Simon Pearce
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a8faeda141
|
Update crukmi.config
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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
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179b343bd2
|
Incorporate resource limits
|
2022-08-31 09:18:27 -07:00 |
|
Bruno Grande
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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
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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
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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 |
|
Ramprasad Neethiraj
|
a6cce4ab6a
|
Merge branch 'master' into feat/hasta_java_memory_fix
|
2022-08-18 13:36:08 +02:00 |
|
SPearce
|
8ae3cba5e3
|
Reduce MPILEUP to 5GB
|
2022-08-15 11:35:59 +01:00 |
|
SPearce
|
0bfedde296
|
Initial attempt at a CRUKMI config file
|
2022-08-12 15:43:22 +01:00 |
|
Gwenna Breton
|
ffefefe0ab
|
Added contact emails
|
2022-08-08 16:11:55 +02:00 |
|
Gwenna Breton
|
6aa78833c3
|
Merge branch 'master' into medair
|
2022-08-01 16:46:55 +02:00 |
|
James A. Fellows Yates
|
0b47849532
|
Update mpcdf.config
|
2022-07-27 14:23:29 +02:00 |
|
Priyanka Surana
|
58508c4fbc
|
Sanger profile update
|
2022-07-20 13:14:42 +01:00 |
|
Nicolas Vannieuwkerke
|
f40825ac14
|
lower submission rate for vsc_ugent
|
2022-07-14 15:50:50 +02:00 |
|
Harshil Patel
|
2ab126fa4d
|
Update default Nextclade dataset to 2022-06-14T12:00:00Z
|
2022-07-11 18:28:41 +01:00 |
|
Gwenna Breton
|
4538e8aa36
|
Update medair.config
- added path to singularity image for Sentieon
- harmonized alignment
|
2022-07-07 13:41:42 +02:00 |
|
qlr900
|
d2b6b07de8
|
remove comments for mnaseseq
|
2022-07-06 14:18:31 +02:00 |
|
Gwennid
|
b6e2d03a02
|
Added Singularity cache dir
|
2022-07-06 13:59:35 +02:00 |
|
qlr900
|
6939c6f003
|
lower queueSize to 5
|
2022-07-06 13:34:18 +02:00 |
|
qlr900
|
49e756d1bc
|
fix typos
|
2022-07-06 12:39:55 +02:00 |
|
qlr900
|
56026c5ac4
|
remove beforeScript
|
2022-07-06 09:52:51 +02:00 |
|
qlr900
|
65d7080921
|
add conf/ku_sund_dangpu.config
|
2022-07-05 11:17:49 +02:00 |
|
James A. Fellows Yates
|
a141ff626b
|
Merge branch 'master' into eva-java-correction
|
2022-07-04 13:35:50 +02:00 |
|
Gwenna Breton
|
b3a6e199ca
|
Merge branch 'nf-core:master' into medair
|
2022-07-01 17:02:56 +02:00 |
|
Nicolas Vannieuwkerke
|
8a74c517d4
|
Merge branch 'vsc-ugent-fix' of github.com:nvnieuwk/configs into vsc-ugent-fix
|
2022-07-01 16:16:22 +02:00 |
|
Nicolas Vannieuwkerke
|
1e34595280
|
removed queue size limit
|
2022-07-01 16:16:18 +02:00 |
|
nvnieuwk
|
5ff845cde7
|
Merge branch 'master' into vsc-ugent-fix
|
2022-07-01 16:10:45 +02:00 |
|
Nicolas Vannieuwkerke
|
fa949a069e
