021-04-09T21:03:52,135 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1 2021-04-09T21:03:52,137 copying build/lib/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1/sample_feature.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1 2021-04-09T21:03:52,140 copying build/lib/sequana/resources/testing/featurecounts/README.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/featurecounts 2021-04-09T21:03:52,142 copying build/lib/sequana/resources/testing/test_pca.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,150 copying build/lib/sequana/resources/testing/test_cutadapt_paired.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,154 copying build/lib/sequana/resources/testing/test_fasta.fasta -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,157 copying build/lib/sequana/resources/testing/test_R1_.mapped.fastq -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,162 copying build/lib/sequana/resources/testing/test_itol_basic.tree.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,165 copying build/lib/sequana/resources/testing/test_expdesign_miseq_illumina_semicommas.csv.fixed -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,168 copying build/lib/sequana/resources/testing/test_iem_samplesheet_nextseq_single.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,170 copying build/lib/sequana/resources/testing/test_CS_tiny.bam -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,174 copying build/lib/sequana/resources/testing/test_atropos_se.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,178 copying build/lib/sequana/resources/testing/test_sirv.xls -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,189 copying build/lib/sequana/resources/testing/measles.fa.fai -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,191 copying build/lib/sequana/resources/testing/test_laa_amplicon_analysis_summary_bc25.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,194 copying build/lib/sequana/resources/testing/test_fastqc_report.zip -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,200 copying build/lib/sequana/resources/testing/test_kraken_multiple_1.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,202 copying build/lib/sequana/resources/testing/test_atropos_pe.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,205 copying build/lib/sequana/resources/testing/test_mgi.fqStat.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,209 copying build/lib/sequana/resources/testing/test_laa_amplicon_analysis_summary_bc24.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,211 copying build/lib/sequana/resources/testing/test_pacbio_subreads.bam.bai -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,214 copying build/lib/sequana/resources/testing/test_expdesign_rubicon.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,217 copying build/lib/sequana/resources/testing/test_heatmap.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,219 copying build/lib/sequana/resources/testing/test_cnvnator.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,222 copying build/lib/sequana/resources/testing/test.fasta -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,225 copying build/lib/sequana/resources/testing/summary_bamtools_stats.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,227 copying build/lib/sequana/resources/testing/test_gui_generic_snakefile_configfile.rules -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,230 copying build/lib/sequana/resources/testing/test_expdesign_Hm2.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,233 copying build/lib/sequana/resources/testing/test_expdesign_miseq_illumina2.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,236 copying build/lib/sequana/resources/testing/test_contigs_spades.fasta -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,239 copying build/lib/sequana/resources/testing/test_measles.bam -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,243 copying build/lib/sequana/resources/testing/test_pacbio_subreads.bam -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,257 copying build/lib/sequana/resources/testing/test.vcf -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,261 copying build/lib/sequana/resources/testing/test_krona_k2.tsv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,263 copying build/lib/sequana/resources/testing/test_gui_generic_snakefile_config.rules -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,266 copying build/lib/sequana/resources/testing/test_expdesign_hiseq_duplicated_index.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,268 copying build/lib/sequana/resources/testing/test_summary_module.svg -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,272 copying build/lib/sequana/resources/testing/test.bam.bai -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,276 copying build/lib/sequana/resources/testing/test_R2_.unmapped.fastq -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,278 copying build/lib/sequana/resources/testing/test_expdesign_miseq_illumina.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,281 copying build/lib/sequana/resources/testing/test_snakemake_stats.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,284 copying build/lib/sequana/resources/testing/test_expdesign_generic.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,286 copying build/lib/sequana/resources/testing/test_adapter_removal_output.txt -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,289 copying build/lib/sequana/resources/testing/test_vcf_mpileup_4dot1.vcf -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,295 copying build/lib/sequana/resources/testing/test_contigs_ex1.fasta -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,299 copying build/lib/sequana/resources/testing/summary_pacbio_qc1.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,302 copying build/lib/sequana/resources/testing/test_snpeff_ref.gb -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,323 copying build/lib/sequana/resources/testing/test_generic.yaml -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,326 copying build/lib/sequana/resources/testing/test_isoseq_lq_sirv.bam -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,334 copying build/lib/sequana/resources/testing/test_expdesign_hiseq.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,336 copying build/lib/sequana/resources/testing/test_gtf_fixer.gtf -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,338 copying build/lib/sequana/resources/testing/test_kraken_mkr2_summary_1.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,341 copying build/lib/sequana/resources/testing/test_iem_samplesheet_misnieq.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,343 copying build/lib/sequana/resources/testing/test_fasta_filtering.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,346 copying build/lib/sequana/resources/testing/summary_pacbio_qc3.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,348 copying build/lib/sequana/resources/testing/test_JB409847.bed -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,362 creating build/bdist.linux-armv7l/wheel/sequana/resources/testing/enrichment 2021-04-09T21:03:52,363 copying build/lib/sequana/resources/testing/enrichment/ecoli_all_gene.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/enrichment 2021-04-09T21:03:52,386 copying build/lib/sequana/resources/testing/enrichment/ecoli_up_gene.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/enrichment 2021-04-09T21:03:52,391 copying build/lib/sequana/resources/testing/enrichment/ecoli_down_gene.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/enrichment 2021-04-09T21:03:52,397 copying build/lib/sequana/resources/testing/enrichment/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing/enrichment 2021-04-09T21:03:52,399 copying build/lib/sequana/resources/testing/summary_kraken.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,401 copying build/lib/sequana/resources/testing/test.sam -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,407 copying build/lib/sequana/resources/testing/test_kraken_multiple_2.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,410 copying build/lib/sequana/resources/testing/test_iem_samplesheet_iseq100.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,412 copying build/lib/sequana/resources/testing/test_dag.dot -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,414 copying build/lib/sequana/resources/testing/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,416 copying build/lib/sequana/resources/testing/test_atropos_pe.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,423 copying build/lib/sequana/resources/testing/test_pacbio_barcode_report.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,426 copying build/lib/sequana/resources/testing/test.fastq.gz -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,429 copying build/lib/sequana/resources/testing/README.rst -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,431 copying build/lib/sequana/resources/testing/test_expdesign_wrong.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,434 copying build/lib/sequana/resources/testing/adapters_with_duplicates.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,436 copying build/lib/sequana/resources/testing/test_demultiplex_Stats.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,440 copying build/lib/sequana/resources/testing/test_busco_full_table.tsv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,443 copying build/lib/sequana/resources/testing/test_gui_generic_snakefile_noconfig.rules -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,446 copying build/lib/sequana/resources/testing/test_kraken_mkr2_summary_2.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,449 copying build/lib/sequana/resources/testing/test_kraken.out.summary -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,451 copying build/lib/sequana/resources/testing/test_R1_.unmapped.fastq -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,453 copying build/lib/sequana/resources/testing/test_kraken.out -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,459 copying build/lib/sequana/resources/testing/summary_coverage2.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,462 copying build/lib/sequana/resources/testing/test_coverage.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,475 copying build/lib/sequana/resources/testing/test_1_1000.fastq.gz -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,479 copying build/lib/sequana/resources/testing/summary_coverage1.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,482 copying build/lib/sequana/resources/testing/test_index_mapper.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,484 copying build/lib/sequana/resources/testing/summary_qc.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,487 copying build/lib/sequana/resources/testing/test_demultiplex_Stats_undetermined.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,490 copying build/lib/sequana/resources/testing/summary_pacbio_qc2.json -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,493 copying build/lib/sequana/resources/testing/test_iem_samplesheet_hiseq_single.csv -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,496 copying build/lib/sequana/resources/testing/measles.fa -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,499 copying build/lib/sequana/resources/testing/test_measles.cram -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,503 copying build/lib/sequana/resources/testing/saccer3_truncated.gff -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,506 copying build/lib/sequana/resources/testing/test_blast_ebi.xml -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,518 copying build/lib/sequana/resources/testing/test_generic.rules -> build/bdist.linux-armv7l/wheel/sequana/resources/testing 2021-04-09T21:03:52,522 creating build/bdist.linux-armv7l/wheel/sequana/resources/snpeff 2021-04-09T21:03:52,524 copying build/lib/sequana/resources/snpeff/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/snpeff 2021-04-09T21:03:52,526 copying build/lib/sequana/resources/snpeff/snpEff.config -> build/bdist.linux-armv7l/wheel/sequana/resources/snpeff 2021-04-09T21:03:52,530 creating build/bdist.linux-armv7l/wheel/sequana/resources/canvas 2021-04-09T21:03:52,532 copying build/lib/sequana/resources/canvas/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/canvas 2021-04-09T21:03:52,534 copying build/lib/sequana/resources/canvas/bar.py -> build/bdist.linux-armv7l/wheel/sequana/resources/canvas 2021-04-09T21:03:52,537 creating build/bdist.linux-armv7l/wheel/sequana/resources/busco 2021-04-09T21:03:52,539 copying build/lib/sequana/resources/busco/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/busco 2021-04-09T21:03:52,542 copying build/lib/sequana/resources/busco/config.ini -> build/bdist.linux-armv7l/wheel/sequana/resources/busco 2021-04-09T21:03:52,546 creating build/bdist.linux-armv7l/wheel/sequana/resources/templates 2021-04-09T21:03:52,547 copying build/lib/sequana/resources/templates/joint_calling.html -> build/bdist.linux-armv7l/wheel/sequana/resources/templates 2021-04-09T21:03:52,550 copying build/lib/sequana/resources/templates/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/templates 2021-04-09T21:03:52,553 copying build/lib/sequana/resources/templates/base.html -> build/bdist.linux-armv7l/wheel/sequana/resources/templates 2021-04-09T21:03:52,556 copying build/lib/sequana/resources/templates/rnadiff_light_template.R -> build/bdist.linux-armv7l/wheel/sequana/resources/templates 2021-04-09T21:03:52,559 copying build/lib/sequana/resources/templates/standard.html -> build/bdist.linux-armv7l/wheel/sequana/resources/templates 2021-04-09T21:03:52,562 copying build/lib/sequana/resources/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources 2021-04-09T21:03:52,565 creating build/bdist.linux-armv7l/wheel/sequana/resources/images 2021-04-09T21:03:52,567 copying build/lib/sequana/resources/images/no_data.jpg -> build/bdist.linux-armv7l/wheel/sequana/resources/images 2021-04-09T21:03:52,570 copying build/lib/sequana/resources/images/no_data.png -> build/bdist.linux-armv7l/wheel/sequana/resources/images 2021-04-09T21:03:52,573 copying build/lib/sequana/resources/images/Institut_Pasteur.png -> build/bdist.linux-armv7l/wheel/sequana/resources/images 2021-04-09T21:03:52,577 copying build/lib/sequana/resources/images/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/images 2021-04-09T21:03:52,580 creating build/bdist.linux-armv7l/wheel/sequana/resources/css 2021-04-09T21:03:52,582 copying build/lib/sequana/resources/css/jquery.dropdown.min.css -> build/bdist.linux-armv7l/wheel/sequana/resources/css 2021-04-09T21:03:52,585 copying build/lib/sequana/resources/css/bootstrap.min.css -> build/bdist.linux-armv7l/wheel/sequana/resources/css 2021-04-09T21:03:52,595 copying build/lib/sequana/resources/css/jquery.dataTables.min.css -> build/bdist.linux-armv7l/wheel/sequana/resources/css 2021-04-09T21:03:52,598 copying build/lib/sequana/resources/css/buttons.dataTables.min.css -> build/bdist.linux-armv7l/wheel/sequana/resources/css 2021-04-09T21:03:52,601 copying build/lib/sequana/resources/css/report.css -> build/bdist.linux-armv7l/wheel/sequana/resources/css 2021-04-09T21:03:52,604 copying build/lib/sequana/resources/css/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/css 2021-04-09T21:03:52,608 creating build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,609 copying build/lib/sequana/resources/js/bootstrap.