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Author SHA1 Message Date
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
Maxime U. Garcia
326ab0036e
Merge pull request #415 from Sage-Bionetworks-Workflows/bgrande/sage-tweaks 
Adjust AWS-related configuration to improve reliability
 2022-09-14 11:31:10 +02:00
lquayle88
be356eb400 Ran prettier on docs/sbc_sharc.md 2022-09-14 10:24:56 +01:00
ameynert
9167e81214
Added other Java processes with memory overhead, sorted alphabetically 2022-09-14 09:07:09 +01:00
lquayle88
32403b6222 Updated pipeline config docs for atacseq, chipseq and rnaseq 2022-09-14 08:46:11 +01:00
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
Lewis Quayle
61ae463606
Updated sbc_sharc.md 2022-09-13 17:13:57 +01:00
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
ameynert
91ef9a3241
Added another Java process with overhead 2022-09-13 09:27:13 +01:00
Bruno Grande
abae5c4bd8 Decrease AWS Batch queue size 2022-09-12 11:40:43 -07:00
ameynert
a808933da8
Added another Java process that needs memory overhead 2022-09-09 08:37:21 +01:00
ameynert
29a0b30d85
Updated process names to Sarek 3 2022-09-07 16:00:52 +01:00
ameynert
d84754d328
Merge pull request #5 from nf-core/master 
Merge in from base repository
 2022-09-07 15:45:08 +01:00
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the biohpc_gen specific software tree is less maintained and outdated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
47fa890ad7
Merge pull request #407 from Sage-Bionetworks-Workflows/bgrande/sage-aws 
Improve AWS-related config for Sage profile
 2022-09-01 13:29:49 -07:00
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
6b83603325
Merge pull request #400 from SPPearce/crukmi 
Cancer Research UK Manchester Institute config
 2022-09-01 14:01:00 +01:00
SPearce
a142ad7eae Added link to Sarek specific documentation 2022-09-01 13:55:08 +01:00
SPearce
5981b643c5 Updated the sarek pipeline config 2022-09-01 11:47:12 +01:00
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
897d0a188b
Update nfcore_custom.config 
Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se>
 2022-09-01 10:32:43 +01:00
Simon Pearce
df685f4f0f
Merge branch 'master' into crukmi 2022-09-01 10:29:08 +01:00
James A. Fellows Yates
3664b4812d
Merge pull request #411 from nf-core/docs-improvement 
Add documentation for when you need to use an environmental variable
 2022-09-01 11:24:31 +02:00
Simon Pearce
81768e16a9
Merge branch 'nf-core:master' into crukmi 2022-09-01 10:20:25 +01:00
James A. Fellows Yates
5769927bbc
Merge branch 'master' into docs-improvement 2022-09-01 11:15:10 +02:00
Maxime U. Garcia
ebcc3d278f
Merge pull request #410 from nf-core/chear-var-fix 
Fix cheaha config due to use of environmental variable
 2022-09-01 11:13:37 +02:00
James Fellows Yates
51f0359b3d Add documentation for when you need to use an environmental variable 2022-09-01 11:12:15 +02:00
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
ameynert
69468e7ca7
Merge pull request #409 from kalayaneech/master 
A new profile for adcra [KMUTT]
 2022-09-01 09:55:12 +01:00
ameynert
28e59e38b4
Run prettier 2022-09-01 09:28:05 +01:00
Kalayanee Chairat
8e275182ea
Update main.yml 2022-09-01 15:16:56 +07:00
Kalayanee Chairat
bf2ab39ea0
Update README.md 2022-09-01 15:15:51 +07:00
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