|
added queuesize
|
2022-07-01 16:01:19 +02:00 |
|
Nicolas Vannieuwkerke
|
abfa3f47f4
|
lowered the job submit rate of vsc_ugent
|
2022-07-01 15:55:44 +02:00 |
|
Gwenna Breton
|
bb35d8e5d1
|
Added conf file for medair
|
2022-06-30 11:42:36 +02:00 |
|
Bruno Grande
|
6f0d9e6c43
|
Complete check_max() move to global config
|
2022-06-23 10:10:28 -07:00 |
|
Bruno Grande
|
a19d79f6ff
|
Move check_max() to global config
|
2022-06-23 09:44:16 -07:00 |
|
Bruno Grande
|
1c7230cb08
|
Add Sage-specific Sarek config
|
2022-06-23 09:15:42 -07:00 |
|
Bruno Grande
|
37121faf4a
|
Fix typoe with label name
|
2022-06-22 14:37:43 -07:00 |
|
Bruno Grande
|
ecd898584d
|
Handle Sarek-specific max labels
|
2022-06-22 13:54:13 -07:00 |
|
Bruno Grande
|
c7093dee13
|
Reduce max_memory to fit on an instance
|
2022-06-16 12:37:32 -07:00 |
|
James A. Fellows Yates
|
51d057564f
|
Fix python related seg faults mag@eva
|
2022-06-15 15:40:42 +02:00 |
|
James Fellows Yates
|
ba8bffbdfd
|
Use env scope instead of beforescript for mag@eva
|
2022-06-15 15:39:36 +02:00 |
|
James Fellows Yates
|
d12d98fb2e
|
Merge branches 'master' and 'eva-java-correction' of github.com:jfy133/nf-core-configs into master
|
2022-06-15 15:38:35 +02:00 |
|
James Fellows Yates
|
acabcbd9e8
|
Use _JAVA_OPTIONS instead
|
2022-06-15 15:27:40 +02:00 |
|
James Fellows Yates
|
76b0d1dd85
|
Merge branch 'eva-java-correction' of github.com:jfy133/nf-core-configs into eva-java-correction
|
2022-06-15 15:22:25 +02:00 |
|
James Fellows Yates
|
58dd9d49c7
|
Move beforeScript exports to env scope
|
2022-06-15 15:21:20 +02:00 |
|
Emil Bertilsson
|
c8c795595a
|
Merge branch 'nf-core:master' into feat/hasta_java_memory_fix
|
2022-06-09 15:10:46 +02:00 |
|
Emil Bertilsson
|
72e995f326
|
Adds generic fix for java memory issue on slurm
|
2022-06-09 10:28:20 +02:00 |
|
Bruno Grande
|
2898736cbe
|
Add Sage Bionetworks nf-core configuration
|
2022-06-08 14:16:52 -07:00 |
|
Nicolas Vannieuwkerke
|
b6d38859f0
|
fix for singularity cache for vsc_ugent profile
|
2022-06-08 16:28:28 +02:00 |
|
Nicolas Vannieuwkerke
|
98eacf030d
|
fix for singularity cache for vsc_ugent profile
|
2022-06-08 16:27:48 +02:00 |
|
Andrew Frank
|
d8c2775976
|
Update google.config to fix custom VM memory error
|
2022-06-07 09:41:41 -04:00 |
|
Maxime U. Garcia
|
844d250011
|
Merge branch 'master' into eva-java-correction
|
2022-06-07 11:57:05 +02:00 |
|
Nicolas Vannieuwkerke
|
44e25830e4
|
update for vsc_ugent
|
2022-06-07 11:33:22 +02:00 |
|
James A. Fellows Yates
|
46fba9c597
|
Update eva.config
|
2022-06-03 21:10:48 +02:00 |
|
James A. Fellows Yates
|
05cc8a08f1
|
Update eva.config
|
2022-06-03 21:08:19 +02:00 |
|
Åshild J. Vågene
|
ed526530d2
|
Rename mjolnir_globe to mjolnir_globe.config
|
2022-06-03 17:15:12 +02:00 |
|