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,614 copying build/lib/sequana/resources/js/buttons.html5.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,617 copying build/lib/sequana/resources/js/jquery-3.2.1.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,624 copying build/lib/sequana/resources/js/buttons.print.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,627 copying build/lib/sequana/resources/js/papaparse.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,630 copying build/lib/sequana/resources/js/jquery.dropdown.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,632 copying build/lib/sequana/resources/js/jquery.dataTables.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,638 copying build/lib/sequana/resources/js/canvasjs.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,648 copying build/lib/sequana/resources/js/jquery-3.5.1.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,654 copying build/lib/sequana/resources/js/jquery-2.1.1.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,665 copying build/lib/sequana/resources/js/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,667 copying build/lib/sequana/resources/js/jquery.tocPlugin.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,669 copying build/lib/sequana/resources/js/jquery-3.1.1.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,674 copying build/lib/sequana/resources/js/dataTables.buttons.min.js -> build/bdist.linux-armv7l/wheel/sequana/resources/js 2021-04-09T21:03:52,677 copying build/lib/sequana/vcftools.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,679 copying build/lib/sequana/vst.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,681 copying build/lib/sequana/errors.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,683 copying build/lib/sequana/protein.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,686 copying build/lib/sequana/krona.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,688 copying build/lib/sequana/taxonomy.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,691 copying build/lib/sequana/bed.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,694 copying build/lib/sequana/pipelines_common.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,698 copying build/lib/sequana/trf.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,701 copying build/lib/sequana/laa.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,704 copying build/lib/sequana/cnv.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,706 copying build/lib/sequana/datatools.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,710 copying build/lib/sequana/canu_scanner.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,713 copying build/lib/sequana/cpg_islands.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,715 copying build/lib/sequana/tools.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,719 creating build/bdist.linux-armv7l/wheel/sequana/plots 2021-04-09T21:03:52,720 copying build/lib/sequana/plots/canvasjs_linegraph.py -> build/bdist.linux-armv7l/wheel/sequana/plots 2021-04-09T21:03:52,724 copying build/lib/sequana/plots/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/plots 2021-04-09T21:03:52,726 copying build/lib/sequana/plots/canvasjs_base.py -> build/bdist.linux-armv7l/wheel/sequana/plots 2021-04-09T21:03:52,729 copying build/lib/sequana/coverage.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,733 creating build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,734 copying build/lib/sequana/gui/about.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,737 copying build/lib/sequana/gui/browser.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,740 copying build/lib/sequana/gui/messages.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,743 copying build/lib/sequana/gui/ui_mainwindow.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,748 copying build/lib/sequana/gui/tools.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,751 copying build/lib/sequana/gui/sequana_gui.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,756 copying build/lib/sequana/gui/ui_preferences.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,759 copying build/lib/sequana/gui/snakemake.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,762 copying build/lib/sequana/gui/ipython.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,765 copying build/lib/sequana/gui/widgets.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,768 copying build/lib/sequana/gui/preferences.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,771 copying build/lib/sequana/gui/help.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,773 copying build/lib/sequana/gui/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,775 copying build/lib/sequana/gui/file_browser.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,778 copying build/lib/sequana/gui/ui_help.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,781 copying build/lib/sequana/gui/ui_snakemake.py -> build/bdist.linux-armv7l/wheel/sequana/gui 2021-04-09T21:03:52,784 copying build/lib/sequana/iuapc.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,786 copying build/lib/sequana/find_motif.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,790 creating build/bdist.linux-armv7l/wheel/sequana/utils 2021-04-09T21:03:52,791 copying build/lib/sequana/utils/datatables_js.py -> build/bdist.linux-armv7l/wheel/sequana/utils 2021-04-09T21:03:52,795 copying build/lib/sequana/utils/tree.py -> build/bdist.linux-armv7l/wheel/sequana/utils 2021-04-09T21:03:52,797 copying build/lib/sequana/utils/config.py -> build/bdist.linux-armv7l/wheel/sequana/utils 2021-04-09T21:03:52,800 copying build/lib/sequana/utils/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/utils 2021-04-09T21:03:52,802 copying build/lib/sequana/utils/df2html.py -> build/bdist.linux-armv7l/wheel/sequana/utils 2021-04-09T21:03:52,804 copying build/lib/sequana/snaketools.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,809 copying build/lib/sequana/genbank.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,812 copying build/lib/sequana/phred.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,815 copying build/lib/sequana/itol.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,818 copying build/lib/sequana/gff3.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,822 copying build/lib/sequana/iotools.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,824 copying build/lib/sequana/stats.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,827 copying build/lib/sequana/lazyimports.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,830 copying build/lib/sequana/pacbio.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,834 copying build/lib/sequana/mh.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,838 creating build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,839 copying build/lib/sequana/scripts/taxonomy.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,842 copying build/lib/sequana/scripts/browser.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,845 copying build/lib/sequana/scripts/tools.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,848 copying build/lib/sequana/scripts/coverage.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,851 copying build/lib/sequana/scripts/bam_splitter.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,854 copying build/lib/sequana/scripts/compressor.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,857 copying build/lib/sequana/scripts/substractor.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,860 copying build/lib/sequana/scripts/fixR1R2.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,863 copying build/lib/sequana/scripts/vcf_filter.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,866 copying build/lib/sequana/scripts/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,868 copying build/lib/sequana/scripts/mapping.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,871 copying build/lib/sequana/scripts/lane_merging.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,875 copying build/lib/sequana/scripts/start_pipeline.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,877 copying build/lib/sequana/scripts/main.py -> build/bdist.linux-armv7l/wheel/sequana/scripts 2021-04-09T21:03:52,881 copying build/lib/sequana/sequence.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,886 creating build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,887 copying build/lib/sequana/multiqc/kraken.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,890 copying build/lib/sequana/multiqc/laa.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,893 copying build/lib/sequana/multiqc/pacbio_qc.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,896 copying build/lib/sequana/multiqc/coverage.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,899 copying build/lib/sequana/multiqc/bamtools_stats.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,903 copying build/lib/sequana/multiqc/pacbio_amplicon.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,906 copying build/lib/sequana/multiqc/isoseq_qc.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,909 copying build/lib/sequana/multiqc/quality_control.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,912 copying build/lib/sequana/multiqc/multiqc_config.yaml -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,915 copying build/lib/sequana/multiqc/config.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,917 copying build/lib/sequana/multiqc/isoseq.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,920 copying build/lib/sequana/multiqc/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,923 copying build/lib/sequana/multiqc/plots.py -> build/bdist.linux-armv7l/wheel/sequana/multiqc 2021-04-09T21:03:52,925 copying build/lib/sequana/fastq.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,930 copying build/lib/sequana/assembly.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,933 copying build/lib/sequana/rnadiff.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,937 copying build/lib/sequana/gtf.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,940 copying build/lib/sequana/pacbio_amplicon.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,943 copying build/lib/sequana/kraken_builder.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,947 copying build/lib/sequana/freebayes_vcf_filter.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,950 copying build/lib/sequana/jsontool.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,953 copying build/lib/sequana/fastqc.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,956 copying build/lib/sequana/summary.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,959 copying build/lib/sequana/bedtools.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,964 copying build/lib/sequana/chipseq.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:52,969 creating build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,970 copying build/lib/sequana/viz/linkage.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,973 copying build/lib/sequana/viz/venn.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,976 copying build/lib/sequana/viz/heatmap.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,980 copying build/lib/sequana/viz/imshow.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,982 copying build/lib/sequana/viz/plotly.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,985 copying build/lib/sequana/viz/mds.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,988 copying build/lib/sequana/viz/corrplot.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,991 copying build/lib/sequana/viz/pca.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,994 copying build/lib/sequana/viz/volcano.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,997 copying build/lib/sequana/viz/scatter.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:52,999 copying build/lib/sequana/viz/dendogram.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:53,002 copying build/lib/sequana/viz/hist2d.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:53,005 copying build/lib/sequana/viz/core.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:53,008 copying build/lib/sequana/viz/isomap.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:53,010 copying build/lib/sequana/viz/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:53,013 copying build/lib/sequana/viz/boxplot.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:53,015 copying build/lib/sequana/viz/clusterisation.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:53,018 copying build/lib/sequana/viz/hinton.