mirror of
https://github.com/MillironX/nf-core_modules.git
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72c94dbed9
* add pydamage module * remove TODOs * split module by subcommands * update version parsing * remove forgotten TODOs * update module names * remove old holistic module * Update modules/pydamage/analyze/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * add keywords * update resource requirement * Update modules/pydamage/filter/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/pydamage/filter/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * merge from upstream * update pydamage from upstream * add freebayes * update pydamage test from upstream * fix meta.yml * update functions.nf * update test.yml * update version parsing * update version parsing * fix indentation * Update modules/freebayes/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/freebayes/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/freebayes/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * add optional inputs * Update modules/freebayes/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * add bed test * add metabat2 module * only freebayes * remove metabat2 * update md5sum because of vcf including date of the day * add keyword * rescue conflicted files * attempt to fix ECLint * add pytest workflow for metabat * remove - * Update modules/metabat2/jgisummarizebamcontigdepths/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/metabat2/metabat2/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/metabat2/metabat2/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/metabat2/jgisummarizebamcontigdepths/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * add optional inputs/outpus * remove trailing whitespace * compressing and removing not reproducible md5sums * follow symlinks while decompressing * add dastool/scaffolds2bin * add dastool * remove non reproducible md5sum check for compressed files * Update tests/modules/metabat2/metabat2/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update tests/modules/metabat2/metabat2/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * split tests * export env variable * remove metabat2 from PR * fix linting errors * remove traling whitespace * Update modules/metabat2/jgisummarizebamcontigdepths/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/metabat2/jgisummarizebamcontigdepths/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/metabat2/metabat2/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/metabat2/metabat2/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * answer PR comments and switch to bgzip * PR review updates * update from PR review * update test files * add bacillus fragilis alignments * switch tests to bacillus fragilis * add string check * update test string * add pr comment answer * last fixes for PR review Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> Co-authored-by: Gregor Sturm <mail@gregor-sturm.de>
29 lines
1.2 KiB
YAML
29 lines
1.2 KiB
YAML
- name: dastool dastool test_dastool_dastool
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command: nextflow run tests/modules/dastool/dastool -entry test_dastool_dastool -c tests/config/nextflow.config
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tags:
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- dastool
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- dastool/dastool
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files:
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- path: output/dastool/test.seqlength
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md5sum: b815a5811008c36808a59b1d0dcfab24
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- path: output/dastool/test.tsv
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md5sum: 6e46c0be14dded7cb13af38f54feea47
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- path: output/dastool/test_DASTool.log
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contains:
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- 'DAS Tool run on'
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- path: output/dastool/test_DASTool_scaffolds2bin.txt
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md5sum: 6e46c0be14dded7cb13af38f54feea47
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- path: output/dastool/test_DASTool_summary.txt
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md5sum: a3efa8717b30dfada78dc5ae9a3dc396
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- path: output/dastool/test_proteins.faa.archaea.scg
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md5sum: e79d82eecee25821d1658ea4f082601d
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- path: output/dastool/test_proteins.faa.bacteria.scg
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md5sum: 8132cfb17cf398d41c036ead55c96ffe
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- path: output/dastool/test_test.tsv.eval
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md5sum: a3efa8717b30dfada78dc5ae9a3dc396
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- path: output/metabat2/bins/test.1.fa.gz
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md5sum: 2b297bf557cc3831b800348859331268
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- path: output/metabat2/test.tsv.gz
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md5sum: 619338fa5019e361d5545ce385a6961f
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- path: output/metabat2/test.txt.gz
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md5sum: 745a0446af6ef68b930975e9ce5a95d6
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