1641 commits

Author	SHA1	Message	Date
FriederikeHanssen	5b27af025a	Merge branch 'master' into manta_convert	2022-06-13 09:29:50 +02:00
FriederikeHanssen	e5b0c7ed25	Update tests/modules/manta/convertinversion/main.nf ... Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se>	2022-06-13 09:26:35 +02:00
Rike	650076cacf	add manta conversion script	2022-06-11 13:01:18 +02:00
Taniguti	547f483b74	Merge branch 'master' into haplocheck	2022-06-10 20:39:33 -03:00
Jasmin F	7027719c67	Merge branch 'master' into r-ampir	2022-06-10 14:57:24 +02:00
Mahesh Binzer-Panchal	f8bd7902d9	Update Git SHA messagre	2022-06-10 11:01:40 +00:00
Mahesh Binzer-Panchal	25c742dc69	Commit suggestions from code review	2022-06-10 10:56:56 +00:00
jasmezz	088b5b14f6	Merge branch 'r-ampir' of github.com:jasmezz/modules into r-ampir	2022-06-10 12:54:47 +02:00
jasmezz	39388abc04	Add file name collision check + TSV output	2022-06-10 12:54:39 +02:00
Mahesh Binzer-Panchal	6a1cbce0f5	Update tests/test_versions_yml.py ... Co-authored-by: Fabian Egli <fabianegli@users.noreply.github.com>	2022-06-10 12:54:08 +02:00
Mahesh Binzer-Panchal	e75dd10667	Merge branch 'master' into allow_git_sha_versions	2022-06-10 12:53:50 +02:00
Alexander Peltzer	a0747b1405	Remove empty file md5sum	2022-06-10 11:53:28 +02:00
Alexander Peltzer	63f47551a8	Fix empty test having md5sum	2022-06-10 11:52:30 +02:00
Alexander Peltzer	1fbe69cfcc	Updated and fixed tests	2022-06-10 11:46:23 +02:00
Mahesh Binzer-Panchal	0479544e02	Allow Git commit SHA's as version numbers	2022-06-10 09:46:14 +00:00
Alexander Peltzer	8dfe8b795f	Merge remote-tracking branch 'refs/remotes/origin/cellranger-7.0.0' into cellranger-7.0.0	2022-06-10 11:23:15 +02:00
Alexander Peltzer	4928dfad34	Trying to fix tests	2022-06-10 11:22:45 +02:00
Alexander Peltzer	570a43ba4c	Fix tests	2022-06-10 11:21:03 +02:00
Thiseas C. Lamnidis	9948e9fe21	Merge branch 'master' into sexdeterrmine	2022-06-10 11:03:18 +02:00
James A. Fellows Yates	c9db677a45	Merge branch 'master' into r-ampir	2022-06-09 19:28:37 +02:00
jasmezz	5841f11edb	Replace MD5 with contains check	2022-06-09 18:15:27 +02:00
jasmezz	ecf1d146ab	Add full user options for AMPir	2022-06-09 16:59:00 +02:00
Maxime U. Garcia	878a5a8093	Merge branch 'master' into update_spark	2022-06-09 15:49:31 +02:00
Rike	30262d1fdd	remove variable checksum	2022-06-09 15:44:12 +02:00
Rike	a5583143c4	update checksum	2022-06-09 15:38:28 +02:00
jasmezz	ba53e09b64	Implement suggestions from code review	2022-06-09 15:37:35 +02:00
Rike	95633c6853	update checksum	2022-06-09 15:30:47 +02:00
Nicolas Vannieuwkerke	c50df9ad04	fix test.yml	2022-06-09 15:14:37 +02:00
Nicolas Vannieuwkerke	81fff7384d	small fix and typo	2022-06-09 15:08:02 +02:00
Nicolas Vannieuwkerke	14d38e43cf	fix test.yml	2022-06-09 14:58:20 +02:00
nvnieuwk	bf73b6d376	Merge branch 'master' into new-module-gatk4/reblockgvcf	2022-06-09 14:57:20 +02:00
Nicolas Vannieuwkerke	fe9e4ece00	new module gatk4/reblockgvcf	2022-06-09 14:56:55 +02:00
nvnieuwk	6d10909e9f	Update tests/modules/ensemblvep/main.nf ... Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se>	2022-06-09 11:55:41 +02:00
nvnieuwk	e88a4ff70b	Merge branch 'master' into add-optional-fasta-parameter-to-ensemblvep	2022-06-09 11:54:22 +02:00
Nicolas Vannieuwkerke	e60323b757	typo	2022-06-09 11:53:59 +02:00
Nicolas Vannieuwkerke	7947bc662c	added an extra test without fasta	2022-06-09 11:53:16 +02:00
Nicolas Vannieuwkerke	a3202e41ec	prettier	2022-06-09 11:47:24 +02:00
Nicolas Vannieuwkerke	5ccf6fbcc9	add optional fasta argument to ensemblvep	2022-06-09 11:45:27 +02:00
SusiJo	0204d2374b	Merge remote-tracking branch 'origin/master' into gatk_spark	2022-06-09 09:33:17 +02:00
James Fellows Yates	4d7afa21e2	Add GATK indelrealigner tests	2022-06-08 21:14:08 +02:00
James A. Fellows Yates	1fc0d3de4b	Merge branch 'gatk3-indelrealigner' into upstream-for-indel	2022-06-08 20:30:19 +02:00
James A. Fellows Yates	4a2157e5ab	Merge branch 'master' into gatk-realigntargetcreator	2022-06-08 20:15:02 +02:00
Taniguti	89bffe3a5e	Merge branch 'master' into haplocheck	2022-06-08 15:00:06 -03:00
Ramprasad Neethiraj	1d67489056	update test	2022-06-08 16:36:02 +02:00
Ramprasad Neethiraj	0b090a6b6d	Merge branch 'master' of https://github.com/nf-core/modules into rhocall	2022-06-08 16:34:34 +02:00
Taniguti	d037f0ec97	Merge branch 'master' into haplocheck	2022-06-08 10:47:38 -03:00
Ramprasad Neethiraj	3cabdfac20	Merge branch 'master' into update_roh	2022-06-08 15:04:34 +02:00
Ramprasad Neethiraj	c079ee2025	fix test	2022-06-08 14:48:16 +02:00
Matthias De Smet	c005a5e007	formatting	2022-06-08 14:42:58 +02:00
Matthias De Smet	100b3f244c	Apply suggestions from code review ... Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se>	2022-06-08 14:24:55 +02:00