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:53,021 copying build/lib/sequana/viz/anova.py -> build/bdist.linux-armv7l/wheel/sequana/viz 2021-04-09T21:03:53,023 copying build/lib/sequana/vcf_filter.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,027 creating build/bdist.linux-armv7l/wheel/sequana/sphinxext 2021-04-09T21:03:53,029 copying build/lib/sequana/sphinxext/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/sphinxext 2021-04-09T21:03:53,031 copying build/lib/sequana/sphinxext/sequana_pipeline.py -> build/bdist.linux-armv7l/wheel/sequana/sphinxext 2021-04-09T21:03:53,033 copying build/lib/sequana/sphinxext/snakemakerule.py -> build/bdist.linux-armv7l/wheel/sequana/sphinxext 2021-04-09T21:03:53,035 copying build/lib/sequana/bamtools.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,040 copying build/lib/sequana/enrichment.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,044 copying build/lib/sequana/demultiplex.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,046 copying build/lib/sequana/isoseq.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,050 copying build/lib/sequana/__init__.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,052 copying build/lib/sequana/misc.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,054 copying build/lib/sequana/contigs.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,057 copying build/lib/sequana/featurecounts.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,060 copying build/lib/sequana/cigar.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,062 copying build/lib/sequana/mixture.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,065 copying build/lib/sequana/iem.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,068 copying build/lib/sequana/annotations.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,070 copying build/lib/sequana/lazy.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,074 creating build/bdist.linux-armv7l/wheel/sequana/rules 2021-04-09T21:03:53,076 creating build/bdist.linux-armv7l/wheel/sequana/rules/sambamba 2021-04-09T21:03:53,078 creating build/bdist.linux-armv7l/wheel/sequana/rules/sambamba/sambamba_filter 2021-04-09T21:03:53,079 copying build/lib/sequana/rules/sambamba/sambamba_filter/sambamba_filter.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/sambamba/sambamba_filter 2021-04-09T21:03:53,082 creating build/bdist.linux-armv7l/wheel/sequana/rules/sambamba/sambamba_markdup 2021-04-09T21:03:53,083 copying build/lib/sequana/rules/sambamba/sambamba_markdup/sambamba_markdup.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/sambamba/sambamba_markdup 2021-04-09T21:03:53,086 copying build/lib/sequana/rules/sambamba/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/sambamba 2021-04-09T21:03:53,088 creating build/bdist.linux-armv7l/wheel/sequana/rules/bowtie2_mapping_dynamic 2021-04-09T21:03:53,089 copying build/lib/sequana/rules/bowtie2_mapping_dynamic/bowtie2_mapping_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bowtie2_mapping_dynamic 2021-04-09T21:03:53,092 creating build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller 2021-04-09T21:03:53,094 creating build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller/joint_freebayes 2021-04-09T21:03:53,095 copying build/lib/sequana/rules/Variant_caller/joint_freebayes/joint_freebayes.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller/joint_freebayes 2021-04-09T21:03:53,098 creating build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller/joint_freebayes_vcf_filter 2021-04-09T21:03:53,099 copying build/lib/sequana/rules/Variant_caller/joint_freebayes_vcf_filter/joint_freebayes_vcf_filter.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller/joint_freebayes_vcf_filter 2021-04-09T21:03:53,102 creating build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller/freebayes_bcf_filter 2021-04-09T21:03:53,103 copying build/lib/sequana/rules/Variant_caller/freebayes_bcf_filter/freebayes_bcf_filter.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller/freebayes_bcf_filter 2021-04-09T21:03:53,107 creating build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller/freebayes_vcf_filter 2021-04-09T21:03:53,108 copying build/lib/sequana/rules/Variant_caller/freebayes_vcf_filter/freebayes_vcf_filter.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller/freebayes_vcf_filter 2021-04-09T21:03:53,111 creating build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller/freebayes 2021-04-09T21:03:53,112 copying build/lib/sequana/rules/Variant_caller/freebayes/freebayes.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller/freebayes 2021-04-09T21:03:53,115 copying build/lib/sequana/rules/Variant_caller/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/Variant_caller 2021-04-09T21:03:53,118 creating build/bdist.linux-armv7l/wheel/sequana/rules/idr 2021-04-09T21:03:53,119 creating build/bdist.linux-armv7l/wheel/sequana/rules/idr/preIDR_dynamic 2021-04-09T21:03:53,121 copying build/lib/sequana/rules/idr/preIDR_dynamic/preIDR_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/idr/preIDR_dynamic 2021-04-09T21:03:53,124 creating build/bdist.linux-armv7l/wheel/sequana/rules/idr/select_peaks 2021-04-09T21:03:53,125 copying build/lib/sequana/rules/idr/select_peaks/select_peaks.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/idr/select_peaks 2021-04-09T21:03:53,129 creating build/bdist.linux-armv7l/wheel/sequana/rules/idr/metrics_peaks 2021-04-09T21:03:53,130 copying build/lib/sequana/rules/idr/metrics_peaks/metrics_peaks.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/idr/metrics_peaks 2021-04-09T21:03:53,133 creating build/bdist.linux-armv7l/wheel/sequana/rules/idr/stats_peakCalling 2021-04-09T21:03:53,134 copying build/lib/sequana/rules/idr/stats_peakCalling/stats_peakCalling.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/idr/stats_peakCalling 2021-04-09T21:03:53,137 creating build/bdist.linux-armv7l/wheel/sequana/rules/idr/intersectionApproach 2021-04-09T21:03:53,138 copying build/lib/sequana/rules/idr/intersectionApproach/intersectionApproach.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/idr/intersectionApproach 2021-04-09T21:03:53,141 creating build/bdist.linux-armv7l/wheel/sequana/rules/idr/compute_idr 2021-04-09T21:03:53,142 copying build/lib/sequana/rules/idr/compute_idr/compute_idr.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/idr/compute_idr 2021-04-09T21:03:53,145 creating build/bdist.linux-armv7l/wheel/sequana/rules/idr/union_peaks 2021-04-09T21:03:53,147 copying build/lib/sequana/rules/idr/union_peaks/union_peaks.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/idr/union_peaks 2021-04-09T21:03:53,149 copying build/lib/sequana/rules/idr/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/idr 2021-04-09T21:03:53,152 creating build/bdist.linux-armv7l/wheel/sequana/rules/Pacbio 2021-04-09T21:03:53,153 copying build/lib/sequana/rules/Pacbio/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/Pacbio 2021-04-09T21:03:53,156 creating build/bdist.linux-armv7l/wheel/sequana/rules/Utils 2021-04-09T21:03:53,158 creating build/bdist.linux-armv7l/wheel/sequana/rules/Utils/dynamic_unpigz 2021-04-09T21:03:53,159 copying build/lib/sequana/rules/Utils/dynamic_unpigz/dynamic_unpigz.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Utils/dynamic_unpigz 2021-04-09T21:03:53,162 creating build/bdist.linux-armv7l/wheel/sequana/rules/Utils/dynamic_copy 2021-04-09T21:03:53,163 copying build/lib/sequana/rules/Utils/dynamic_copy/dynamic_copy.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Utils/dynamic_copy 2021-04-09T21:03:53,166 creating build/bdist.linux-armv7l/wheel/sequana/rules/Utils/dynamic_vcf_to_bcf 2021-04-09T21:03:53,167 copying build/lib/sequana/rules/Utils/dynamic_vcf_to_bcf/dynamic_vcf_to_bcf.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Utils/dynamic_vcf_to_bcf 2021-04-09T21:03:53,170 copying build/lib/sequana/rules/Utils/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/Utils 2021-04-09T21:03:53,172 creating build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools 2021-04-09T21:03:53,174 creating build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools/reorderSam 2021-04-09T21:03:53,175 copying build/lib/sequana/rules/picard-tools/reorderSam/reorderSam.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools/reorderSam 2021-04-09T21:03:53,178 creating build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools/add_read_group 2021-04-09T21:03:53,179 copying build/lib/sequana/rules/picard-tools/add_read_group/add_read_group.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools/add_read_group 2021-04-09T21:03:53,182 creating build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools/mark_duplicates_dynamic 2021-04-09T21:03:53,183 copying build/lib/sequana/rules/picard-tools/mark_duplicates_dynamic/mark_duplicates_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools/mark_duplicates_dynamic 2021-04-09T21:03:53,187 creating build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools/create_sequence_dictionary 2021-04-09T21:03:53,188 copying build/lib/sequana/rules/picard-tools/create_sequence_dictionary/create_sequence_dictionary.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools/create_sequence_dictionary 2021-04-09T21:03:53,191 creating build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools/CollectInsertSizeMetrics 2021-04-09T21:03:53,192 copying build/lib/sequana/rules/picard-tools/CollectInsertSizeMetrics/CollectInsertSizeMetrics.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools/CollectInsertSizeMetrics 2021-04-09T21:03:53,194 copying build/lib/sequana/rules/picard-tools/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/picard-tools 2021-04-09T21:03:53,197 creating build/bdist.linux-armv7l/wheel/sequana/rules/fastq_sampling 2021-04-09T21:03:53,198 copying build/lib/sequana/rules/fastq_sampling/fastq_sampling.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/fastq_sampling 2021-04-09T21:03:53,201 creating build/bdist.linux-armv7l/wheel/sequana/rules/fastq_screen 2021-04-09T21:03:53,202 copying build/lib/sequana/rules/fastq_screen/fastq_screen.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/fastq_screen 2021-04-09T21:03:53,205 creating build/bdist.linux-armv7l/wheel/sequana/rules/bam_analysis 2021-04-09T21:03:53,206 copying build/lib/sequana/rules/bam_analysis/bam_analysis.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bam_analysis 2021-04-09T21:03:53,209 creating build/bdist.linux-armv7l/wheel/sequana/rules/remove_blacklist 2021-04-09T21:03:53,210 copying build/lib/sequana/rules/remove_blacklist/remove_blacklist.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/remove_blacklist 2021-04-09T21:03:53,214 creating build/bdist.linux-armv7l/wheel/sequana/rules/dag 2021-04-09T21:03:53,215 copying build/lib/sequana/rules/dag/dag.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/dag 2021-04-09T21:03:53,218 creating build/bdist.linux-armv7l/wheel/sequana/rules/conda 2021-04-09T21:03:53,219 copying build/lib/sequana/rules/conda/conda.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/conda 2021-04-09T21:03:53,222 creating build/bdist.linux-armv7l/wheel/sequana/rules/fastq_stats_dynamic 2021-04-09T21:03:53,223 copying build/lib/sequana/rules/fastq_stats_dynamic/fastq_stats_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/fastq_stats_dynamic 2021-04-09T21:03:53,227 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs 2021-04-09T21:03:53,229 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/fastq_to_dsrc 2021-04-09T21:03:53,230 copying build/lib/sequana/rules/codecs/fastq_to_dsrc/fastq_to_dsrc.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/fastq_to_dsrc 2021-04-09T21:03:53,233 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/dsrc_to_fastq 2021-04-09T21:03:53,234 copying build/lib/sequana/rules/codecs/dsrc_to_fastq/dsrc_to_fastq.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/dsrc_to_fastq 2021-04-09T21:03:53,238 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/bz2_to_gz 2021-04-09T21:03:53,239 copying build/lib/sequana/rules/codecs/bz2_to_gz/bz2_to_gz.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/bz2_to_gz 2021-04-09T21:03:53,242 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/bz2_to_fastq 2021-04-09T21:03:53,243 copying build/lib/sequana/rules/codecs/bz2_to_fastq/bz2_to_fastq.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/bz2_to_fastq 2021-04-09T21:03:53,247 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/gz_to_dsrc 2021-04-09T21:03:53,248 copying build/lib/sequana/rules/codecs/gz_to_dsrc/gz_to_dsrc.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/gz_to_dsrc 2021-04-09T21:03:53,252 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/gz_to_bz2 2021-04-09T21:03:53,254 copying build/lib/sequana/rules/codecs/gz_to_bz2/gz_to_bz2.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/gz_to_bz2 2021-04-09T21:03:53,257 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/dsrc_to_bz2 2021-04-09T21:03:53,258 copying build/lib/sequana/rules/codecs/dsrc_to_bz2/dsrc_to_bz2.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/dsrc_to_bz2 2021-04-09T21:03:53,262 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/gz_to_fastq 2021-04-09T21:03:53,263 copying build/lib/sequana/rules/codecs/gz_to_fastq/gz_to_fastq.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/gz_to_fastq 2021-04-09T21:03:53,266 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/dsrc_to_gz 2021-04-09T21:03:53,268 copying build/lib/sequana/rules/codecs/dsrc_to_gz/dsrc_to_gz.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/dsrc_to_gz 2021-04-09T21:03:53,271 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/fastq_to_gz 2021-04-09T21:03:53,272 copying build/lib/sequana/rules/codecs/fastq_to_gz/fastq_to_gz.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/fastq_to_gz 2021-04-09T21:03:53,276 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/bz2_to_dsrc 2021-04-09T21:03:53,277 copying build/lib/sequana/rules/codecs/bz2_to_dsrc/bz2_to_dsrc.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/bz2_to_dsrc 2021-04-09T21:03:53,280 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/fastq_to_bz2 2021-04-09T21:03:53,281 copying build/lib/sequana/rules/codecs/fastq_to_bz2/fastq_to_bz2.