1201 commits

This branch

This branch

All branches

Author	SHA1	Message	Date
Anthony Underwood	351c5773f0	Add queue limits for 'normal'	2021-04-22 11:59:34 +01:00
Anthony Underwood	fa267c0cf9	Add sanger to tests	2021-04-21 21:01:25 +01:00
Anthony Underwood	6175362049	Add sanger profile	2021-04-21 20:47:48 +01:00
Anthony Underwood	cc18d213dc	Update sanger.md	2021-04-21 20:24:08 +01:00
Anthony Underwood	40eb3e0201	Update sanger.md	2021-04-21 20:20:30 +01:00
Anthony Underwood	7163e8723d	Create sanger.md	2021-04-21 20:17:42 +01:00
Anthony Underwood	7d8770af1a	Create sanger.config	2021-04-21 16:39:55 +01:00
Maxime Garcia	7498e29ec0	Merge pull request #201 from maxulysse/master_uppmax_offline ... Improve offline docs for Bianca	2021-04-21 13:04:15 +02:00
Maxime Garcia	1548690ca6	Update docs/uppmax.md ... Co-authored-by: Pontus Freyhult <pontus_github@soua.net>	2021-04-21 12:27:27 +02:00
Patrick Hüther	fff04ce0ba	Merge pull request #233 from phue/biohpc_gen ... biohpc_gen: update software tree path	2021-04-21 12:14:06 +02:00
MaxUlysse	bab9241243	fix: markdownlint	2021-04-21 11:51:14 +02:00
MaxUlysse	844246cc7d	fix: clearer usage of module	2021-04-21 11:28:58 +02:00
MaxUlysse	1a7ec56c33	feat: more details	2021-04-21 11:23:50 +02:00
MaxUlysse	c89877decc	feat: use <PIPLEINE>	2021-04-21 11:17:06 +02:00
MaxUlysse	658fa7ccda	fix: markdownlint	2021-04-21 11:08:16 +02:00
Maxime Garcia	79e3dd65a7	Apply suggestions from code review ... Co-authored-by: Pontus Freyhult <pontus_github@soua.net>	2021-04-21 11:06:39 +02:00
phue	b225a0555a	biohpc_gen: update software tree path	2021-04-21 10:08:00 +02:00
Maxime Garcia	4eea06f0db	Apply suggestions from code review ... Co-authored-by: Pontus Freyhult <pontus_github@soua.net>	2021-04-20 16:03:34 +02:00
MaxUlysse	1c1dd952fc	fix: bullet list	2021-04-20 15:58:51 +02:00
Maxime Garcia	e4d2ef0984	Apply suggestions from code review ... Co-authored-by: Phil Ewels <phil.ewels@scilifelab.se>	2021-04-20 15:53:54 +02:00
MaxUlysse	4930795cab	feat: more complete docs	2021-04-20 15:38:49 +02:00
James A. Fellows Yates	eacdf89e53	Update eva.config	2021-04-20 13:17:35 +02:00
MaxUlysse	10abca712b	fix: first draft of bianca guide	2021-04-16 17:01:58 +02:00
Alexander Peltzer	a525be112f	Merge pull request #232 from jfy133/update-mpcdf ... Update mpcdf to use singularity	2021-04-16 09:28:46 +02:00
James A. Fellows Yates	12a4518803	Markdown lint fix	2021-04-15 22:29:15 +02:00
James A. Fellows Yates	b9a00f7926	Update mpcdf.config	2021-04-15 22:27:07 +02:00
James A. Fellows Yates	0fc90586e0	Update mpcdf.md	2021-04-15 22:26:37 +02:00
Phil Ewels	c7e4ea25f5	Update README.md	2021-04-14 23:30:17 +02:00
Phil Ewels	2f343868ad	Apply suggestions from code review ... Co-authored-by: Maxime Garcia <max.u.garcia@gmail.com>	2021-04-13 22:52:31 +02:00
Harshil Patel	7ac66dcd72	Update crick.config	2021-04-13 17:07:02 +01:00
Combiz Khozoie	c571c05ab9	Merge pull request #219 from slacalle/patch-2 ... Imperial College | Remove "/rdsgpfs"	2021-04-13 15:28:00 +01:00
MaxUlysse	3918e0aa9d	feat: remove kraken profile	2021-04-13 15:14:14 +02:00
Phil Ewels	2afb4f0ad6	Don't recommend setting --custom_config_base manually	2021-04-13 14:37:54 +02:00
Asaf Peer	a0c8a9ec8f	updated jax resources	2021-04-12 16:00:34 -04:00
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
Phil Ewels	2f77d16b70	Merge pull request #220 from ewels/master ... UPPMAX: Avoid undefined parameter warnings	2021-04-08 15:06:00 +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
James A. Fellows Yates	a2a47fdecc	Merge pull request #224 from jfy133/eva ... Add EVA profile for MPI-EVA (clean)	2021-04-07 19:56:00 +02:00
James A. Fellows Yates	161c3a33d4	Merge branch 'master' into eva	2021-04-07 19:28:16 +02:00
James A. Fellows Yates	ce465cca57	Apply suggestions from code review ... Co-authored-by: Alexander Peltzer <apeltzer@users.noreply.github.com>	2021-04-07 19:27:24 +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
Alexander Peltzer	91f50aad4e	Merge pull request #221 from phue/biohpc_gen ... Add BioHPC Genomics config	2021-04-07 14:03:22 +02:00
Patrick Hüther	53b54ba845	Remove whitespace ... Co-authored-by: Alexander Peltzer <apeltzer@users.noreply.github.com>	2021-04-07 13:18:06 +02:00
ameynert	efa051b3e4	Merge pull request #222 from ameynert/master ... Addition of ATAC-seq pipeline config, updated docs	2021-04-07 09:48:29 +01:00
ameynert	0ab9edde72	Delete conf/pipeline/atacseq directory ... Pipeline-specific config not supported yet by ATAC-seq pipeline	2021-04-07 09:24:30 +01:00