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Author	SHA1	Message	Date
Nicolas Vannieuwkerke	71c5d21374	ran prettier	2022-05-03 08:34:12 +02:00
Nicolas Vannieuwkerke	9127f92ddd	Merge branch 'vardict-java' of github.com:nvnieuwk/modules into vardict-java	2022-05-03 08:29:50 +02:00
Nicolas Vannieuwkerke	9a10e5beb5	Added the missing inputs in meta.yml + correct notation	2022-05-03 08:29:46 +02:00
Matthias De Smet	1687bfcb85	Merge branch 'master' into add-slimfastq	2022-05-03 08:22:49 +02:00
Matthias De Smet	a67c06af81	Merge branch 'master' into vardict-java	2022-05-03 08:22:19 +02:00
Nicolas Vannieuwkerke	d8782d7976	Merge branch 'vardict-java' of github.com:nvnieuwk/modules into vardict-java	2022-05-03 08:20:13 +02:00
Nicolas Vannieuwkerke	b8a59c2b17	Fixed version annotation	2022-05-03 08:20:10 +02:00
Sateesh Peri	88a9a55c80	Merge pull request #1574 from jvhagey/srst2/srst2 ... new module: srst2/srst2	2022-05-02 20:21:23 -04:00
Jill V. Hagey, PhD	23cfb5dd42	Update test.yml	2022-05-02 18:38:48 -04:00
Jill V. Hagey, PhD	db9681029c	Update test.yml	2022-05-02 18:27:01 -04:00
Jill V. Hagey, PhD	7b0d6f96fd	Update test.yml	2022-05-02 18:20:54 -04:00
Jill V. Hagey, PhD	e5d7c80bb5	Update test.yml	2022-05-02 18:13:14 -04:00
Moritz E. Beber	16aa3915e3	feat: add module for slimfastq	2022-05-02 23:16:59 +02:00
Ramprasad Neethiraj	3194729f82	Merge branch 'master' into adding_stub_to_modules	2022-05-02 18:31:55 +02:00
Jill V. Hagey, PhD	99a8711997	Update tests/modules/srst2/srst2/test.yml ... Co-authored-by: Edmund Miller <edmund.a.miller@gmail.com>	2022-05-02 12:26:56 -04:00
JIANHONG OU	5735f515f8	fix a typo in version export.	2022-05-02 12:25:48 -04:00
Sateesh Peri	c56b371713	Merge branch 'master' into srst2/srst2	2022-05-02 12:13:11 -04:00
jvhagey	cd45dc1550	linting test.yml	2022-05-02 11:38:39 -04:00
Jasmin F	f70cfbe1d7	Merge pull request #1581 from jasmezz/antismash_db_output ... Antismash db output	2022-05-02 17:37:01 +02:00
jvhagey	24dc2d2113	added tests	2022-05-02 11:30:19 -04:00
Jasmin F	235944f797	Merge branch 'master' into antismash_db_output	2022-05-02 17:11:51 +02:00
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
JIANHONG OU	250d64dfde	fix the typo of motus_downloadb.	2022-05-02 08:52:54 -04:00
JIANHONG OU	b14f30936e	Merge branch 'nf-core:master' into motus_downloaddb	2022-05-02 08:42:09 -04:00
JIANHONG OU	31dd31079d	update teh versions.yml	2022-05-02 08:41:41 -04:00
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
JIANHONG OU	f1e4591468	Merge branch 'motus_downloaddb' of github.com:jianhong/modules into motus_downloaddb	2022-05-02 08:19:16 -04:00
JIANHONG OU	3f07761da5	remove the output check for the versions.yml.	2022-05-02 08:19:13 -04:00
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