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/fastq_to_bz2 2021-04-09T21:03:53,284 copying build/lib/sequana/rules/codecs/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs 2021-04-09T21:03:53,287 creating build/bdist.linux-armv7l/wheel/sequana/rules/codecs/bam_to_fasta 2021-04-09T21:03:53,288 copying build/lib/sequana/rules/codecs/bam_to_fasta/bam_to_fasta.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/codecs/bam_to_fasta 2021-04-09T21:03:53,291 creating build/bdist.linux-armv7l/wheel/sequana/rules/DupRadar 2021-04-09T21:03:53,292 copying build/lib/sequana/rules/DupRadar/DupRadar.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/DupRadar 2021-04-09T21:03:53,296 creating build/bdist.linux-armv7l/wheel/sequana/rules/preSARTools 2021-04-09T21:03:53,297 copying build/lib/sequana/rules/preSARTools/preSARTools.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/preSARTools 2021-04-09T21:03:53,300 creating build/bdist.linux-armv7l/wheel/sequana/rules/bowtie2_index_dynamic 2021-04-09T21:03:53,301 copying build/lib/sequana/rules/bowtie2_index_dynamic/bowtie2_index_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bowtie2_index_dynamic 2021-04-09T21:03:53,304 creating build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff 2021-04-09T21:03:53,306 creating build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff_create_database 2021-04-09T21:03:53,307 copying build/lib/sequana/rules/SnpEff/snpeff_create_database/snpeff_create_database.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff_create_database 2021-04-09T21:03:53,310 creating build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff_dynamic 2021-04-09T21:03:53,311 copying build/lib/sequana/rules/SnpEff/snpeff_dynamic/snpeff_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff_dynamic 2021-04-09T21:03:53,315 creating build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff_add_locus_in_fasta 2021-04-09T21:03:53,317 creating build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.0 2021-04-09T21:03:53,318 copying build/lib/sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.0/snpeff_add_locus_in_fasta.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.0 2021-04-09T21:03:53,322 creating build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.1 2021-04-09T21:03:53,323 copying build/lib/sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.1/snpeff_add_locus_in_fasta.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.1 2021-04-09T21:03:53,326 creating build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff 2021-04-09T21:03:53,328 creating build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff/1.0 2021-04-09T21:03:53,329 copying build/lib/sequana/rules/SnpEff/snpeff/1.0/snpeff.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff/1.0 2021-04-09T21:03:53,333 creating build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff/1.1 2021-04-09T21:03:53,334 copying build/lib/sequana/rules/SnpEff/snpeff/1.1/snpeff.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff/snpeff/1.1 2021-04-09T21:03:53,336 copying build/lib/sequana/rules/SnpEff/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/SnpEff 2021-04-09T21:03:53,339 creating build/bdist.linux-armv7l/wheel/sequana/rules/extract_fasta_from_bed 2021-04-09T21:03:53,340 copying build/lib/sequana/rules/extract_fasta_from_bed/extract_fasta_from_bed.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/extract_fasta_from_bed 2021-04-09T21:03:53,344 creating build/bdist.linux-armv7l/wheel/sequana/rules/prokka 2021-04-09T21:03:53,345 copying build/lib/sequana/rules/prokka/prokka.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/prokka 2021-04-09T21:03:53,348 creating build/bdist.linux-armv7l/wheel/sequana/rules/indel_realigner 2021-04-09T21:03:53,349 copying build/lib/sequana/rules/indel_realigner/indel_realigner.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/indel_realigner 2021-04-09T21:03:53,353 creating build/bdist.linux-armv7l/wheel/sequana/rules/salmon_index 2021-04-09T21:03:53,354 copying build/lib/sequana/rules/salmon_index/salmon_index.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/salmon_index 2021-04-09T21:03:53,357 creating build/bdist.linux-armv7l/wheel/sequana/rules/summary_pipeline 2021-04-09T21:03:53,358 copying build/lib/sequana/rules/summary_pipeline/summary_pipeline.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/summary_pipeline 2021-04-09T21:03:53,361 creating build/bdist.linux-armv7l/wheel/sequana/rules/revcomp_rule 2021-04-09T21:03:53,362 copying build/lib/sequana/rules/revcomp_rule/revcomp_rule.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/revcomp_rule 2021-04-09T21:03:53,366 creating build/bdist.linux-armv7l/wheel/sequana/rules/bam_quality_filter 2021-04-09T21:03:53,367 copying build/lib/sequana/rules/bam_quality_filter/bam_quality_filter.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bam_quality_filter 2021-04-09T21:03:53,370 creating build/bdist.linux-armv7l/wheel/sequana/rules/fastp 2021-04-09T21:03:53,371 copying build/lib/sequana/rules/fastp/fastp.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/fastp 2021-04-09T21:03:53,375 creating build/bdist.linux-armv7l/wheel/sequana/rules/feature_counts 2021-04-09T21:03:53,376 copying build/lib/sequana/rules/feature_counts/feature_counts.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/feature_counts 2021-04-09T21:03:53,380 creating build/bdist.linux-armv7l/wheel/sequana/rules/rnaseqc 2021-04-09T21:03:53,381 copying build/lib/sequana/rules/rnaseqc/rnaseqc.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/rnaseqc 2021-04-09T21:03:53,384 creating build/bdist.linux-armv7l/wheel/sequana/rules/pacbio_quality 2021-04-09T21:03:53,385 copying build/lib/sequana/rules/pacbio_quality/pacbio_quality.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/pacbio_quality 2021-04-09T21:03:53,389 creating build/bdist.linux-armv7l/wheel/sequana/rules/bed_to_gff 2021-04-09T21:03:53,390 copying build/lib/sequana/rules/bed_to_gff/bed_to_gff.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bed_to_gff 2021-04-09T21:03:53,394 creating build/bdist.linux-armv7l/wheel/sequana/rules/multiqc 2021-04-09T21:03:53,395 creating build/bdist.linux-armv7l/wheel/sequana/rules/multiqc/2.0 2021-04-09T21:03:53,397 copying build/lib/sequana/rules/multiqc/2.0/multiqc.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/multiqc/2.0 2021-04-09T21:03:53,400 copying build/lib/sequana/rules/multiqc/multiqc.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/multiqc 2021-04-09T21:03:53,403 creating build/bdist.linux-armv7l/wheel/sequana/rules/bwa_bam_to_fastq 2021-04-09T21:03:53,404 copying build/lib/sequana/rules/bwa_bam_to_fastq/bwa_bam_to_fastq.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bwa_bam_to_fastq 2021-04-09T21:03:53,408 creating build/bdist.linux-armv7l/wheel/sequana/rules/kraken 2021-04-09T21:03:53,409 creating build/bdist.linux-armv7l/wheel/sequana/rules/kraken/1.0 2021-04-09T21:03:53,411 copying build/lib/sequana/rules/kraken/1.0/kraken.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/kraken/1.0 2021-04-09T21:03:53,414 creating build/bdist.linux-armv7l/wheel/sequana/rules/kraken/1.1 2021-04-09T21:03:53,415 copying build/lib/sequana/rules/kraken/1.1/kraken.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/kraken/1.1 2021-04-09T21:03:53,420 creating build/bdist.linux-armv7l/wheel/sequana/rules/bowtie1_index_dynamic 2021-04-09T21:03:53,421 copying build/lib/sequana/rules/bowtie1_index_dynamic/bowtie1_index_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bowtie1_index_dynamic 2021-04-09T21:03:53,424 creating build/bdist.linux-armv7l/wheel/sequana/rules/spikes_counting 2021-04-09T21:03:53,425 copying build/lib/sequana/rules/spikes_counting/spikes_counting.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/spikes_counting 2021-04-09T21:03:53,429 creating build/bdist.linux-armv7l/wheel/sequana/rules/sequana_coverage 2021-04-09T21:03:53,430 copying build/lib/sequana/rules/sequana_coverage/sequana_coverage.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/sequana_coverage 2021-04-09T21:03:53,435 creating build/bdist.linux-armv7l/wheel/sequana/rules/chipuanar 2021-04-09T21:03:53,436 copying build/lib/sequana/rules/chipuanar/chipuanar.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/chipuanar 2021-04-09T21:03:53,440 creating build/bdist.linux-armv7l/wheel/sequana/rules/star_mapping 2021-04-09T21:03:53,441 copying build/lib/sequana/rules/star_mapping/star_mapping.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/star_mapping 2021-04-09T21:03:53,444 creating build/bdist.linux-armv7l/wheel/sequana/rules/multiqc2 2021-04-09T21:03:53,445 copying build/lib/sequana/rules/multiqc2/multiqc2.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/multiqc2 2021-04-09T21:03:53,449 creating build/bdist.linux-armv7l/wheel/sequana/rules/bamCoverage 2021-04-09T21:03:53,450 copying build/lib/sequana/rules/bamCoverage/bamCoverage.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bamCoverage 2021-04-09T21:03:53,454 creating build/bdist.linux-armv7l/wheel/sequana/rules/Assembly 2021-04-09T21:03:53,456 creating build/bdist.linux-armv7l/wheel/sequana/rules/Assembly/busco_analysis 2021-04-09T21:03:53,457 copying build/lib/sequana/rules/Assembly/busco_analysis/busco_analysis.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Assembly/busco_analysis 2021-04-09T21:03:53,461 creating build/bdist.linux-armv7l/wheel/sequana/rules/Assembly/busco 2021-04-09T21:03:53,462 copying build/lib/sequana/rules/Assembly/busco/busco.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Assembly/busco 2021-04-09T21:03:53,465 copying build/lib/sequana/rules/Assembly/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/Assembly 2021-04-09T21:03:53,469 creating build/bdist.linux-armv7l/wheel/sequana/rules/Assembly/canu 2021-04-09T21:03:53,470 copying build/lib/sequana/rules/Assembly/canu/canu.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Assembly/canu 2021-04-09T21:03:53,474 creating build/bdist.linux-armv7l/wheel/sequana/rules/Assembly/spades 2021-04-09T21:03:53,475 copying build/lib/sequana/rules/Assembly/spades/spades.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Assembly/spades 2021-04-09T21:03:53,478 creating build/bdist.linux-armv7l/wheel/sequana/rules/Assembly/spades_get_fastq 2021-04-09T21:03:53,479 copying build/lib/sequana/rules/Assembly/spades_get_fastq/spades_get_fastq.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Assembly/spades_get_fastq 2021-04-09T21:03:53,483 creating build/bdist.linux-armv7l/wheel/sequana/rules/peak_calling 2021-04-09T21:03:53,485 creating build/bdist.linux-armv7l/wheel/sequana/rules/peak_calling/macs2_dynamic 2021-04-09T21:03:53,486 copying build/lib/sequana/rules/peak_calling/macs2_dynamic/macs2_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/peak_calling/macs2_dynamic 2021-04-09T21:03:53,490 creating build/bdist.linux-armv7l/wheel/sequana/rules/rulegraph 2021-04-09T21:03:53,491 copying build/lib/sequana/rules/rulegraph/rulegraph.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/rulegraph 2021-04-09T21:03:53,495 creating build/bdist.linux-armv7l/wheel/sequana/rules/bowtie2_index 2021-04-09T21:03:53,496 copying build/lib/sequana/rules/bowtie2_index/bowtie2_index.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bowtie2_index 2021-04-09T21:03:53,499 creating build/bdist.linux-armv7l/wheel/sequana/rules/spp 2021-04-09T21:03:53,500 copying build/lib/sequana/rules/spp/spp.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/spp 2021-04-09T21:03:53,504 creating build/bdist.linux-armv7l/wheel/sequana/rules/quast 2021-04-09T21:03:53,505 copying build/lib/sequana/rules/quast/quast.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/quast 2021-04-09T21:03:53,508 creating build/bdist.linux-armv7l/wheel/sequana/rules/falco_dynamic 2021-04-09T21:03:53,509 copying build/lib/sequana/rules/falco_dynamic/falco_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/falco_dynamic 2021-04-09T21:03:53,513 creating build/bdist.linux-armv7l/wheel/sequana/rules/copy_multiple_files 2021-04-09T21:03:53,514 copying build/lib/sequana/rules/copy_multiple_files/copy_multiple_files.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/copy_multiple_files 2021-04-09T21:03:53,518 creating build/bdist.linux-armv7l/wheel/sequana/rules/digital_normalisation 2021-04-09T21:03:53,519 copying build/lib/sequana/rules/digital_normalisation/digital_normalisation.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/digital_normalisation 2021-04-09T21:03:53,523 creating build/bdist.linux-armv7l/wheel/sequana/rules/bwa_index 2021-04-09T21:03:53,524 copying build/lib/sequana/rules/bwa_index/bwa_index.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bwa_index 2021-04-09T21:03:53,528 creating build/bdist.linux-armv7l/wheel/sequana/rules/miRNA_count_dynamic 2021-04-09T21:03:53,529 copying build/lib/sequana/rules/miRNA_count_dynamic/miRNA_count_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/miRNA_count_dynamic 2021-04-09T21:03:53,533 creating build/bdist.linux-armv7l/wheel/sequana/rules/format_contigs 2021-04-09T21:03:53,534 copying build/lib/sequana/rules/format_contigs/format_contigs.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/format_contigs 2021-04-09T21:03:53,538 creating build/bdist.linux-armv7l/wheel/sequana/rules/salmon_mapping 2021-04-09T21:03:53,539 copying build/lib/sequana/rules/salmon_mapping/salmon_mapping.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/salmon_mapping 2021-04-09T21:03:53,542 creating build/bdist.linux-armv7l/wheel/sequana/rules/SARTools 2021-04-09T21:03:53,543 copying build/lib/sequana/rules/SARTools/SARTools.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/SARTools 2021-04-09T21:03:53,548 creating build/bdist.linux-armv7l/wheel/sequana/rules/samtools_sort 2021-04-09T21:03:53,549 copying build/lib/sequana/rules/samtools_sort/samtools_sort.