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Author SHA1 Message Date
Pontus Freyhult
7be4279718 Handle different (unexpected) sinfo returns in different cases 2021-04-12 19:31:41 +02:00
Pontus Freyhult
57c26c13d9 Redo cases for simplification 2021-04-12 19:21:58 +02:00
Pontus Freyhult
be6ea0060f Wrap sinfo call in a try/catch and default to rackham on failure 2021-04-08 09:49:42 +02:00
Pontus Freyhult
fa1b4cb412 Move cluster options creating closure out of process scope 2021-04-08 09:45:29 +02:00
Pontus Freyhult
4d64db85eb Determine cluster through slurm 2021-04-07 18:43:32 +02:00
Pontus Freyhult
c5070f3eba Use node queue when more memory than thin nodes have 2021-04-07 18:43:32 +02:00
Gisela Gabernet
71a97ba316
Merge pull request #185 from ggabernet/master 
awsbatch config update
 2021-03-28 20:59:40 +02:00
Alexander Peltzer
26b5904df1
Merge pull request #218 from asafpr/master 
added jax singularity cache dir
 2021-03-24 17:39:03 +01:00
Asaf Peer
922ab87eb0 added jax singularity cache dir 2021-03-24 11:25:47 -04:00
ameynert
6215414ecf
Merge pull request #217 from ameynert/master 
Addition of eddie institutional profile
 2021-03-24 14:05:07 +00:00
ameynert
3a8e54f153
Removed sneaky trailing whitespace. 2021-03-24 13:58:10 +00:00
ameynert
a0d42f5153
Fixed code blocks for markdown linting 2021-03-24 13:55:31 +00:00
ameynert
2d90c919aa
Added eddie profile to github workflow tests 2021-03-24 13:51:37 +00:00
Phil Ewels
8e6223d1bd
Update nfcore_custom.config 2021-03-24 12:36:50 +01:00
Phil Ewels
bfab371c94
Merge branch 'master' into master 2021-03-24 12:36:15 +01:00
Phil Ewels
158402eddf
Update nfcore_custom.config 2021-03-24 12:26:49 +01:00
ameynert
aeb0ffcfde
Spacing fix 
Co-authored-by: Maxime Garcia <maxime.garcia@scilifelab.se>
 2021-03-24 11:26:09 +00:00
ameynert
2a8ae2b214
Update eddie.md 2021-03-24 11:12:41 +00:00
ameynert
96fe6185a0
IGMM-specific docs 2021-03-24 11:01:41 +00:00
ameyner2
00d984d918 Merge branch 'master' of github.com:ameynert/configs 2021-03-24 10:46:43 +00:00
ameyner2
da8cf2f207 Added pipeline-specific config files for rnaseq and sarek 2021-03-24 10:46:26 +00:00
Asaf Peer
9b2d5bfead
Merge pull request #216 from asafpr/master 
Added JAX conf
 2021-03-24 03:31:14 -04:00
ameynert
791f3c95f3
Pipeline specific configs moving to confs/pipeline 2021-03-23 16:07:07 +00:00
Alexander Peltzer
5988c51361
Merge pull request #211 from DoaneAS/master 
Adding WCM.config for Weill Cornell Medicine cluster
 2021-03-23 14:58:27 +01:00
Phil Ewels
a9aae577ef
Merge pull request #215 from Emiller88/ganymede-update 2021-03-22 19:18:02 +01:00
Edmund Miller
a6975cdd4e
fix(ganymede): large => high 
Co-authored-by: drpatelh <drpatelh@users.noreply.github.com>
 2021-03-22 12:42:56 -05:00
Edmund Miller
34ccce9531
fix(ganymede): Add process resources 
Trimgalore though it can be a bottom neck, doesn't require the 1 big
memory node we have and can be run on the genomics queue.
 2021-03-21 21:47:59 -05:00
Edmund Miller
4570718b12
fix(ganymede): Add TMPDIR and SINGULARITY_CACHEDIR env variables 2021-03-21 21:45:39 -05:00
Asaf Peer
30c864e112 added JAX conf 2021-03-21 06:49:11 -04:00
Asaf Peer
93bde78faa added JAX conf 2021-03-21 06:47:52 -04:00
ameynert
b48136a62e
Added pipeline-specific config files 2021-03-18 12:55:03 +00:00
ameynert
af6a6b1060
Details on running on eddie 
Removed Conda support, Singularity by default. Added login and screen session on wild west node options.
 2021-03-18 12:48:48 +00:00
ameyner2
bb388fb88b Merge branch 'master' of github.com:ameynert/configs 2021-03-18 12:32:11 +00:00
ameyner2
059d353a1e Removed Conda, added automount Singularity 2021-03-18 12:31:56 +00:00
ameynert
4ad6bb2bec
Singularity info 2021-03-17 14:50:40 +00:00
Harshil Patel
2ce1e2a9cc
Create rnaseq.config 2021-03-17 12:32:47 +00:00
ameyner2
d4cd07c646 Typo in beforescript 2021-03-17 09:21:26 +00:00
Maxime Garcia
ec11a9a951
Merge pull request #212 from noirot/master 
Add IFB config
 2021-03-16 16:55:38 +01:00
Noirot Céline
e3216ccf79 typo 2021-03-16 16:00:56 +01:00
Noirot Céline
cc17045914 Add institution 2021-03-16 15:58:29 +01:00
Noirot Céline
7e9f83ee81 Add IFB config 2021-03-16 15:54:19 +01:00
ameyner2
cfe13fe6c1 Fixed typo & added singularity tmpdir 2021-03-15 15:42:30 +00:00
Ashley S Doane
6343a7f87c
Update wcm.md 2021-03-11 14:01:07 -05:00
Ashley S Doane
d630bcfb6c
Create wcm.md 2021-03-11 13:59:55 -05:00
Ashley S Doane
e7f8189dfc
Create wcm.config 2021-03-11 13:52:11 -05:00
Patrick Hüther
a64dfd98c2
Merge pull request #209 from phue/cbe_rapid_qos 
cbe: add rapid qos
 2021-03-10 21:03:08 +01:00
phue
da3bd2693d cbe: add rapid qos 
and update config url
 2021-03-10 11:26:01 +01:00
ameynert
bc961c7990
Merge pull request #1 from ggrimes/patch-1 
changed # to // for comments
 2021-03-04 19:48:45 +00:00
Graeme Grimes
babeccd020
changed # to // for comments 2021-03-04 16:45:21 +00:00
ameynert
4c0111f598
Eddie profile documentation initial commit 2021-03-04 14:46:58 +00:00