896 commits

Author	SHA1	Message	Date
Cedric	d429a59a0d	add automounts for singularity	2022-10-02 18:44:22 -10:00
Cedric Arisdakessian	c479780d8f	create mana config	2022-10-03 03:38:20 +00:00
Bruno Grande	735df9ef76	Merge branch 'master' into bgrande/sage-improve-downloads	2022-09-26 10:22:27 -07:00
Patrick Hüther	51ae760889	Merge pull request #413 from phue/biohpc_charliecloud_patch ... biohpc_gen: update required modules	2022-09-25 23:28:04 +02:00
Simon Pearce	17c3767fef	Update crukmi.config ... Fix the singularity cache dir and add process_single.	2022-09-23 12:53:54 +01:00
Adrija Kalvisa	7959b14385	Merge branch 'nf-core:master' into master	2022-09-22 13:15:32 +02:00
Austyn Trull	5400df135d	Merge pull request #412 from nf-core/cheaha_env_variable_updates ... Fix cheaha config due to use of incorrect variable	2022-09-21 13:38:24 -05:00
Patrick Hüther	85aa6adeed	Merge branch 'master' into biohpc_charliecloud_patch	2022-09-18 12:52:33 +02:00
ggabernet	c709be3b59	update cfc config maintenance	2022-09-18 12:06:37 +02:00
Bruno Grande	8bb9361359	Improve reliability of file transfers	2022-09-17 10:14:04 -07:00
James A. Fellows Yates	ec638e62de	Apply suggestions from code review ... Co-authored-by: Jasmin F <73216762+jasmezz@users.noreply.github.com>	2022-09-15 09:10:29 +02:00
James A. Fellows Yates	b8751af6c6	Update conf/pipeline/mag/eva.config	2022-09-14 16:17:17 +02:00
James Fellows Yates	c0effc0366	Add HKI profile files	2022-09-14 15:34:27 +02:00
James A. Fellows Yates	8ea01e2041	Merge branch 'nf-core:master' into master	2022-09-14 15:01:34 +02:00
James A. Fellows Yates	3fcf708134	Merge pull request #414 from sheffield-bioinformatics-core/sbc_sharc ... Added global institutional and pipeline configs for sbc_sharc	2022-09-14 11:46:41 +02:00
lquayle88	91bfa7341f	Made changes requested for PR	2022-09-14 08:42:40 +01:00
Bruno Grande	3d3ee391be	Limit the number of parallel transfers	2022-09-13 13:15:30 -07:00
lquayle88	9fef35d7d3	Updated pipeline configs for atacseq and chipseq	2022-09-13 17:08:56 +01:00
lquayle88	a9b62c53e0	Added global institutional and pipeline configs for sbc_sharc	2022-09-13 17:02:44 +01:00
Bruno Grande	abae5c4bd8	Decrease AWS Batch queue size	2022-09-12 11:40:43 -07:00
phue	b20f28a3c9	biohpc_gen: load charliecloud from lrz software tree and remove conda fallback ... the biohpc_gen specific software tree is less maintained and outdated	2022-09-05 11:25:33 +02:00
Bruno Grande	80831358f9	Merge branch 'master' into bgrande/sage-aws	2022-09-01 13:21:36 -07:00
Lara Ianov	8448bb9a1e	re-define TMPDIR	2022-09-01 10:12:07 -05:00
Simon Pearce	2c738cae33	Update crukmi.config	2022-09-01 11:24:11 +01:00
Simon Pearce	a8faeda141	Update crukmi.config	2022-09-01 11:23:07 +01:00
SPearce	800931bff2	Add Sarek specific config	2022-09-01 11:13:23 +01:00
Simon Pearce	ba1d3f24cc	Update crukmi.config	2022-09-01 11:07:14 +01:00
Simon Pearce	81768e16a9	Merge branch 'nf-core:master' into crukmi	2022-09-01 10:20:25 +01:00
Simon Pearce	14a97ad0e8	Merge branch 'master' into crukmi	2022-09-01 10:07:24 +01:00
James Fellows Yates	b22e8b79c7	Fix cheaha config due to use of environmental variable	2022-09-01 11:01:23 +02:00
Kalayanee Chairat	9681716205	Update adcra.config ... Fixing typo	2022-09-01 15:11:18 +07:00
Kalayanee Chairat	700f14d828	Merge pull request #1 from nf-core/master ... Merging from master	2022-09-01 15:07:43 +07:00
Simon Pearce	864da0b5be	Merge branch 'master' into crukmi	2022-08-31 18:19:47 +01:00
Bruno Grande	9a37404a04	Merge branch 'master' into bgrande/sage-aws	2022-08-31 09:22:07 -07:00
Bruno Grande	179b343bd2	Incorporate resource limits	2022-08-31 09:18:27 -07:00
Bruno Grande	c883723559	Simplify resource adjustments	2022-08-31 09:10:30 -07:00
SPearce	1e1ca1e96b	Incorporating executor options	2022-08-31 15:35:57 +01:00
Annick Renevey	51871ea6fc	rnafusion setup for hasta usage	2022-08-31 11:32:01 +02:00
Lara Ianov	08b62ede83	Merge pull request #404 from nf-core/cheaha_singularity_update ... Cheaha Config Update	2022-08-30 14:45:50 -05:00
James A. Fellows Yates	c70a95f9c9	Merge branch 'master' into patch-2	2022-08-29 08:23:31 +02:00
Bruno Grande	9c8cb71bc7	Merge branch 'master' into bgrande/sage-aws	2022-08-25 16:29:20 -07:00
Bruno Grande	317e5a16cb	Improve AWS-related config for Sage profile	2022-08-25 16:24:52 -07:00
kalayaneech	93c4ba67a0	adding adcra configuration	2022-08-25 16:17:09 +07:00
Harshil Patel	8b9661825b	Replace NC_063383.1 fasta and gff and add Nextclade config	2022-08-24 15:21:44 +01:00
Harshil Patel	8dcfcfd856	Add monkeypox genome files to viralrecon genome config file	2022-08-24 12:13:17 +01:00
Austyn Trull	8d5ae4c3ab	Committing changes made by Brandon Wilk so that singularity containers will use scratch space	2022-08-23 15:30:13 -05:00
Ramprasad Neethiraj	9182b55acc	Merge branch 'master' into feat/hasta_update	2022-08-23 11:21:58 +02:00
Ramprasad Neethiraj	7ff2977a29	Merge branch 'master' of github.com:nf-core/configs into feat/hasta_update	2022-08-18 15:58:56 +02:00
Ramprasad Neethiraj	dd63dee7aa	update conf	2022-08-18 15:56:41 +02:00
Ramprasad Neethiraj	1c942759ea	update sentieon	2022-08-18 15:52:31 +02:00