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/samtools_sort 2021-04-09T21:03:53,552 copying build/lib/sequana/rules/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules 2021-04-09T21:03:53,554 creating build/bdist.linux-armv7l/wheel/sequana/rules/fastq_screen_report 2021-04-09T21:03:53,555 copying build/lib/sequana/rules/fastq_screen_report/fastq_screen_report.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/fastq_screen_report 2021-04-09T21:03:53,559 copying build/lib/sequana/rules/README.rst -> build/bdist.linux-armv7l/wheel/sequana/rules 2021-04-09T21:03:53,562 creating build/bdist.linux-armv7l/wheel/sequana/rules/fastqc_dynamic 2021-04-09T21:03:53,563 copying build/lib/sequana/rules/fastqc_dynamic/fastqc_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/fastqc_dynamic 2021-04-09T21:03:53,567 creating build/bdist.linux-armv7l/wheel/sequana/rules/tophat_mapping 2021-04-09T21:03:53,569 copying build/lib/sequana/rules/tophat_mapping/tophat_mapping.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/tophat_mapping 2021-04-09T21:03:53,573 creating build/bdist.linux-armv7l/wheel/sequana/rules/Adapters 2021-04-09T21:03:53,575 creating build/bdist.linux-armv7l/wheel/sequana/rules/Adapters/alien_trimmer 2021-04-09T21:03:53,576 copying build/lib/sequana/rules/Adapters/alien_trimmer/alien_trimmer.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Adapters/alien_trimmer 2021-04-09T21:03:53,579 creating build/bdist.linux-armv7l/wheel/sequana/rules/Adapters/cutadapt 2021-04-09T21:03:53,581 copying build/lib/sequana/rules/Adapters/cutadapt/cutadapt.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Adapters/cutadapt 2021-04-09T21:03:53,585 creating build/bdist.linux-armv7l/wheel/sequana/rules/Adapters/adapter_removal 2021-04-09T21:03:53,586 copying build/lib/sequana/rules/Adapters/adapter_removal/adapter_removal.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Adapters/adapter_removal 2021-04-09T21:03:53,589 copying build/lib/sequana/rules/Adapters/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/Adapters 2021-04-09T21:03:53,592 creating build/bdist.linux-armv7l/wheel/sequana/rules/Adapters/identify_adapters 2021-04-09T21:03:53,593 copying build/lib/sequana/rules/Adapters/identify_adapters/identify_adapters.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/Adapters/identify_adapters 2021-04-09T21:03:53,597 creating build/bdist.linux-armv7l/wheel/sequana/rules/bowtie1_mapping_dynamic 2021-04-09T21:03:53,598 copying build/lib/sequana/rules/bowtie1_mapping_dynamic/bowtie1_mapping_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bowtie1_mapping_dynamic 2021-04-09T21:03:53,602 creating build/bdist.linux-armv7l/wheel/sequana/rules/feature_counts_dynamic 2021-04-09T21:03:53,603 copying build/lib/sequana/rules/feature_counts_dynamic/feature_counts_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/feature_counts_dynamic 2021-04-09T21:03:53,607 creating build/bdist.linux-armv7l/wheel/sequana/rules/samtools_depth 2021-04-09T21:03:53,608 copying build/lib/sequana/rules/samtools_depth/samtools_depth.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/samtools_depth 2021-04-09T21:03:53,612 creating build/bdist.linux-armv7l/wheel/sequana/rules/macs3_dynamic 2021-04-09T21:03:53,613 copying build/lib/sequana/rules/macs3_dynamic/macs3_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/macs3_dynamic 2021-04-09T21:03:53,617 creating build/bdist.linux-armv7l/wheel/sequana/rules/star_index 2021-04-09T21:03:53,618 copying build/lib/sequana/rules/star_index/star_index.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/star_index 2021-04-09T21:03:53,622 creating build/bdist.linux-armv7l/wheel/sequana/rules/bwa_mem_dynamic 2021-04-09T21:03:53,623 copying build/lib/sequana/rules/bwa_mem_dynamic/bwa_mem_dynamic.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/bwa_mem_dynamic 2021-04-09T21:03:53,627 creating build/bdist.linux-armv7l/wheel/sequana/rules/mapping_analysis 2021-04-09T21:03:53,628 copying build/lib/sequana/rules/mapping_analysis/mapping_analysis.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/mapping_analysis 2021-04-09T21:03:53,632 creating build/bdist.linux-armv7l/wheel/sequana/rules/deeptools 2021-04-09T21:03:53,634 creating build/bdist.linux-armv7l/wheel/sequana/rules/deeptools/plotCoverage 2021-04-09T21:03:53,635 copying build/lib/sequana/rules/deeptools/plotCoverage/plotCoverage.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/deeptools/plotCoverage 2021-04-09T21:03:53,639 creating build/bdist.linux-armv7l/wheel/sequana/rules/deeptools/plotCorrelation 2021-04-09T21:03:53,640 copying build/lib/sequana/rules/deeptools/plotCorrelation/plotCorrelation.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/deeptools/plotCorrelation 2021-04-09T21:03:53,644 creating build/bdist.linux-armv7l/wheel/sequana/rules/deeptools/multiBamSummary 2021-04-09T21:03:53,645 copying build/lib/sequana/rules/deeptools/multiBamSummary/multiBamSummary.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/deeptools/multiBamSummary 2021-04-09T21:03:53,649 creating build/bdist.linux-armv7l/wheel/sequana/rules/deeptools/BamPEFragmentSize 2021-04-09T21:03:53,650 copying build/lib/sequana/rules/deeptools/BamPEFragmentSize/BamPEFragmentSize.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/deeptools/BamPEFragmentSize 2021-04-09T21:03:53,653 copying build/lib/sequana/rules/deeptools/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/rules/deeptools 2021-04-09T21:03:53,656 creating build/bdist.linux-armv7l/wheel/sequana/rules/igvtools 2021-04-09T21:03:53,657 copying build/lib/sequana/rules/igvtools/igvtools.rules -> build/bdist.linux-armv7l/wheel/sequana/rules/igvtools 2021-04-09T21:03:53,660 copying build/lib/sequana/adapters.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,665 creating build/bdist.linux-armv7l/wheel/sequana/pipelines 2021-04-09T21:03:53,667 creating build/bdist.linux-armv7l/wheel/sequana/pipelines/compressor 2021-04-09T21:03:53,668 copying build/lib/sequana/pipelines/compressor/cluster_config.json -> build/bdist.linux-armv7l/wheel/sequana/pipelines/compressor 2021-04-09T21:03:53,671 copying build/lib/sequana/pipelines/compressor/schema.yaml -> build/bdist.linux-armv7l/wheel/sequana/pipelines/compressor 2021-04-09T21:03:53,674 copying build/lib/sequana/pipelines/compressor/dag.png -> build/bdist.linux-armv7l/wheel/sequana/pipelines/compressor 2021-04-09T21:03:53,677 copying build/lib/sequana/pipelines/compressor/requirements.txt -> build/bdist.linux-armv7l/wheel/sequana/pipelines/compressor 2021-04-09T21:03:53,680 copying build/lib/sequana/pipelines/compressor/config.yaml -> build/bdist.linux-armv7l/wheel/sequana/pipelines/compressor 2021-04-09T21:03:53,682 copying build/lib/sequana/pipelines/compressor/README.rst -> build/bdist.linux-armv7l/wheel/sequana/pipelines/compressor 2021-04-09T21:03:53,685 copying build/lib/sequana/pipelines/compressor/compressor.rules -> build/bdist.linux-armv7l/wheel/sequana/pipelines/compressor 2021-04-09T21:03:53,688 copying build/lib/sequana/pipelines/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/pipelines 2021-04-09T21:03:53,690 copying build/lib/sequana/busco.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,693 copying build/lib/sequana/compare.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,696 copying build/lib/sequana/salmon.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,699 copying build/lib/sequana/fasta.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,702 copying build/lib/sequana/running_median.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,706 creating build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,708 copying build/lib/sequana/modules_report/kraken.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,711 copying build/lib/sequana/modules_report/trf.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,714 copying build/lib/sequana/modules_report/coverage.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,717 copying build/lib/sequana/modules_report/bwa_bam_to_fastq.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,720 copying build/lib/sequana/modules_report/cutadapt.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,723 copying build/lib/sequana/modules_report/multi_summary.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,728 copying build/lib/sequana/modules_report/base_module.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,731 copying build/lib/sequana/modules_report/variant_calling.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,734 copying build/lib/sequana/modules_report/quast.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,736 copying build/lib/sequana/modules_report/pacbio_input_bam.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,739 copying build/lib/sequana/modules_report/rnadiff.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,742 copying build/lib/sequana/modules_report/fastqc.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,745 copying build/lib/sequana/modules_report/bamqc.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,748 copying build/lib/sequana/modules_report/summary.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,751 copying build/lib/sequana/modules_report/phix.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,754 copying build/lib/sequana/modules_report/joint_calling.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,757 copying build/lib/sequana/modules_report/enrichment.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,760 copying build/lib/sequana/modules_report/__init__.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,762 copying build/lib/sequana/modules_report/fastq_stats.py -> build/bdist.linux-armv7l/wheel/sequana/modules_report 2021-04-09T21:03:53,765 copying build/lib/sequana/sniffer.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,768 copying build/lib/sequana/kmer.py -> build/bdist.linux-armv7l/wheel/sequana 2021-04-09T21:03:53,770 running install_egg_info 2021-04-09T21:03:53,795 running egg_info 2021-04-09T21:03:53,796 writing sequana.egg-info/PKG-INFO 2021-04-09T21:03:53,799 writing dependency_links to sequana.egg-info/dependency_links.txt 2021-04-09T21:03:53,801 writing entry points to sequana.egg-info/entry_points.txt 2021-04-09T21:03:53,803 writing requirements to sequana.egg-info/requires.txt 2021-04-09T21:03:53,804 writing top-level names to sequana.egg-info/top_level.txt 2021-04-09T21:03:53,925 reading manifest file 'sequana.egg-info/SOURCES.txt' 2021-04-09T21:03:53,948 reading manifest template 'MANIFEST.in' 2021-04-09T21:03:53,953 warning: no previously-included files matching '__pycache__' found under directory '*' 2021-04-09T21:03:53,956 warning: no previously-included files matching '*pyc' found under directory '*' 2021-04-09T21:03:55,562 warning: no previously-included files matching '*' found under directory 'sequana/methylation' 2021-04-09T21:03:55,564 warning: no previously-included files matching '*' found under directory 'test' 2021-04-09T21:03:55,566 warning: no previously-included files found matching 'sequana/rm2.py' 2021-04-09T21:03:55,606 writing manifest file 'sequana.egg-info/SOURCES.txt' 2021-04-09T21:03:55,609 Copying sequana.egg-info to build/bdist.linux-armv7l/wheel/sequana-0.11.0-py3.7.egg-info 2021-04-09T21:03:55,628 running install_scripts 2021-04-09T21:03:55,753 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2021-04-09T21:03:55,760 creating build/bdist.linux-armv7l/wheel/sequana-0.11.0.dist-info/WHEEL 2021-04-09T21:03:55,763 creating '/tmp/pip-wheel-bktqany6/sequana-0.11.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-04-09T21:03:55,766 adding 'sequana/__init__.py' 2021-04-09T21:03:55,772 adding 'sequana/adapters.py' 2021-04-09T21:03:55,773 adding 'sequana/annotations.py' 2021-04-09T21:03:55,775 adding 'sequana/assembly.py' 2021-04-09T21:03:55,783 adding 'sequana/bamtools.py' 2021-04-09T21:03:55,785 adding 'sequana/bed.py' 2021-04-09T21:03:55,797 adding 'sequana/bedtools.py' 2021-04-09T21:03:55,800 adding 'sequana/busco.py' 2021-04-09T21:03:55,801 adding 'sequana/canu_scanner.py' 2021-04-09T21:03:55,806 adding 'sequana/chipseq.py' 2021-04-09T21:03:55,808 adding 'sequana/cigar.py' 2021-04-09T21:03:55,810 adding 'sequana/cnv.py' 2021-04-09T21:03:55,812 adding 'sequana/compare.py' 2021-04-09T21:03:55,814 adding 'sequana/contigs.py' 2021-04-09T21:03:55,816 adding 'sequana/coverage.py' 2021-04-09T21:03:55,817 adding 'sequana/cpg_islands.py' 2021-04-09T21:03:55,819 adding 'sequana/criteria.py' 2021-04-09T21:03:55,821 adding 'sequana/databases.py' 2021-04-09T21:03:55,823 adding 'sequana/datatools.py' 2021-04-09T21:03:55,824 adding 'sequana/demultiplex.py' 2021-04-09T21:03:55,832 adding 'sequana/enrichment.py' 2021-04-09T21:03:55,834 adding 'sequana/errors.py' 2021-04-09T21:03:55,836 adding 'sequana/fasta.py' 2021-04-09T21:03:55,841 adding 'sequana/fastq.py' 2021-04-09T21:03:55,843 adding 'sequana/fastqc.py' 2021-04-09T21:03:55,846 adding 'sequana/featurecounts.py' 2021-04-09T21:03:55,847 adding 'sequana/find_motif.py' 2021-04-09T21:03:55,849 adding 'sequana/freebayes_bcf_filter.py' 2021-04-09T21:03:55,852 adding 'sequana/freebayes_vcf_filter.py' 2021-04-09T21:03:55,853 adding 'sequana/genbank.py' 2021-04-09T21:03:55,857 adding 'sequana/gff3.py' 2021-04-09T21:03:55,858 adding 'sequana/gtf.py' 2021-04-09T21:03:55,860 adding 'sequana/iem.py' 2021-04-09T21:03:55,862 adding 'sequana/iotools.py' 2021-04-09T21:03:55,865 adding 'sequana/isoseq.py' 2021-04-09T21:03:55,867 adding 'sequana/itol.py' 2021-04-09T21:03:55,868 adding 'sequana/iuapc.py' 2021-04-09T21:03:55,870 adding 'sequana/jsontool.py' 2021-04-09T21:03:55,871 adding 'sequana/kegg.py' 2021-04-09T21:03:55,872 adding 'sequana/kmer.py' 2021-04-09T21:03:55,880 adding 'sequana/kraken.py' 2021-04-09T21:03:55,885 adding 'sequana/kraken_builder.py' 2021-04-09T21:03:55,886 adding 'sequana/krona.py' 2021-04-09T21:03:55,889 adding 'sequana/laa.py' 2021-04-09T21:03:55,890 adding 'sequana/lazy.py' 2021-04-09T21:03:55,891 adding 'sequana/lazyimports.py' 2021-04-09T21:03:55,893 adding 'sequana/mgi.py' 2021-04-09T21:03:55,895 adding 'sequana/mh.py' 2021-04-09T21:03:55,896 adding 'sequana/misc.py' 2021-04-09T21:03:55,898 adding 'sequana/mixture.py' 2021-04-09T21:03:55,904 adding 'sequana/pacbio.py' 2021-04-09T21:03:55,906 adding 