Åshild J. Vågene
|
22ed36a73d
|
cacheDir update
|
2022-06-03 15:33:58 +02:00 |
|
James Fellows Yates
|
9ef52af084
|
Increase overhead
|
2022-06-03 14:24:27 +02:00 |
|
James Fellows Yates
|
c40ebb9acf
|
Add overhead for get_software_versions
|
2022-06-03 14:21:41 +02:00 |
|
James Fellows Yates
|
df0429ce9d
|
Replace oracle specific _JAVA_OPTIONS to portable JAVA_TOOLS_OPTIONS
|
2022-06-03 14:20:39 +02:00 |
|
Phil Ewels
|
b51059a3ae
|
Merge branch 'master' into config_ucph-mjolnir_ash
|
2022-06-03 13:21:36 +02:00 |
|
James A. Fellows Yates
|
7353fb257d
|
Merge pull request #380 from jfy133/taxprofiler
Add MAG @ EVA profile
|
2022-06-03 12:54:47 +02:00 |
|
James Fellows Yates
|
5a67eba04c
|
Add MAG @ EVA profile
|
2022-06-03 12:41:08 +02:00 |
|
Åshild J. Vågene
|
9b9a6f0188
|
Update and rename holo_globe to mjolnir_globe
|
2022-06-02 15:09:52 +02:00 |
|
Åshild J. Vågene
|
6d9cc91c5f
|
Update holo_globe
|
2022-06-02 15:03:47 +02:00 |
|
Åshild J. Vågene
|
64fe4677b1
|
Update holo_globe
|
2022-05-31 15:26:23 +02:00 |
|
Åshild J. Vågene
|
0b51552e88
|
Update holo_globe
|
2022-05-31 15:23:43 +02:00 |
|
Emil Bertilsson
|
80e2a50a2f
|
Merge pull request #378 from raysloks/feat/hasta_java_memory_fix
Feat/hasta java memory fix
|
2022-05-30 14:40:52 +02:00 |
|
Emil
|
8453f6b41a
|
Moves qualimap arg to pipeline-specific config
|
2022-05-30 12:58:12 +02:00 |
|
Emil
|
29fa08c434
|
Adds _JAVA_OPTIONS to singularity whitelist
|
2022-05-30 11:07:24 +02:00 |
|
Emil
|
19497a4183
|
Makes qualimap fix work for most memory amounts
|
2022-05-30 11:06:48 +02:00 |
|
Åshild J. Vågene
|
bb25c77e7c
|
Update holo_globe
|
2022-05-20 17:01:30 +02:00 |
|
Åshild J. Vågene
|
d3e5c79fb4
|
Create holo_globe
|
2022-05-20 15:44:20 +02:00 |
|
Nicolas Vannieuwkerke
|
c2b26a734d
|
automated the internal cache dir location for singularity
|
2022-05-20 09:48:19 +02:00 |
|
Nicolas Vannieuwkerke
|
cc86e6b270
|
Added the VSC UGent profile
|
2022-05-20 09:12:18 +02:00 |
|
Sarah Guinchard
|
be9711731a
|
Merge pull request #375 from nf-core/ifb_core-config-update
Ifb core config update
|
2022-05-13 14:45:44 +02:00 |
|
Sarah Guinchard
|
3538f8511a
|
removed comment
|
2022-05-12 11:02:42 +02:00 |
|
sofstam
|
54b3cda34d
|
Add review suggestion
|
2022-05-12 11:00:26 +02:00 |
|
Sarah Guinchard
|
6bb7c1a422
|
Update config file with queue & correct ressources
|
2022-05-12 10:55:00 +02:00 |
|
sofstam
|
c59149d64c
|
Update docs for hasta config
|
2022-05-12 10:47:03 +02:00 |
|
James Fellows Yates
|
e1f780d976
|
Add taxprofiler for eVA
|
2022-05-12 07:54:17 +01:00 |
|
sofstam
|
5bc6ed90bd
|
Add hasta config for taxprofiler
|
2022-05-11 11:13:31 +02:00 |
|
Thiseas C. Lamnidis
|
d09f5fc116
|
Update eva.config
eigenstrat_snp_coverage also loads pandas
|
2022-05-06 15:12:04 +02:00 |
|