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Author	SHA1	Message	Date
Jasmin F	8db0b754c0	Fix commented-out command	2022-05-02 16:56:39 +02:00
jasmezz	6a9f2077cf	Fix unbound variable crash	2022-05-02 16:41:59 +02:00
Lucpen	50cc136a78	Update tests/modules/gatk4/mutect2/main.nf ... fix spelling mistake Co-authored-by: Maxime U. Garcia <max.u.garcia@gmail.com>	2022-05-02 15:14:05 +02:00
Lucpen	62c6123ec4	fix gatk4_mutect2 test by changing main.nf	2022-05-02 15:11:57 +02:00
jasmezz	0fc352188b	Fix conda antismash path	2022-05-02 14:40:35 +02:00
Jasmin F	5cd517e759	Apply suggestions from code review ... Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>	2022-05-02 14:31:40 +02:00
Lucpen	dfabf960dc	Merge branch 'master' into adding_stub_to_modules	2022-05-02 14:20:03 +02:00
ljmesi	ed4dd1a928	Add additional handling of fq.gz file name suffix	2022-05-02 14:16:12 +02:00
Lucpen	da82e06354	fix gatk4_mutect2 test	2022-05-02 14:16:07 +02:00
James A. Fellows Yates	92efb83ec8	Merge pull request #1595 from jfy133/diamond-update ... Standardise DIAMOND output channels and md5sum	2022-05-02 13:43:56 +02:00
Lucpen	3a4e415fe2	chores adding dummy files for stubs	2022-05-02 13:30:18 +02:00
James A. Fellows Yates	f1c2f624eb	Update tests/modules/diamond/blastx/main.nf ... Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se>	2022-05-02 13:17:22 +02:00
Lucpen	de40c1bf54	chore removing file from test	2022-05-02 13:15:01 +02:00
Lucpen	f231291e77	fix gatk4_reversam test	2022-05-02 12:58:12 +02:00
James A. Fellows Yates	575258332a	Merge branch 'master' into diamond-update	2022-05-02 12:41:37 +02:00
James Fellows Yates	bd3bfe0817	Add warn of default being used	2022-05-02 12:41:24 +02:00
James Fellows Yates	67b074382e	Fix tests	2022-05-02 12:29:00 +02:00
Lucpen	08d5acbeb6	feat added tests for stubs	2022-05-02 11:59:08 +02:00
James Fellows Yates	58e5c6aece	Make variables consistent	2022-05-02 11:55:43 +02:00
Maxime U. Garcia	0b01607659	Merge pull request #1597 from praveenraj2018/optional_bai_MarkDup ... Changed BAI as optional output	2022-05-02 11:46:19 +02:00
James Fellows Yates	375b706a4f	Merge branch 'diamond-update' of github.com:jfy133/nf-core-modules into diamond-update	2022-05-02 11:39:09 +02:00
James Fellows Yates	6986975bc0	Fix output channels allow BLAST table customisation	2022-05-02 11:39:07 +02:00
Praveen	0511e7fbbf	Changed BAI as optional output to handle large genome	2022-05-02 11:35:15 +02:00
Lucpen	8a5bcbc325	fix the stub of gatk4_revertsam	2022-05-02 11:06:08 +02:00
Matthias De Smet	bf416f2307	Merge branch 'master' into vardict-java	2022-05-02 10:43:47 +02:00
Lucpen	6b64f9cb6c	feat added stub to modules	2022-05-02 10:34:14 +02:00
James A. Fellows Yates	ebd3cebee5	Merge branch 'master' into diamond-update	2022-05-02 09:37:46 +02:00
James Fellows Yates	996385fb0f	Remove MD5sumfor DIAMOND DAA file due to occasioanlly variability	2022-05-02 09:36:34 +02:00
Ramprasad Neethiraj	9a9f3e97de	fix md5sums	2022-05-01 21:51:40 +02:00
Ramprasad Neethiraj	d2004a2b76	update cnvpytor	2022-05-01 21:14:01 +02:00
Harshil Patel	76ac37c529	Merge pull request #1592 from jfy133/diamond-update ... Bump DIAMOND modules to 2.0.15	2022-04-29 20:11:26 +01:00
James Fellows Yates	44ed38beb8	Merge branch 'diamond-update' of github.com:jfy133/nf-core-modules into diamond-update	2022-04-29 21:06:09 +02:00
James Fellows Yates	39530b5ca7	Bump DIAMOND version to 2.0.15	2022-04-29 21:05:12 +02:00
Matthias De Smet	a9e8dbbdec	Merge pull request #1535 from matthdsm/tool/bamtools-split	2022-04-29 18:43:44 +02:00
Harshil Patel	4df985a065	Merge branch 'master' into tool/bamtools-split	2022-04-29 16:38:59 +01:00
Edmund Miller	0d8acda00c	Use issue forms	2022-04-29 14:35:29 +00:00
Edmund Miller	a8a4d76a65	chore: Add container version ... Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>	2022-04-29 14:34:20 +00:00
Edmund Miller	fb02d6e85f	chore: add OS version to bug report ... Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>	2022-04-29 14:34:20 +00:00
Edmund Miller	8bee7d4748	chore: Add image tag to bug report ... Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>	2022-04-29 14:34:20 +00:00
Edmund Miller	ef0483586a	chore: Use forms for feature request	2022-04-29 14:34:20 +00:00
Edmund Miller	816803dbe9	chore: Add checkboxes for bug report	2022-04-29 14:34:20 +00:00
Edmund Miller	2da712f6f3	chore: Use forms for new modules	2022-04-29 14:34:20 +00:00
Edmund Miller	cb29ae2187	chore: Use forms for bug report	2022-04-29 14:34:20 +00:00
Matthias De Smet	86484f3361	Merge pull request #1534 from matthdsm/tool/elprep-merge ... Tool/elprep merge	2022-04-29 15:18:45 +02:00
James A. Fellows Yates	23c42e9b76	Merge branch 'master' into tool/elprep-merge	2022-04-29 15:11:09 +02:00
James A. Fellows Yates	fa8edd917f	Merge pull request #1587 from jfy133/diamond-update ... Update DIAMOND/blast* to support all output formats	2022-04-29 15:08:18 +02:00
Matthias De Smet	9d0f03d96a	Update modules/elprep/merge/main.nf ... Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>	2022-04-29 15:07:09 +02:00
Matthias De Smet	7de207f93f	Merge branch 'master' into diamond-update	2022-04-29 15:02:54 +02:00
Matthias De Smet	bdbf629d93	Merge branch 'master' into tool/bamtools-split	2022-04-29 14:33:28 +02:00
Matthias De Smet	edadc9d216	Merge branch 'master' into tool/elprep-merge	2022-04-29 14:32:12 +02:00