'sequana/pacbio_amplicon.py' 2021-04-09T21:03:55,908 adding 'sequana/phred.py' 2021-04-09T21:03:55,912 adding 'sequana/pipelines_common.py' 2021-04-09T21:03:55,914 adding 'sequana/protein.py' 2021-04-09T21:03:55,919 adding 'sequana/rnadiff.py' 2021-04-09T21:03:55,921 adding 'sequana/running_median.py' 2021-04-09T21:03:55,923 adding 'sequana/salmon.py' 2021-04-09T21:03:55,928 adding 'sequana/sequence.py' 2021-04-09T21:03:55,938 adding 'sequana/snaketools.py' 2021-04-09T21:03:55,940 adding 'sequana/sniffer.py' 2021-04-09T21:03:55,942 adding 'sequana/snpeff.py' 2021-04-09T21:03:55,944 adding 'sequana/stats.py' 2021-04-09T21:03:55,945 adding 'sequana/summary.py' 2021-04-09T21:03:55,948 adding 'sequana/taxonomy.py' 2021-04-09T21:03:55,951 adding 'sequana/tools.py' 2021-04-09T21:03:55,953 adding 'sequana/trf.py' 2021-04-09T21:03:55,955 adding 'sequana/vcf_filter.py' 2021-04-09T21:03:55,958 adding 'sequana/vcftools.py' 2021-04-09T21:03:55,959 adding 'sequana/vst.py' 2021-04-09T21:03:55,961 adding 'sequana/gui/__init__.py' 2021-04-09T21:03:55,962 adding 'sequana/gui/about.py' 2021-04-09T21:03:55,964 adding 'sequana/gui/browser.py' 2021-04-09T21:03:55,966 adding 'sequana/gui/file_browser.py' 2021-04-09T21:03:55,967 adding 'sequana/gui/help.py' 2021-04-09T21:03:55,969 adding 'sequana/gui/ipython.py' 2021-04-09T21:03:55,970 adding 'sequana/gui/messages.py' 2021-04-09T21:03:55,972 adding 'sequana/gui/preferences.py' 2021-04-09T21:03:55,982 adding 'sequana/gui/sequana_gui.py' 2021-04-09T21:03:55,984 adding 'sequana/gui/snakemake.py' 2021-04-09T21:03:55,986 adding 'sequana/gui/tools.py' 2021-04-09T21:03:55,987 adding 'sequana/gui/ui_help.py' 2021-04-09T21:03:55,991 adding 'sequana/gui/ui_mainwindow.py' 2021-04-09T21:03:55,994 adding 'sequana/gui/ui_preferences.py' 2021-04-09T21:03:55,996 adding 'sequana/gui/ui_snakemake.py' 2021-04-09T21:03:55,998 adding 'sequana/gui/widgets.py' 2021-04-09T21:03:56,000 adding 'sequana/modules_report/__init__.py' 2021-04-09T21:03:56,001 adding 'sequana/modules_report/bamqc.py' 2021-04-09T21:03:56,003 adding 'sequana/modules_report/base_module.py' 2021-04-09T21:03:56,005 adding 'sequana/modules_report/bwa_bam_to_fastq.py' 2021-04-09T21:03:56,008 adding 'sequana/modules_report/coverage.py' 2021-04-09T21:03:56,011 adding 'sequana/modules_report/cutadapt.py' 2021-04-09T21:03:56,014 adding 'sequana/modules_report/enrichment.py' 2021-04-09T21:03:56,016 adding 'sequana/modules_report/fastq_stats.py' 2021-04-09T21:03:56,017 adding 'sequana/modules_report/fastqc.py' 2021-04-09T21:03:56,019 adding 'sequana/modules_report/joint_calling.py' 2021-04-09T21:03:56,021 adding 'sequana/modules_report/kraken.py' 2021-04-09T21:03:56,023 adding 'sequana/modules_report/multi_summary.py' 2021-04-09T21:03:56,025 adding 'sequana/modules_report/pacbio_input_bam.py' 2021-04-09T21:03:56,026 adding 'sequana/modules_report/phix.py' 2021-04-09T21:03:56,028 adding 'sequana/modules_report/quast.py' 2021-04-09T21:03:56,030 adding 'sequana/modules_report/rnadiff.py' 2021-04-09T21:03:56,032 adding 'sequana/modules_report/summary.py' 2021-04-09T21:03:56,034 adding 'sequana/modules_report/trf.py' 2021-04-09T21:03:56,035 adding 'sequana/modules_report/variant_calling.py' 2021-04-09T21:03:56,037 adding 'sequana/multiqc/__init__.py' 2021-04-09T21:03:56,039 adding 'sequana/multiqc/bamtools_stats.py' 2021-04-09T21:03:56,040 adding 'sequana/multiqc/config.py' 2021-04-09T21:03:56,042 adding 'sequana/multiqc/coverage.py' 2021-04-09T21:03:56,044 adding 'sequana/multiqc/isoseq.py' 2021-04-09T21:03:56,045 adding 'sequana/multiqc/isoseq_qc.py' 2021-04-09T21:03:56,047 adding 'sequana/multiqc/kraken.py' 2021-04-09T21:03:56,049 adding 'sequana/multiqc/laa.py' 2021-04-09T21:03:56,050 adding 'sequana/multiqc/multiqc_config.yaml' 2021-04-09T21:03:56,052 adding 'sequana/multiqc/pacbio_amplicon.py' 2021-04-09T21:03:56,054 adding 'sequana/multiqc/pacbio_qc.py' 2021-04-09T21:03:56,055 adding 'sequana/multiqc/plots.py' 2021-04-09T21:03:56,057 adding 'sequana/multiqc/quality_control.py' 2021-04-09T21:03:56,059 adding 'sequana/pipelines/__init__.py' 2021-04-09T21:03:56,061 adding 'sequana/pipelines/compressor/README.rst' 2021-04-09T21:03:56,062 adding 'sequana/pipelines/compressor/cluster_config.json' 2021-04-09T21:03:56,063 adding 'sequana/pipelines/compressor/compressor.rules' 2021-04-09T21:03:56,065 adding 'sequana/pipelines/compressor/config.yaml' 2021-04-09T21:03:56,067 adding 'sequana/pipelines/compressor/dag.png' 2021-04-09T21:03:56,068 adding 'sequana/pipelines/compressor/requirements.txt' 2021-04-09T21:03:56,070 adding 'sequana/pipelines/compressor/schema.yaml' 2021-04-09T21:03:56,071 adding 'sequana/plots/__init__.py' 2021-04-09T21:03:56,073 adding 'sequana/plots/canvasjs_base.py' 2021-04-09T21:03:56,075 adding 'sequana/plots/canvasjs_linegraph.py' 2021-04-09T21:03:56,077 adding 'sequana/resources/__init__.py' 2021-04-09T21:03:56,078 adding 'sequana/resources/busco/__init__.py' 2021-04-09T21:03:56,080 adding 'sequana/resources/busco/config.ini' 2021-04-09T21:03:56,081 adding 'sequana/resources/canvas/__init__.py' 2021-04-09T21:03:56,082 adding 'sequana/resources/canvas/bar.py' 2021-04-09T21:03:56,084 adding 'sequana/resources/css/__init__.py' 2021-04-09T21:03:56,095 adding 'sequana/resources/css/bootstrap.min.css' 2021-04-09T21:03:56,098 adding 'sequana/resources/css/buttons.dataTables.min.css' 2021-04-09T21:03:56,100 adding 'sequana/resources/css/jquery.dataTables.min.css' 2021-04-09T21:03:56,101 adding 'sequana/resources/css/jquery.dropdown.min.css' 2021-04-09T21:03:56,103 adding 'sequana/resources/css/report.css' 2021-04-09T21:03:56,117 adding 'sequana/resources/data/Hm2_GTGAAA_L005_R1_001.fastq.gz' 2021-04-09T21:03:56,131 adding 'sequana/resources/data/Hm2_GTGAAA_L005_R2_001.fastq.gz' 2021-04-09T21:03:56,133 adding 'sequana/resources/data/JB409847.bcf' 2021-04-09T21:03:56,182 adding 'sequana/resources/data/JB409847.bed' 2021-04-09T21:03:56,309 adding 'sequana/resources/data/JB409847.cov.csv' 2021-04-09T21:03:56,315 adding 'sequana/resources/data/JB409847.csv' 2021-04-09T21:03:56,318 adding 'sequana/resources/data/JB409847.expected.vcf' 2021-04-09T21:03:56,328 adding 'sequana/resources/data/JB409847.fasta' 2021-04-09T21:03:56,330 adding 'sequana/resources/data/JB409847.filter.vcf' 2021-04-09T21:03:56,341 adding 'sequana/resources/data/JB409847.gbk' 2021-04-09T21:03:56,343 adding 'sequana/resources/data/JB409847.vc.csv' 2021-04-09T21:03:56,347 adding 'sequana/resources/data/JB409847.vcf' 2021-04-09T21:03:56,850 adding 'sequana/resources/data/KO_ATCACG_L001_R1_001.fastq.gz' 2021-04-09T21:03:56,882 adding 'sequana/resources/data/KO_ATCACG_R1_test.fastq.gz' 2021-04-09T21:03:56,884 adding 'sequana/resources/data/README.rst' 2021-04-09T21:03:56,901 adding 'sequana/resources/data/SIRV.fa' 2021-04-09T21:03:57,404 adding 'sequana/resources/data/WT_ATCACG_L001_R1_001.fastq.gz' 2021-04-09T21:03:57,435 adding 'sequana/resources/data/__init__.py' 2021-04-09T21:03:57,507 adding 'sequana/resources/data/hg38_chr18.bed' 2021-04-09T21:03:57,567 adding 'sequana/resources/data/kegg.csv' 2021-04-09T21:03:57,625 adding 'sequana/resources/data/lima_output.lbc32--lbc32.ccs.bam' 2021-04-09T21:03:57,636 adding 'sequana/resources/data/measles.fa' 2021-04-09T21:03:57,637 adding 'sequana/resources/data/measles.fa.amb' 2021-04-09T21:03:57,639 adding 'sequana/resources/data/measles.fa.ann' 2021-04-09T21:03:57,642 adding 'sequana/resources/data/measles.fa.bwt' 2021-04-09T21:03:57,643 adding 'sequana/resources/data/measles.fa.pac' 2021-04-09T21:03:57,645 adding 'sequana/resources/data/measles.fa.sa' 2021-04-09T21:03:57,671 adding 'sequana/resources/data/measles.fa.sorted.bam' 2021-04-09T21:03:57,673 adding 'sequana/resources/data/measles.fa.sorted.bam.bai' 2021-04-09T21:03:57,675 adding 'sequana/resources/data/panther.csv' 2021-04-09T21:03:57,678 adding 'sequana/resources/data/phiX174.fa' 2021-04-09T21:03:57,690 adding 'sequana/resources/data/test_L001_R1_001.fastq.gz' 2021-04-09T21:03:57,704 adding 'sequana/resources/data/test_L002_R1_001.fastq.gz' 2021-04-09T21:03:57,710 adding 'sequana/resources/data/test_hg38_chr18.bam' 2021-04-09T21:03:57,712 adding 'sequana/resources/data/test_small.gff3' 2021-04-09T21:03:57,713 adding 'sequana/resources/data/test_wrong_bed.bed' 2021-04-09T21:03:57,773 adding 'sequana/resources/data/virus.bed' 2021-04-09T21:03:57,777 adding 'sequana/resources/data/adapters/NEXTFlex48_DNA_fwd.fa' 2021-04-09T21:03:57,779 adding 'sequana/resources/data/adapters/NEXTFlex48_DNA_rev.fa' 2021-04-09T21:03:57,780 adding 'sequana/resources/data/adapters/NEXTFlex48_DNA_revcomp.fa' 2021-04-09T21:03:57,782 adding 'sequana/resources/data/adapters/NEXTFlex96_DNA_fwd.fa' 2021-04-09T21:03:57,784 adding 'sequana/resources/data/adapters/NEXTFlex96_DNA_rev.fa' 2021-04-09T21:03:57,786 adding 'sequana/resources/data/adapters/NEXTFlex96_DNA_revcomp.fa' 2021-04-09T21:03:57,788 adding 'sequana/resources/data/adapters/README.rst' 2021-04-09T21:03:57,789 adding 'sequana/resources/data/adapters/TruSeqCD_DNA_fwd.fa' 2021-04-09T21:03:57,790 adding 'sequana/resources/data/adapters/TruSeqCD_DNA_rev.fa' 2021-04-09T21:03:57,792 adding 'sequana/resources/data/adapters/TruSeqCD_DNA_revcomp.fa' 2021-04-09T21:03:57,793 adding 'sequana/resources/data/adapters/TruSeqCD_alt_DNA_fwd.fa' 2021-04-09T21:03:57,795 adding 'sequana/resources/data/adapters/TruSeqCD_alt_DNA_rev.fa' 2021-04-09T21:03:57,796 adding 'sequana/resources/data/adapters/TruSeqCD_alt_DNA_revcomp.fa' 2021-04-09T21:03:57,797 adding 'sequana/resources/data/adapters/TruSeqUD_DNA_fwd.fa' 2021-04-09T21:03:57,799 adding 'sequana/resources/data/adapters/TruSeqUD_DNA_rev.fa' 2021-04-09T21:03:57,800 adding 'sequana/resources/data/adapters/TruSeqUD_DNA_revcomp.fa' 2021-04-09T21:03:57,801 adding 'sequana/resources/data/adapters/__init__.py' 2021-04-09T21:03:57,803 adding 'sequana/resources/data/adapters/adapters_NEBNext_fwd.fa' 2021-04-09T21:03:57,805 adding 'sequana/resources/data/adapters/adapters_NEBNext_rev.fa' 2021-04-09T21:03:57,806 adding 'sequana/resources/data/adapters/adapters_NEBNext_revcomp.fa' 2021-04-09T21:03:57,808 adding 'sequana/resources/data/adapters/adapters_Nextera_fwd.fa' 2021-04-09T21:03:57,810 adding 'sequana/resources/data/adapters/adapters_Nextera_rev.fa' 2021-04-09T21:03:57,812 adding 'sequana/resources/data/adapters/adapters_Nextera_revcomp.fa' 2021-04-09T21:03:57,813 adding 'sequana/resources/data/adapters/adapters_SMARTer_fwd.fa' 2021-04-09T21:03:57,814 adding 'sequana/resources/data/adapters/adapters_SMARTer_rev.fa' 2021-04-09T21:03:57,816 adding 'sequana/resources/data/adapters/adapters_SMARTer_revcomp.fa' 2021-04-09T21:03:57,818 adding 'sequana/resources/data/adapters/adapters_Small_fwd.fa' 2021-04-09T21:03:57,819 adding 'sequana/resources/data/adapters/adapters_Small_rev.fa' 2021-04-09T21:03:57,821 adding 'sequana/resources/data/adapters/adapters_Small_revcomp.fa' 2021-04-09T21:03:57,822 adding 'sequana/resources/data/adapters/adapters_TruSeq_fwd.fa' 2021-04-09T21:03:57,824 adding 'sequana/resources/data/adapters/adapters_TruSeq_rev.fa' 2021-04-09T21:03:57,825 adding 'sequana/resources/data/adapters/adapters_TruSeq_revcomp.fa' 2021-04-09T21:03:57,831 adding 'sequana/resources/images/Institut_Pasteur.png' 2021-04-09T21:03:57,833 adding 'sequana/resources/images/__init__.py' 2021-04-09T21:03:57,835 adding 'sequana/resources/images/no_data.jpg' 2021-04-09T21:03:57,837 adding 'sequana/resources/images/no_data.png' 2021-04-09T21:03:57,839 adding 'sequana/resources/js/__init__.py' 2021-04-09T21:03:57,844 adding 'sequana/resources/js/bootstrap.min.js' 2021-04-09T21:03:57,848 adding 'sequana/resources/js/buttons.html5.min.js' 2021-04-09T21:03:57,849 adding 'sequana/resources/js/buttons.print.min.js' 2021-04-09T21:03:57,874 adding 'sequana/resources/js/canvasjs.min.js' 2021-04-09T21:03:57,879 adding 'sequana/resources/js/dataTables.buttons.min.js' 2021-04-09T21:03:57,921 adding 'sequana/resources/js/jquery-2.1.1.js' 2021-04-09T21:03:57,934 adding 'sequana/resources/js/jquery-3.1.1.min.js' 2021-04-09T21:03:57,947 adding 'sequana/resources/js/jquery-3.2.1.min.js' 2021-04-09T21:03:57,960 adding 'sequana/resources/js/jquery-3.5.1.min.js' 2021-04-09T21:03:57,972 adding 'sequana/resources/js/jquery.dataTables.min.js' 2021-04-09T21:03:57,975 adding 'sequana/resources/js/jquery.dropdown.min.js' 2021-04-09T21:03:57,976 adding 'sequana/resources/js/jquery.tocPlugin.js' 2021-04-09T21:03:57,979 adding 'sequana/resources/js/papaparse.min.js' 2021-04-09T21:03:57,980 adding 'sequana/resources/snpeff/__init__.py' 2021-04-09T21:03:57,982 adding 'sequana/resources/snpeff/snpEff.config' 2021-04-09T21:03:57,984 adding 'sequana/resources/templates/__init__.py' 2021-04-09T21:03:57,986 adding 'sequana/resources/templates/base.html' 2021-04-09T21:03:57,988 adding 'sequana/resources/templates/joint_calling.html' 2021-04-09T21:03:57,990 adding 'sequana/resources/templates/rnadiff_light_template.R' 2021-04-09T21:03:57,991 adding 'sequana/resources/templates/standard.html' 2021-04-09T21:03:57,994 adding 'sequana/resources/testing/README.rst' 2021-04-09T21:03:57,996 adding 'sequana/resources/testing/__init__.py' 2021-04-09T21:03:57,997 adding 'sequana/resources/testing/adapters_with_duplicates.fa' 2021-04-09T21:03:58,007 adding 'sequana/resources/testing/measles.fa' 2021-04-09T21:03:58,009 adding 'sequana/resources/testing/measles.fa.fai' 2021-04-09T21:03:58,012 adding 'sequana/resources/testing/saccer3_truncated.gff' 2021-04-09T21:03:58,014 adding 'sequana/resources/testing/summary_bamtools_stats.txt' 2021-04-09T21:03:58,015 adding 'sequana/resources/testing/summary_coverage1.json' 2021-04-09T21:03:58,017 adding 'sequana/resources/testing/summary_coverage2.json' 2021-04-09T21:03:58,019 adding 'sequana/resources/testing/summary_kraken.json' 2021-04-09T21:03:58,021 adding 'sequana/resources/testing/summary_pacbio_qc1.json' 2021-04-09T21:03:58,023 adding 'sequana/resources/testing/summary_pacbio_qc2.json' 2021-04-09T21:03:58,025 adding 'sequana/resources/testing/summary_pacbio_qc3.json' 2021-04-09T21:03:58,027 adding 'sequana/resources/testing/summary_qc.json' 2021-04-09T21:03:58,031 adding 'sequana/resources/testing/test.bam' 2021-04-09T21:03:58,033 