412 commits

Author	SHA1	Message	Date
Pontus Freyhult	ff20f121f9	Support use of very fat node in snowy	2021-04-12 19:34:28 +02:00
Pontus Freyhult	0987cbe1be	Better test for snowy	2021-04-12 19:32:21 +02:00
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
Phil Ewels	bfab371c94	Merge branch 'master' into master	2021-03-24 12:36:15 +01:00
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
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
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
ameyner2	059d353a1e	Removed Conda, added automount Singularity	2021-03-18 12:31:56 +00:00
ameyner2	d4cd07c646	Typo in beforescript	2021-03-17 09:21:26 +00:00
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	e7f8189dfc	Create wcm.config	2021-03-11 13:52:11 -05:00
phue	da3bd2693d	cbe: add rapid qos ... and update config url	2021-03-10 11:26:01 +01:00
Graeme Grimes	babeccd020	changed # to // for comments	2021-03-04 16:45:21 +00:00
ameynert	6f09a233f0	Added singularity module	2021-03-04 14:46:23 +00:00
ameynert	3af2c6409f	Initial commit of eddie.config	2021-03-03 09:59:16 +00:00
maxibor	286e18b80c	update shh config after CDAG departure	2021-02-17 10:22:05 +01:00
drpatelh	01a4f8559e	Update links to be consistent	2021-02-16 13:17:16 +00:00
Harshil Patel	6ffaf922c5	Update genomes.config	2021-02-16 10:28:32 +00:00
Marc Hoeppner	1f2fce00aa	Updating the CCGA DX profile to new storage system	2021-02-16 09:02:16 +01:00
Harshil Patel	4de0855218	Update genomes.config	2021-02-15 18:48:03 +00:00
drpatelh	9d500cf679	Reorder params	2021-02-15 17:02:26 +00:00
drpatelh	f283dfb2dc	Add ARTIC primer sets to genome config	2021-02-15 16:58:30 +00:00
ggabernet	9b5bcbd434	update aws clipath	2021-02-09 22:06:59 +01:00
ggabernet	0909708b97	update with upstream	2021-02-09 22:01:27 +01:00
James A. Fellows Yates	86566ddd3b	Merge pull request #204 from jfy133/master ... Add a 'big_data' profile for eager @ SHH	2021-02-04 15:07:52 +01:00
James A. Fellows Yates	e32f1e46ff	Update shh.config	2021-02-04 08:13:16 +01:00
James A. Fellows Yates	c515a401c7	Update shh.config	2021-02-04 08:06:35 +01:00
James A. Fellows Yates	82fe8a04be	Update shh.config	2021-02-04 08:02:33 +01:00
James A. Fellows Yates	e7ac0bae13	Update shh.config	2021-02-04 08:00:57 +01:00
James A. Fellows Yates	eb725f9ea3	Update shh.config	2021-02-03 20:13:09 +01:00
Charles Plessy	1608b36dcf	Institutional profile for Okinawa Institute of Science and Technology	2021-02-02 17:40:10 +09:00
Thiseas C. Lamnidis	713a032a36	Add debug profile ... which deactivates cleanup of workdir after successful run	2021-01-26 15:08:21 +01:00
James A. Fellows Yates	26d164ca74	Remove ceh profile for now	2021-01-21 13:15:08 +01:00
Åshild J. Vågene	594985f1ee	Update and rename ceh.config to seg_globe.config	2021-01-21 11:43:34 +01:00
Åshild J. Vågene	8fa720b9cc	Update conf/ceh.config ... Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>	2021-01-21 11:15:06 +01:00
Åshild J. Vågene	f8973f153a	Update ceh.config	2021-01-21 00:31:49 +01:00
Åshild J. Vågene	91594dffea	Update ceh.config	2021-01-21 00:29:43 +01:00