Maxime U. Garcia 409af2f27c Improve syntax/logic coherence in all gatk4 plugins (#1459) ... * feat: code polishing * Apply suggestions from code review Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de> * code polishing * more code polishing * code polishing * tests for applybqsrspark * fix typo * no need to check md5sum for versions.yml * fix: use correct syntax * code polishing again * add tests for markduplicatesspark * simplify mergevcfs tests * add tests for baserecalibratorspark * fix: path to entry * code polishing * fix linting * simplify module * update meta.yml * fix pair mode * fix: MITO mode * more tests * fix command * bad copy paste * fix typos * fix tests * fix test * update meta.yml * correct versions.yml in all test.yml * code polishing * code polishing * more code polishing * fix args * add tmpdir for all Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>		2022-04-12 17:15:39 +02:00
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main.nf	add gatk4/gatherbqsr (#1130)	2021-12-08 23:43:36 +01:00
nextflow.config	add gatk4/gatherbqsr (#1130)	2021-12-08 23:43:36 +01:00
test.yml	Improve syntax/logic coherence in all gatk4 plugins (#1459)	2022-04-12 17:15:39 +02:00