1472 commits

Author	SHA1	Message	Date
James A. Fellows Yates	8a83ad0518	Merge branch 'master' into motus_profile	2022-05-09 08:16:16 +02:00
MaxUlysse	3d428e2933	fix spacing	2022-05-07 15:28:40 +02:00
MaxUlysse	1013be2623	fix path to script	2022-05-07 15:22:52 +02:00
Jose Espinosa-Carrasco	e2acf28c8f	Merge branch 'master' into maxulysse-patch-1	2022-05-06 23:53:27 +02:00
Matthias De Smet	0752b82c9f	Merge branch 'master' into update/snapaligner	2022-05-06 18:57:37 +02:00
Matthias De Smet	dd458e3388	fix tags	2022-05-06 18:57:17 +02:00
Maxime U. Garcia	ac217479e9	Update tests/config/test_data.config ... Co-authored-by: Jose Espinosa-Carrasco <kadomu@gmail.com>	2022-05-06 18:18:32 +02:00
Maxime U. Garcia	ec7b460fa4	add missing file	2022-05-06 17:54:35 +02:00
Mahesh Binzer-Panchal	67481c6d54	Start Meryl count	2022-05-06 15:04:04 +00:00
Mahesh Binzer-Panchal	1e55ad987f	Merge branch 'master' into kat_hist	2022-05-06 16:35:51 +02:00
nvnieuwk	5153e10840	Merge branch 'master' into new-module-rtg/vcfeval	2022-05-06 16:19:17 +02:00
Nicolas Vannieuwkerke	8c857dee3a	Fixed the sdf folder fetching	2022-05-06 16:16:57 +02:00
Lucpen	8e5fda3b10	Merge branch 'master' into correcting_stubs	2022-05-06 15:37:08 +02:00
Lucpen	971a17a3ab	fix datatest for stubs	2022-05-06 15:34:18 +02:00
Mahesh Binzer-Panchal	7a85760d08	remove 'auto' test	2022-05-06 13:33:27 +00:00
Lucpen	0fa36e6777	fix added correct entry workflow in test.yml	2022-05-06 15:26:34 +02:00
JIANHONG OU	9b50036e9b	add test_bam and -m parameter for motus_profile	2022-05-06 08:56:42 -04:00
JIANHONG OU	c301a406dd	Merge branch 'nf-core:master' into motus_profile	2022-05-06 08:33:43 -04:00
Nicolas Vannieuwkerke	84b354ab6a	Added the rtgtools/vcfeval module	2022-05-06 14:23:40 +02:00
JIANHONG OU	26d5b4da72	Update tests/modules/motus/profile/main.nf ... Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>	2022-05-06 08:19:54 -04:00
Matthias De Smet	26d2231e85	fix linting	2022-05-06 14:16:38 +02:00
Matthias De Smet	3930ba227b	merge snapaligner modes into one	2022-05-06 14:10:44 +02:00
Mahesh Binzer-Panchal	a9f23bb477	Merge branch 'master' into busco	2022-05-06 13:49:01 +02:00
Mahesh Binzer-Panchal	35c5828f43	Add --auto-lineage option and remove single_end ... Co-authored-by: Jill V. Hagey, PhD <jvhagey@gmail.com>	2022-05-06 11:48:21 +00:00
Jose Espinosa-Carrasco	035655e35d	Merge branch 'master' into modules/md5sum	2022-05-06 12:34:14 +02:00
Mahesh Binzer-Panchal	c19e7da59d	Apply suggestions from code review ... Remove versions md5sum Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>	2022-05-06 10:55:48 +02:00
Matthias De Smet	09e729ad41	added sha256sum	2022-05-06 10:28:14 +02:00
Mahesh Binzer-Panchal	d83281eac9	Merge branch 'master' into kat_hist	2022-05-06 10:02:44 +02:00
Mahesh Binzer-Panchal	9194fb845e	Add module kat hist	2022-05-06 07:54:10 +00:00
Matthias De Smet	853b623969	new module: md5sum	2022-05-06 09:20:40 +02:00
Ramprasad Neethiraj	db56d80060	Merge branch 'master' of https://github.com/nf-core/modules into feat/update_cnvpytor	2022-05-06 00:10:28 +02:00
Ramprasad Neethiraj	e4e4f8090c	combine multiple pytor	2022-05-05 23:59:12 +02:00
JIANHONG OU	b8efa2ae7c	Merge branch 'master' into motus_profile	2022-05-05 13:41:54 -04:00
JIANHONG OU	fb5c5d310a	update motus module.	2022-05-05 13:38:46 -04:00
Sateesh Peri	faf45edc5e	Merge branch 'master' into busco	2022-05-05 12:48:39 -04:00
Ramprasad Neethiraj	db2acba71b	Merge branch 'master' into feat/update_cnvpytor	2022-05-05 17:31:10 +02:00
Sateesh Peri	3414d3aba3	Merge branch 'master' into busco	2022-05-05 10:08:55 -04:00
JIANHONG OU	c8f2c44e22	Merge remote-tracking branch 'origin' into motus_profile	2022-05-05 09:41:13 -04:00
JIANHONG OU	a8bc386ea3	Merge branch 'master' into motus_downloaddb	2022-05-05 09:36:25 -04:00
JIANHONG OU	566c11dacc	Merge branch 'master' into motus_downloaddb	2022-05-05 08:28:10 -04:00
Francesco L	97f318eea6	Merge branch 'master' into firstbranch	2022-05-05 14:25:00 +02:00
Carpanzano	a700a9c15e	Merge branch 'firstbranch' of github.com:carpanz/modules into firstbranch	2022-05-05 13:52:45 +02:00
Carpanzano	9083d3bb3d	integrating suggestions from PR comments, including recovery of tests for kronadb and more detailed explanation of input database in yml file	2022-05-05 13:51:41 +02:00
jasmezz	24b9c397dd	Apply suggestions from code review + add support for GFF annotations	2022-05-05 13:14:39 +02:00
MaxUlysse	40dd662fd2	update ensemblvep and snpeff modules	2022-05-05 12:57:14 +02:00
James A. Fellows Yates	e60c6f9bfd	Merge branch 'master' into firstbranch	2022-05-05 10:57:27 +02:00
jasmezz	6a7aec8b41	Remove prokka test workflow	2022-05-05 10:22:02 +02:00
Mahesh Binzer-Panchal	58ea709f7f	Merge branch 'master' into busco	2022-05-05 09:34:14 +02:00
ljmesi	888e122f05	Merge branch 'add_compression_to_bam2fq' of https://github.com/Genomic-Medicine-Linkoping/modules into add_compression_to_bam2fq	2022-05-05 08:32:48 +02:00
ljmesi	be8ce6de2a	Remove variable md5sum from the tests	2022-05-05 08:32:45 +02:00