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Author SHA1 Message Date
Harshil Patel
2ab126fa4d
Update default Nextclade dataset to 2022-06-14T12:00:00Z 2022-07-11 18:28:41 +01:00
James A. Fellows Yates
08435ca300
Merge pull request #382 from jfy133/eva-java-correction 
EAGER @ EVA Further Java workarounds
 2022-07-04 13:42:13 +02:00
James A. Fellows Yates
a141ff626b
Merge branch 'master' into eva-java-correction 2022-07-04 13:35:50 +02:00
Maxime U. Garcia
49e779e337
Merge pull request #394 from nvnieuwk/vsc-ugent-fix 
Vsc ugent fix for job-intensive pipelines
 2022-07-01 16:26:41 +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
Maxime U. Garcia
23669d2df6
Merge pull request #393 from Sage-Bionetworks-Workflows/bgrande/sage-sarek-config 
Include `check_max()` definition for Sage configuration
 2022-06-23 21:47:17 +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
Phil Ewels
1730751d97
Merge pull request #389 from Sage-Bionetworks-Workflows/bgrande/sage-config 
[WIP] Add custom configuration for Sage Bionetworks
 2022-06-23 11:34:40 +02:00
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 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
Bruno Grande
2898736cbe Add Sage Bionetworks nf-core configuration 2022-06-08 14:16:52 -07:00
Maxime U. Garcia
b50af6bf7e
Merge pull request #388 from nvnieuwk/singularity-fix-for-vsc_ugent 
Singularity fix for vsc ugent
 2022-06-08 16:34:38 +02:00
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
Maxime U. Garcia
844d250011
Merge branch 'master' into eva-java-correction 2022-06-07 11:57:05 +02:00
Maxime U. Garcia
5fdc8b7b1b
Merge pull request #381 from maxulysse/master 
add fix linting from comment
 2022-06-07 11:54:19 +02:00
Maxime U. Garcia
b0f1746abf
Merge branch 'master' into master 2022-06-07 11:42:50 +02:00
James A. Fellows Yates
515cbf0a77
Merge pull request #385 from nvnieuwk/fix-for-failing-tests-vsc-ugent-profile 
Fix for failing tests for vsc_ugent
 2022-06-07 11:41:00 +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
Maxime U. Garcia
4587fc4215
Merge pull request #379 from nf-core/config_ucph-mjolnir_ash 
custom config mjolnir_globe
 2022-06-03 17:28:57 +02:00
Åshild J. Vågene
ed526530d2
Rename mjolnir_globe to mjolnir_globe.config 2022-06-03 17:15:12 +02:00
Åshild J. Vågene
34feaa8b6b
prettier output 2022-06-03 17:08:15 +02:00
Åshild J. Vågene
2d82218318
typo 2022-06-03 16:42:08 +02:00
MaxUlysse
5a04f62681 add fix linting from comment 2022-06-03 15:57:24 +02:00
Åshild J. Vågene
144ca851c1
Update mjolnir_globe.md 2022-06-03 15:36:19 +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 A. Fellows Yates
24e165c52d
Update pipeline/mag.config 2022-06-03 12:51:47 +02:00
James A. Fellows Yates
97d57539e3
Apply suggestions from code review 
Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se>
 2022-06-03 12:51:20 +02:00
James Fellows Yates
5a67eba04c Add MAG @ EVA profile 2022-06-03 12:41:08 +02:00
Åshild J. Vågene
1d23ba9264
change name of tmp dir to .tmp_nfcore 2022-06-02 16:40:29 +02:00
Åshild J. Vågene
2b67d3aaab
Update main.yml 2022-06-02 16:30:35 +02:00
Åshild J. Vågene
62dfda8103
add mjolnir_globe md 2022-06-02 16:07:47 +02:00
Åshild J. Vågene
7a63e0a2ec
mjolnir_globe config added 2022-06-02 16:05:28 +02:00