adding 'sequana/resources/testing/test.bam.bai' 2021-04-09T21:03:58,041 adding 'sequana/resources/testing/test.fasta' 2021-04-09T21:03:58,059 adding 'sequana/resources/testing/test.fastq' 2021-04-09T21:03:58,062 adding 'sequana/resources/testing/test.fastq.gz' 2021-04-09T21:03:58,093 adding 'sequana/resources/testing/test.sam' 2021-04-09T21:03:58,096 adding 'sequana/resources/testing/test.vcf' 2021-04-09T21:03:58,098 adding 'sequana/resources/testing/test_1_1000.fastq.gz' 2021-04-09T21:03:58,102 adding 'sequana/resources/testing/test_CS_tiny.bam' 2021-04-09T21:03:58,152 adding 'sequana/resources/testing/test_JB409847.bed' 2021-04-09T21:03:58,166 adding 'sequana/resources/testing/test_R1_.mapped.fastq' 2021-04-09T21:03:58,168 adding 'sequana/resources/testing/test_R1_.unmapped.fastq' 2021-04-09T21:03:58,181 adding 'sequana/resources/testing/test_R2_.mapped.fastq' 2021-04-09T21:03:58,182 adding 'sequana/resources/testing/test_R2_.unmapped.fastq' 2021-04-09T21:03:58,184 adding 'sequana/resources/testing/test_adapter_removal_output.txt' 2021-04-09T21:03:58,187 adding 'sequana/resources/testing/test_atropos_paired.txt' 2021-04-09T21:03:58,197 adding 'sequana/resources/testing/test_atropos_pe.json' 2021-04-09T21:03:58,200 adding 'sequana/resources/testing/test_atropos_pe.txt' 2021-04-09T21:03:58,205 adding 'sequana/resources/testing/test_atropos_se.json' 2021-04-09T21:03:58,208 adding 'sequana/resources/testing/test_atropos_se.txt' 2021-04-09T21:03:58,223 adding 'sequana/resources/testing/test_blast_ebi.xml' 2021-04-09T21:03:58,227 adding 'sequana/resources/testing/test_blast_local.xml' 2021-04-09T21:03:58,230 adding 'sequana/resources/testing/test_busco_full_table.tsv' 2021-04-09T21:03:58,231 adding 'sequana/resources/testing/test_cnvnator.txt' 2021-04-09T21:03:58,249 adding 'sequana/resources/testing/test_contigs_ex1.fasta' 2021-04-09T21:03:58,257 adding 'sequana/resources/testing/test_contigs_spades.fasta' 2021-04-09T21:03:58,290 adding 'sequana/resources/testing/test_coverage.csv' 2021-04-09T21:03:58,295 adding 'sequana/resources/testing/test_cutadapt_paired.txt' 2021-04-09T21:03:58,296 adding 'sequana/resources/testing/test_dag.ann.dot' 2021-04-09T21:03:58,298 adding 'sequana/resources/testing/test_dag.dot' 2021-04-09T21:03:58,308 adding 'sequana/resources/testing/test_demultiplex_Stats.json' 2021-04-09T21:03:58,310 adding 'sequana/resources/testing/test_demultiplex_Stats_undetermined.json' 2021-04-09T21:03:58,311 adding 'sequana/resources/testing/test_expdesign_Hm2.csv' 2021-04-09T21:03:58,313 adding 'sequana/resources/testing/test_expdesign_generic.csv' 2021-04-09T21:03:58,314 adding 'sequana/resources/testing/test_expdesign_hiseq.csv' 2021-04-09T21:03:58,316 adding 'sequana/resources/testing/test_expdesign_hiseq_doubleindex.csv' 2021-04-09T21:03:58,317 adding 'sequana/resources/testing/test_expdesign_hiseq_duplicated_index.csv' 2021-04-09T21:03:58,319 adding 'sequana/resources/testing/test_expdesign_miseq_illumina.csv' 2021-04-09T21:03:58,321 adding 'sequana/resources/testing/test_expdesign_miseq_illumina2.csv' 2021-04-09T21:03:58,323 adding 'sequana/resources/testing/test_expdesign_miseq_illumina_1.csv' 2021-04-09T21:03:58,324 adding 'sequana/resources/testing/test_expdesign_miseq_illumina_semicommas.csv' 2021-04-09T21:03:58,326 adding 'sequana/resources/testing/test_expdesign_miseq_illumina_semicommas.csv.fixed' 2021-04-09T21:03:58,327 adding 'sequana/resources/testing/test_expdesign_rubicon.csv' 2021-04-09T21:03:58,329 adding 'sequana/resources/testing/test_expdesign_wrong.csv' 2021-04-09T21:03:58,333 adding 'sequana/resources/testing/test_fasta.fasta' 2021-04-09T21:03:58,335 adding 'sequana/resources/testing/test_fasta_filtering.fa' 2021-04-09T21:03:58,345 adding 'sequana/resources/testing/test_fastqc_report.zip' 2021-04-09T21:03:58,347 adding 'sequana/resources/testing/test_generic.rules' 2021-04-09T21:03:58,349 adding 'sequana/resources/testing/test_generic.yaml' 2021-04-09T21:03:58,350 adding 'sequana/resources/testing/test_gtf_fixer.gtf' 2021-04-09T21:03:58,352 adding 'sequana/resources/testing/test_gui_generic_config.yaml' 2021-04-09T21:03:58,353 adding 'sequana/resources/testing/test_gui_generic_snakefile_config.rules' 2021-04-09T21:03:58,355 adding 'sequana/resources/testing/test_gui_generic_snakefile_configfile.rules' 2021-04-09T21:03:58,357 adding 'sequana/resources/testing/test_gui_generic_snakefile_noconfig.rules' 2021-04-09T21:03:58,358 adding 'sequana/resources/testing/test_heatmap.csv' 2021-04-09T21:03:58,360 adding 'sequana/resources/testing/test_iem_samplesheet_hiseq_single.csv' 2021-04-09T21:03:58,361 adding 'sequana/resources/testing/test_iem_samplesheet_iseq100.csv' 2021-04-09T21:03:58,363 adding 'sequana/resources/testing/test_iem_samplesheet_miseq_double.csv' 2021-04-09T21:03:58,364 adding 'sequana/resources/testing/test_iem_samplesheet_misnieq.csv' 2021-04-09T21:03:58,366 adding 'sequana/resources/testing/test_iem_samplesheet_nextseq_single.csv' 2021-04-09T21:03:58,367 adding 'sequana/resources/testing/test_index_mapper.csv' 2021-04-09T21:03:58,390 adding 'sequana/resources/testing/test_isoseq_lq_sirv.bam' 2021-04-09T21:03:58,393 adding 'sequana/resources/testing/test_itol_basic.tree.txt' 2021-04-09T21:03:58,403 adding 'sequana/resources/testing/test_kraken.out' 2021-04-09T21:03:58,405 adding 'sequana/resources/testing/test_kraken.out.summary' 2021-04-09T21:03:58,407 adding 'sequana/resources/testing/test_kraken_mkr2_summary_1.json' 2021-04-09T21:03:58,408 adding 'sequana/resources/testing/test_kraken_mkr2_summary_2.json' 2021-04-09T21:03:58,410 adding 'sequana/resources/testing/test_kraken_multiple_1.csv' 2021-04-09T21:03:58,411 adding 'sequana/resources/testing/test_kraken_multiple_2.csv' 2021-04-09T21:03:58,413 adding 'sequana/resources/testing/test_krona_k1.tsv' 2021-04-09T21:03:58,414 adding 'sequana/resources/testing/test_krona_k2.tsv' 2021-04-09T21:03:58,416 adding 'sequana/resources/testing/test_laa_amplicon_analysis_summary_bc24.csv' 2021-04-09T21:03:58,417 adding 'sequana/resources/testing/test_laa_amplicon_analysis_summary_bc25.csv' 2021-04-09T21:03:58,419 adding 'sequana/resources/testing/test_measles.bam' 2021-04-09T21:03:58,421 adding 'sequana/resources/testing/test_measles.cram' 2021-04-09T21:03:58,425 adding 'sequana/resources/testing/test_measles.sam' 2021-04-09T21:03:58,438 adding 'sequana/resources/testing/test_mgi.fqStat.txt' 2021-04-09T21:03:58,440 adding 'sequana/resources/testing/test_pacbio_barcode_report.csv' 2021-04-09T21:03:58,481 adding 'sequana/resources/testing/test_pacbio_subreads.bam' 2021-04-09T21:03:58,485 adding 'sequana/resources/testing/test_pacbio_subreads.bam.bai' 2021-04-09T21:03:58,536 adding 'sequana/resources/testing/test_pca.csv' 2021-04-09T21:03:58,539 adding 'sequana/resources/testing/test_samplesheet_wrong_characters.csv' 2021-04-09T21:03:58,574 adding 'sequana/resources/testing/test_sirv.xls' 2021-04-09T21:03:58,577 adding 'sequana/resources/testing/test_snakemake_stats.txt' 2021-04-09T21:03:58,801 adding 'sequana/resources/testing/test_snpeff_ref.gb' 2021-04-09T21:03:58,807 adding 'sequana/resources/testing/test_summary_fastq_stats.json' 2021-04-09T21:03:58,809 adding 'sequana/resources/testing/test_summary_module.svg' 2021-04-09T21:03:58,810 adding 'sequana/resources/testing/test_taxon_rtd.csv' 2021-04-09T21:03:58,815 adding 'sequana/resources/testing/test_trf1.dat' 2021-04-09T21:03:58,828 adding 'sequana/resources/testing/test_vcf_mpileup_4dot1.vcf' 2021-04-09T21:03:58,831 adding 'sequana/resources/testing/enrichment/__init__.py' 2021-04-09T21:03:58,982 adding 'sequana/resources/testing/enrichment/ecoli_all_gene.csv' 2021-04-09T21:03:59,019 adding 'sequana/resources/testing/enrichment/ecoli_down_gene.csv' 2021-04-09T21:03:59,054 adding 'sequana/resources/testing/enrichment/ecoli_up_gene.csv' 2021-04-09T21:03:59,057 adding 'sequana/resources/testing/featurecounts/README.txt' 2021-04-09T21:03:59,058 adding 'sequana/resources/testing/featurecounts/__init__.py' 2021-04-09T21:03:59,061 adding 'sequana/resources/testing/featurecounts/featurecounts_ex1/Complemented_csrA_1_S7_feature.out' 2021-04-09T21:03:59,063 adding 'sequana/resources/testing/featurecounts/featurecounts_ex1/Complemented_csrA_2_S8_feature.out' 2021-04-09T21:03:59,065 adding 'sequana/resources/testing/featurecounts/featurecounts_ex1/Complemented_csrA_3_S9_feature.out' 2021-04-09T21:03:59,067 adding 'sequana/resources/testing/featurecounts/featurecounts_ex1/README.txt' 2021-04-09T21:03:59,070 adding 'sequana/resources/testing/featurecounts/featurecounts_ex1/WT__1_S1_feature.out' 2021-04-09T21:03:59,072 adding 'sequana/resources/testing/featurecounts/featurecounts_ex1/WT__2_S2_feature.out' 2021-04-09T21:03:59,075 adding 'sequana/resources/testing/featurecounts/featurecounts_ex1/WT__3_S3_feature.out' 2021-04-09T21:03:59,076 adding 'sequana/resources/testing/featurecounts/featurecounts_ex1/__init__.py' 2021-04-09T21:03:59,079 adding 'sequana/resources/testing/featurecounts/featurecounts_ex1/all_features.out' 2021-04-09T21:03:59,082 adding 'sequana/resources/testing/featurecounts/rnaseq_0/__init__.py' 2021-04-09T21:03:59,084 adding 'sequana/resources/testing/featurecounts/rnaseq_0/sample1/__init__.py' 2021-04-09T21:03:59,086 adding 'sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0/__init__.py' 2021-04-09T21:03:59,087 adding 'sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_0/sample_feature.out' 2021-04-09T21:03:59,090 adding 'sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1/__init__.py' 2021-04-09T21:03:59,092 adding 'sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_1/sample_feature.out' 2021-04-09T21:03:59,094 adding 'sequana/resources/testing/featurecounts/rnaseq_0/sample1/feature_counts_2/__init__.py' 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'sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1/__init__.py' 2021-04-09T21:03:59,174 adding 'sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_1/sample_feature.out' 2021-04-09T21:03:59,176 adding 'sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2/__init__.py' 2021-04-09T21:03:59,177 adding 'sequana/resources/testing/featurecounts/rnaseq_noconsensus/sample2/feature_counts_2/sample_feature.out' 2021-04-09T21:03:59,180 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0/__init__.py' 2021-04-09T21:03:59,182 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_0/sample_feature.out' 2021-04-09T21:03:59,184 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1/__init__.py' 2021-04-09T21:03:59,185 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_1/sample_feature.out' 2021-04-09T21:03:59,187 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2/__init__.py' 2021-04-09T21:03:59,189 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample1/feature_counts_2/sample_feature.out' 2021-04-09T21:03:59,192 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0/__init__.py' 2021-04-09T21:03:59,193 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_0/sample_feature.out' 2021-04-09T21:03:59,195 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1/__init__.py' 2021-04-09T21:03:59,197 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_1/sample_feature.out' 2021-04-09T21:03:59,199 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2/__init__.py' 2021-04-09T21:03:59,200 adding 'sequana/resources/testing/featurecounts/rnaseq_undef/sample2/feature_counts_2/sample_feature.out' 2021-04-09T21:03:59,202 adding 'sequana/resources/testing/rnadiff/README.txt' 2021-04-09T21:03:59,203 adding 'sequana/resources/testing/rnadiff/__init__.py' 2021-04-09T21:03:59,205 adding 'sequana/resources/testing/rnadiff/design.csv' 2021-04-09T21:03:59,207 adding 'sequana/resources/testing/rnadiff/design_twocond.csv' 2021-04-09T21:03:59,322 adding 'sequana/resources/testing/rnadiff/rnadiff_bowtie.csv' 2021-04-09T21:03:59,436 adding 'sequana/resources/testing/rnadiff/rnadiff_salmon.csv' 2021-04-09T21:03:59,441 adding 'sequana/resources/testing/rnadiff/rnadiff_onecond_1/__init__.py' 2021-04-09T21:03:59,693 adding 'sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables/B3789-v1.surexpvsref.complete.xls' 2021-04-09T21:03:59,701 adding 'sequana/resources/testing/rnadiff/rnadiff_onecond_1/tables/__init__.py' 2021-04-09T21:03:59,827 adding 'sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/Lepto.gff' 2021-04-09T21:03:59,840 adding 'sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/__init__.py' 2021-04-09T21:03:59,872 adding 'sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/counts.csv' 2021-04-09T21:03:59,874 adding 'sequana/resources/testing/rnadiff/rnadiff_onecond_ex1/design.csv' 2021-04-09T21:03:59,983 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/Complemented_csrA_vs_Mut_csrA_degs_DESeq2.csv' 2021-04-09T21:04:00,100 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/Complemented_csrA_vs_WT_degs_DESeq2.csv' 2021-04-09T21:04:00,206 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/Mut_csrA_vs_WT_degs_DESeq2.csv' 2021-04-09T21:04:00,298 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/counts_normed.csv' 2021-04-09T21:04:00,357 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/counts_raw.csv' 2021-04-09T21:04:00,461 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/counts_vst_norm.csv' 2021-04-09T21:04:00,831 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex1/overall_dds.csv' 2021-04-09T21:04:00,943 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/Complemented_csrA_vs_Mut_csrA_degs_DESeq2.csv' 2021-04-09T21:04:01,048 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/Complemented_csrA_vs_WT_degs_DESeq2.csv' 2021-04-09T21:04:01,152 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/Mut_csrA_vs_WT_degs_DESeq2.csv' 2021-04-09T21:04:01,156 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/__init__.py' 2021-04-09T21:04:01,206 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/counts_normed.csv' 2021-04-09T21:04:01,253 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/counts_raw.csv' 2021-04-09T21:04:01,314 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/counts_vst_norm.csv' 2021-04-09T21:04:01,682 adding 