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Author	SHA1	Message	Date
Rike	da79396f06	rename aligned to alignment	2022-05-09 16:07:49 +02:00
Rike	5bd456e5e8	rename file_type to output extension	2022-05-09 16:06:22 +02:00
Rike	1de1c2253e	Combine output after code review	2022-05-09 16:04:58 +02:00
Rike	24d5e7feed	Code review suggestions	2022-05-09 15:42:55 +02:00
Rike	ef5f145342	Generalize Bam2Cram do either conversion	2022-05-09 15:22:54 +02:00
FriederikeHanssen	52a62c238b	Merge branch 'nf-core:master' into master	2022-05-09 15:05:58 +02:00
Jasmin F	6b8e7ea8e3	Merge pull request #1637 from jasmezz/test_data_bacteroides ... Update test_data.config: Add Bacteroides fragilis GFF file	2022-05-09 14:59:15 +02:00
Jasmin F	453d5b66a4	Add Bacteroides fragilis GFF file	2022-05-09 14:46:18 +02:00
Harshil Patel	eb084d1dc0	Merge pull request #1626 from mahesh-panchal/meryl_count ... Meryl Count	2022-05-09 12:21:09 +01:00
Mahesh Binzer-Panchal	a43bc940d6	Add suggestions from code review	2022-05-09 11:15:14 +00:00
Mahesh Binzer-Panchal	32b0fdc9d9	Merge branch 'master' into meryl_count	2022-05-09 10:05:28 +02:00
Mahesh Binzer-Panchal	9ebeb6a702	Update test	2022-05-09 08:05:07 +00:00
Lucpen	38d4f81d20	Merge pull request #1623 from nf-core/correcting_stubs ... fix added correct entry workflow in test.yml	2022-05-09 10:02:56 +02:00
Mahesh Binzer-Panchal	4591ea2205	atomize	2022-05-09 07:58:58 +00:00
Lucpen	bdaed264a7	Merge branch 'master' into correcting_stubs	2022-05-09 08:54:22 +02:00
Maxime U. Garcia	9cfa06878e	Merge pull request #1629 from maxulysse/master_typos ... fix typos and spacing	2022-05-08 12:23:23 +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	2c5ecc87ed	Merge pull request #1628 from nf-core/maxulysse-patch-1 ... add missing file	2022-05-06 23:54:04 +02:00
Jose Espinosa-Carrasco	e2acf28c8f	Merge branch 'master' into maxulysse-patch-1	2022-05-06 23:53:27 +02:00
Harshil Patel	e36489d9e4	Merge pull request #1627 from nf-core/fix-prefetch ... Use a template to add retrying to prefetch	2022-05-06 19:43:43 +01:00
Harshil Patel	2676f8eef4	Merge branch 'master' into fix-prefetch	2022-05-06 19:33:44 +01:00
Matthias De Smet	b6dd8d2854	Merge pull request #1622 from matthdsm/update/snapaligner	2022-05-06 19:34:09 +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
Moritz E. Beber	ea41c753c0	fix: remove retry label ... Call gets retried by bash script	2022-05-06 17:28:56 +02:00
Moritz E. Beber	dd1c66783a	refactor: use a template to add retrying	2022-05-06 17:26:41 +02:00
Moritz E. Beber	ed09978222	chore: update build number	2022-05-06 17:26:41 +02:00
Mahesh Binzer-Panchal	67481c6d54	Start Meryl count	2022-05-06 15:04:04 +00:00
Sateesh Peri	e13d634764	Merge pull request #1239 from priyanka-surana/busco ... Busco	2022-05-06 10:11:42 -04:00
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
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	9fa6b6c1fc	Update meta.yml	2022-05-06 11:56:43 +00:00
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	56e9e6b921	Merge pull request #1619 from matthdsm/modules/md5sum ... new modules : md5sum / sha256sum	2022-05-06 12:37:49 +02:00
Jose Espinosa-Carrasco	035655e35d	Merge branch 'master' into modules/md5sum	2022-05-06 12:34:14 +02:00
Ramprasad Neethiraj	2ad7cb8a49	Merge pull request #1617 from ramprasadn/feat/update_cnvpytor ... Cnvpytor - merging calls from multiple samples	2022-05-06 12:03:49 +02:00
Ramprasad Neethiraj	e639b1e455	Merge branch 'master' into feat/update_cnvpytor	2022-05-06 12:03:12 +02:00
Ramprasad Neethiraj	77209d0866	Merge pull request #1618 from ramprasadn/feat/update_svdb ... update svdb version	2022-05-06 11:48:22 +02:00
Matthias De Smet	bd1b80f36e	fix software definitions	2022-05-06 11:07:05 +02:00
Ramprasad Neethiraj	1ccea5ff4d	remove prefix def in callcnvs	2022-05-06 10:56:58 +02:00
Matthias De Smet	1c7205d683	fixed container definitions	2022-05-06 10:44:51 +02:00
Matthias De Smet	77d825e043	fix copy paste errors	2022-05-06 10:39:13 +02:00