'sequana/resources/testing/rnadiff/rnadiff_twocond_ex2/overall_dds.csv' 2021-04-09T21:04:01,693 adding 'sequana/rules/README.rst' 2021-04-09T21:04:01,694 adding 'sequana/rules/__init__.py' 2021-04-09T21:04:01,696 adding 'sequana/rules/Adapters/__init__.py' 2021-04-09T21:04:01,697 adding 'sequana/rules/Adapters/adapter_removal/adapter_removal.rules' 2021-04-09T21:04:01,699 adding 'sequana/rules/Adapters/alien_trimmer/alien_trimmer.rules' 2021-04-09T21:04:01,701 adding 'sequana/rules/Adapters/cutadapt/cutadapt.rules' 2021-04-09T21:04:01,703 adding 'sequana/rules/Adapters/identify_adapters/identify_adapters.rules' 2021-04-09T21:04:01,705 adding 'sequana/rules/Assembly/__init__.py' 2021-04-09T21:04:01,706 adding 'sequana/rules/Assembly/busco/busco.rules' 2021-04-09T21:04:01,708 adding 'sequana/rules/Assembly/busco_analysis/busco_analysis.rules' 2021-04-09T21:04:01,710 adding 'sequana/rules/Assembly/canu/canu.rules' 2021-04-09T21:04:01,712 adding 'sequana/rules/Assembly/spades/spades.rules' 2021-04-09T21:04:01,714 adding 'sequana/rules/Assembly/spades_get_fastq/spades_get_fastq.rules' 2021-04-09T21:04:01,716 adding 'sequana/rules/DupRadar/DupRadar.rules' 2021-04-09T21:04:01,718 adding 'sequana/rules/Pacbio/__init__.py' 2021-04-09T21:04:01,720 adding 'sequana/rules/SARTools/SARTools.rules' 2021-04-09T21:04:01,722 adding 'sequana/rules/SnpEff/__init__.py' 2021-04-09T21:04:01,724 adding 'sequana/rules/SnpEff/snpeff/1.0/snpeff.rules' 2021-04-09T21:04:01,726 adding 'sequana/rules/SnpEff/snpeff/1.1/snpeff.rules' 2021-04-09T21:04:01,728 adding 'sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.0/snpeff_add_locus_in_fasta.rules' 2021-04-09T21:04:01,730 adding 'sequana/rules/SnpEff/snpeff_add_locus_in_fasta/1.1/snpeff_add_locus_in_fasta.rules' 2021-04-09T21:04:01,732 adding 'sequana/rules/SnpEff/snpeff_create_database/snpeff_create_database.rules' 2021-04-09T21:04:01,734 adding 'sequana/rules/SnpEff/snpeff_dynamic/snpeff_dynamic.rules' 2021-04-09T21:04:01,736 adding 'sequana/rules/Utils/__init__.py' 2021-04-09T21:04:01,738 adding 'sequana/rules/Utils/dynamic_copy/dynamic_copy.rules' 2021-04-09T21:04:01,740 adding 'sequana/rules/Utils/dynamic_unpigz/dynamic_unpigz.rules' 2021-04-09T21:04:01,742 adding 'sequana/rules/Utils/dynamic_vcf_to_bcf/dynamic_vcf_to_bcf.rules' 2021-04-09T21:04:01,743 adding 'sequana/rules/Variant_caller/__init__.py' 2021-04-09T21:04:01,745 adding 'sequana/rules/Variant_caller/freebayes/freebayes.rules' 2021-04-09T21:04:01,747 adding 'sequana/rules/Variant_caller/freebayes_bcf_filter/freebayes_bcf_filter.rules' 2021-04-09T21:04:01,749 adding 'sequana/rules/Variant_caller/freebayes_vcf_filter/freebayes_vcf_filter.rules' 2021-04-09T21:04:01,751 adding 'sequana/rules/Variant_caller/joint_freebayes/joint_freebayes.rules' 2021-04-09T21:04:01,753 adding 'sequana/rules/Variant_caller/joint_freebayes_vcf_filter/joint_freebayes_vcf_filter.rules' 2021-04-09T21:04:01,755 adding 'sequana/rules/bamCoverage/bamCoverage.rules' 2021-04-09T21:04:01,758 adding 'sequana/rules/bam_analysis/bam_analysis.rules' 2021-04-09T21:04:01,760 adding 'sequana/rules/bam_quality_filter/bam_quality_filter.rules' 2021-04-09T21:04:01,762 adding 'sequana/rules/bed_to_gff/bed_to_gff.rules' 2021-04-09T21:04:01,764 adding 'sequana/rules/bowtie1_index_dynamic/bowtie1_index_dynamic.rules' 2021-04-09T21:04:01,766 adding 'sequana/rules/bowtie1_mapping_dynamic/bowtie1_mapping_dynamic.rules' 2021-04-09T21:04:01,768 adding 'sequana/rules/bowtie2_index/bowtie2_index.rules' 2021-04-09T21:04:01,770 adding 'sequana/rules/bowtie2_index_dynamic/bowtie2_index_dynamic.rules' 2021-04-09T21:04:01,772 adding 'sequana/rules/bowtie2_mapping_dynamic/bowtie2_mapping_dynamic.rules' 2021-04-09T21:04:01,774 adding 'sequana/rules/bwa_bam_to_fastq/bwa_bam_to_fastq.rules' 2021-04-09T21:04:01,776 adding 'sequana/rules/bwa_index/bwa_index.rules' 2021-04-09T21:04:01,778 adding 'sequana/rules/bwa_mem_dynamic/bwa_mem_dynamic.rules' 2021-04-09T21:04:01,780 adding 'sequana/rules/chipuanar/chipuanar.rules' 2021-04-09T21:04:01,782 adding 'sequana/rules/codecs/__init__.py' 2021-04-09T21:04:01,784 adding 'sequana/rules/codecs/bam_to_fasta/bam_to_fasta.rules' 2021-04-09T21:04:01,786 adding 'sequana/rules/codecs/bz2_to_dsrc/bz2_to_dsrc.rules' 2021-04-09T21:04:01,788 adding 'sequana/rules/codecs/bz2_to_fastq/bz2_to_fastq.rules' 2021-04-09T21:04:01,790 adding 'sequana/rules/codecs/bz2_to_gz/bz2_to_gz.rules' 2021-04-09T21:04:01,791 adding 'sequana/rules/codecs/dsrc_to_bz2/dsrc_to_bz2.rules' 2021-04-09T21:04:01,793 adding 'sequana/rules/codecs/dsrc_to_fastq/dsrc_to_fastq.rules' 2021-04-09T21:04:01,795 adding 'sequana/rules/codecs/dsrc_to_gz/dsrc_to_gz.rules' 2021-04-09T21:04:01,797 adding 'sequana/rules/codecs/fastq_to_bz2/fastq_to_bz2.rules' 2021-04-09T21:04:01,799 adding 'sequana/rules/codecs/fastq_to_dsrc/fastq_to_dsrc.rules' 2021-04-09T21:04:01,800 adding 'sequana/rules/codecs/fastq_to_gz/fastq_to_gz.rules' 2021-04-09T21:04:01,802 adding 'sequana/rules/codecs/gz_to_bz2/gz_to_bz2.rules' 2021-04-09T21:04:01,804 adding 'sequana/rules/codecs/gz_to_dsrc/gz_to_dsrc.rules' 2021-04-09T21:04:01,806 adding 'sequana/rules/codecs/gz_to_fastq/gz_to_fastq.rules' 2021-04-09T21:04:01,808 adding 'sequana/rules/conda/conda.rules' 2021-04-09T21:04:01,810 adding 'sequana/rules/copy_multiple_files/copy_multiple_files.rules' 2021-04-09T21:04:01,812 adding 'sequana/rules/dag/dag.rules' 2021-04-09T21:04:01,814 adding 'sequana/rules/deeptools/__init__.py' 2021-04-09T21:04:01,815 adding 'sequana/rules/deeptools/BamPEFragmentSize/BamPEFragmentSize.rules' 2021-04-09T21:04:01,817 adding 'sequana/rules/deeptools/multiBamSummary/multiBamSummary.rules' 2021-04-09T21:04:01,819 adding 'sequana/rules/deeptools/plotCorrelation/plotCorrelation.rules' 2021-04-09T21:04:01,821 adding 'sequana/rules/deeptools/plotCoverage/plotCoverage.rules' 2021-04-09T21:04:01,823 adding 'sequana/rules/digital_normalisation/digital_normalisation.rules' 2021-04-09T21:04:01,825 adding 'sequana/rules/extract_fasta_from_bed/extract_fasta_from_bed.rules' 2021-04-09T21:04:01,828 adding 'sequana/rules/falco_dynamic/falco_dynamic.rules' 2021-04-09T21:04:01,829 adding 'sequana/rules/fastp/fastp.rules' 2021-04-09T21:04:01,831 adding 'sequana/rules/fastq_sampling/fastq_sampling.rules' 2021-04-09T21:04:01,833 adding 'sequana/rules/fastq_screen/fastq_screen.rules' 2021-04-09T21:04:01,835 adding 'sequana/rules/fastq_screen_report/fastq_screen_report.rules' 2021-04-09T21:04:01,837 adding 'sequana/rules/fastq_stats_dynamic/fastq_stats_dynamic.rules' 2021-04-09T21:04:01,839 adding 'sequana/rules/fastqc_dynamic/fastqc_dynamic.rules' 2021-04-09T21:04:01,841 adding 'sequana/rules/feature_counts/feature_counts.rules' 2021-04-09T21:04:01,843 adding 'sequana/rules/feature_counts_dynamic/feature_counts_dynamic.rules' 2021-04-09T21:04:01,845 adding 'sequana/rules/format_contigs/format_contigs.rules' 2021-04-09T21:04:01,847 adding 'sequana/rules/idr/__init__.py' 2021-04-09T21:04:01,849 adding 'sequana/rules/idr/compute_idr/compute_idr.rules' 2021-04-09T21:04:01,851 adding 'sequana/rules/idr/intersectionApproach/intersectionApproach.rules' 2021-04-09T21:04:01,853 adding 'sequana/rules/idr/metrics_peaks/metrics_peaks.rules' 2021-04-09T21:04:01,857 adding 'sequana/rules/idr/preIDR_dynamic/preIDR_dynamic.rules' 2021-04-09T21:04:01,859 adding 'sequana/rules/idr/select_peaks/select_peaks.rules' 2021-04-09T21:04:01,860 adding 'sequana/rules/idr/stats_peakCalling/stats_peakCalling.rules' 2021-04-09T21:04:01,862 adding 'sequana/rules/idr/union_peaks/union_peaks.rules' 2021-04-09T21:04:01,864 adding 'sequana/rules/igvtools/igvtools.rules' 2021-04-09T21:04:01,866 adding 'sequana/rules/indel_realigner/indel_realigner.rules' 2021-04-09T21:04:01,869 adding 'sequana/rules/kraken/1.0/kraken.rules' 2021-04-09T21:04:01,871 adding 'sequana/rules/kraken/1.1/kraken.rules' 2021-04-09T21:04:01,873 adding 'sequana/rules/macs3_dynamic/macs3_dynamic.rules' 2021-04-09T21:04:01,875 adding 'sequana/rules/mapping_analysis/mapping_analysis.rules' 2021-04-09T21:04:01,877 adding 'sequana/rules/miRNA_count_dynamic/miRNA_count_dynamic.rules' 2021-04-09T21:04:01,879 adding 'sequana/rules/multiqc/multiqc.rules' 2021-04-09T21:04:01,881 adding 'sequana/rules/multiqc/2.0/multiqc.rules' 2021-04-09T21:04:01,883 adding 'sequana/rules/multiqc2/multiqc2.rules' 2021-04-09T21:04:01,885 adding 'sequana/rules/pacbio_quality/pacbio_quality.rules' 2021-04-09T21:04:01,887 adding 'sequana/rules/peak_calling/macs2_dynamic/macs2_dynamic.rules' 2021-04-09T21:04:01,890 adding 'sequana/rules/picard-tools/__init__.py' 2021-04-09T21:04:01,892 adding 'sequana/rules/picard-tools/CollectInsertSizeMetrics/CollectInsertSizeMetrics.rules' 2021-04-09T21:04:01,893 adding 'sequana/rules/picard-tools/add_read_group/add_read_group.rules' 2021-04-09T21:04:01,895 adding 'sequana/rules/picard-tools/create_sequence_dictionary/create_sequence_dictionary.rules' 2021-04-09T21:04:01,897 adding 'sequana/rules/picard-tools/mark_duplicates_dynamic/mark_duplicates_dynamic.rules' 2021-04-09T21:04:01,899 adding 'sequana/rules/picard-tools/reorderSam/reorderSam.rules' 2021-04-09T21:04:01,901 adding 'sequana/rules/preSARTools/preSARTools.rules' 2021-04-09T21:04:01,903 adding 'sequana/rules/prokka/prokka.rules' 2021-04-09T21:04:01,905 adding 'sequana/rules/quast/quast.rules' 2021-04-09T21:04:01,907 adding 'sequana/rules/remove_blacklist/remove_blacklist.rules' 2021-04-09T21:04:01,909 adding 'sequana/rules/revcomp_rule/revcomp_rule.rules' 2021-04-09T21:04:01,911 adding 'sequana/rules/rnaseqc/rnaseqc.rules' 2021-04-09T21:04:01,913 adding 'sequana/rules/rulegraph/rulegraph.rules' 2021-04-09T21:04:01,914 adding 'sequana/rules/salmon_index/salmon_index.rules' 2021-04-09T21:04:01,916 adding 'sequana/rules/salmon_mapping/salmon_mapping.rules' 2021-04-09T21:04:01,918 adding 'sequana/rules/sambamba/__init__.py' 2021-04-09T21:04:01,920 adding 'sequana/rules/sambamba/sambamba_filter/sambamba_filter.rules' 2021-04-09T21:04:01,922 adding 'sequana/rules/sambamba/sambamba_markdup/sambamba_markdup.rules' 2021-04-09T21:04:01,924 adding 'sequana/rules/samtools_depth/samtools_depth.rules' 2021-04-09T21:04:01,925 adding 'sequana/rules/samtools_sort/samtools_sort.rules' 2021-04-09T21:04:01,927 adding 'sequana/rules/sequana_coverage/sequana_coverage.rules' 2021-04-09T21:04:01,929 adding 'sequana/rules/spikes_counting/spikes_counting.rules' 2021-04-09T21:04:01,931 adding 'sequana/rules/spp/spp.rules' 2021-04-09T21:04:01,933 adding 'sequana/rules/star_index/star_index.rules' 2021-04-09T21:04:01,936 adding 'sequana/rules/star_mapping/star_mapping.rules' 2021-04-09T21:04:01,938 adding 'sequana/rules/summary_pipeline/summary_pipeline.rules' 2021-04-09T21:04:01,939 adding 'sequana/rules/tophat_mapping/tophat_mapping.rules' 2021-04-09T21:04:01,941 adding 'sequana/scripts/__init__.py' 2021-04-09T21:04:01,943 adding 'sequana/scripts/bam_splitter.py' 2021-04-09T21:04:01,944 adding 'sequana/scripts/browser.py' 2021-04-09T21:04:01,946 adding 'sequana/scripts/compressor.py' 2021-04-09T21:04:01,950 adding 'sequana/scripts/coverage.py' 2021-04-09T21:04:01,951 adding 'sequana/scripts/fixR1R2.py' 2021-04-09T21:04:01,954 adding 'sequana/scripts/lane_merging.py' 2021-04-09T21:04:01,958 adding 'sequana/scripts/main.py' 2021-04-09T21:04:01,960 adding 'sequana/scripts/mapping.py' 2021-04-09T21:04:01,962 adding 'sequana/scripts/start_pipeline.py' 2021-04-09T21:04:01,964 adding 'sequana/scripts/substractor.py' 2021-04-09T21:04:01,967 adding 'sequana/scripts/taxonomy.py' 2021-04-09T21:04:01,968 adding 'sequana/scripts/tools.py' 2021-04-09T21:04:01,972 adding 'sequana/scripts/vcf_filter.py' 2021-04-09T21:04:01,974 adding 'sequana/sphinxext/__init__.py' 2021-04-09T21:04:01,976 adding 'sequana/sphinxext/sequana_pipeline.py' 2021-04-09T21:04:01,978 adding 'sequana/sphinxext/snakemakerule.py' 2021-04-09T21:04:01,981 adding 'sequana/utils/__init__.py' 2021-04-09T21:04:01,982 adding 'sequana/utils/config.py' 2021-04-09T21:04:01,986 adding 'sequana/utils/datatables_js.py' 2021-04-09T21:04:01,987 adding 'sequana/utils/df2html.py' 2021-04-09T21:04:01,989 adding 'sequana/utils/tree.py' 2021-04-09T21:04:01,990 adding 'sequana/viz/__init__.py' 2021-04-09T21:04:01,996 adding 'sequana/viz/anova.py' 2021-04-09T21:04:01,996 adding 'sequana/viz/boxplot.py' 2021-04-09T21:04:01,997 adding 'sequana/viz/clusterisation.py' 2021-04-09T21:04:01,998 adding 'sequana/viz/core.py' 2021-04-09T21:04:02,001 adding 'sequana/viz/corrplot.py' 2021-04-09T21:04:02,003 adding 'sequana/viz/dendogram.py' 2021-04-09T21:04:02,007 adding 'sequana/viz/heatmap.py' 2021-04-09T21:04:02,009 adding 'sequana/viz/hinton.py' 2021-04-09T21:04:02,011 adding 'sequana/viz/hist2d.py' 2021-04-09T21:04:02,013 adding 'sequana/viz/imshow.py' 2021-04-09T21:04:02,014 adding 'sequana/viz/isomap.py' 2021-04-09T21:04:02,016 adding 'sequana/viz/linkage.py' 2021-04-09T21:04:02,018 adding 'sequana/viz/mds.py' 2021-04-09T21:04:02,019 adding 'sequana/viz/pca.py' 2021-04-09T21:04:02,021 adding 'sequana/viz/plotly.py' 2021-04-09T21:04:02,023 adding 'sequana/viz/scatter.py' 2021-04-09T21:04:02,025 adding 'sequana/viz/venn.py' 2021-04-09T21:04:02,027 adding 'sequana/viz/volcano.py' 2021-04-09T21:04:02,030 adding 'sequana-0.11.0.dist-info/LICENSE' 2021-04-09T21:04:02,031 adding 'sequana-0.11.0.dist-info/METADATA' 2021-04-09T21:04:02,032 adding 'sequana-0.11.0.dist-info/WHEEL' 2021-04-09T21:04:02,033 adding 'sequana-0.11.0.dist-info/entry_points.txt' 2021-04-09T21:04:02,034 adding 'sequana-0.11.0.dist-info/top_level.txt' 2021-04-09T21:04:02,041 adding 'sequana-0.11.0.dist-info/RECORD' 2021-04-09T21:04:02,294 removing build/bdist.linux-armv7l/wheel 2021-04-09T21:04:02,701 Building wheel for sequana (setup.py): finished with status 'done' 2021-04-09T21:04:02,895 Created wheel for sequana: filename=sequana-0.11.0-py3-none-any.whl size=18510532 sha256=28b735de349e182ab4abffd76dcfa2bc31884516740f4825325e02fd774d41ed 2021-04-09T21:04:02,896 Stored in directory: /tmp/pip-ephem-wheel-cache-ober6dqa/wheels/89/91/8b/d51b40e48e42de4be147906f000f2ef1ae37bc2d0944584852 2021-04-09T21:04:02,938 Successfully built sequana 2021-04-09T21:04:03,474 Removed build tracker: '/tmp/pip-req-tracker-a5o0czms'