342 commits

Author	SHA1	Message	Date
Maxime Borry	c95fd9d52f	Merge pull request #186 from jfy133/shh-singularity-runoptions ... Remove custom singularity runOptions from SHH config	2020-11-10 15:39:40 +01:00
James A. Fellows Yates	9d4d682867	Update shh.config	2020-11-10 15:14:03 +01:00
lecorguille	90d1f9072b	Add ABiMS - autoMounts = false	2020-10-22 18:18:55 +02:00
lecorguille	a63ca751ee	Add ABiMS	2020-10-22 16:57:41 +02:00
James A. Fellows Yates	804f53c58c	Merge pull request #178 from jfy133/master ... Add Max Planck Computing and Data Facility Cobra/Raven Clusters	2020-10-22 13:34:11 +02:00
James A. Fellows Yates	3995057d7f	Update mpcdf.config	2020-10-22 10:42:46 +02:00
James A. Fellows Yates	05deeca2d6	Update mpcdf.config	2020-10-15 14:22:35 +02:00
James A. Fellows Yates	e26c22b2f1	Update shh.config	2020-09-29 14:03:35 +02:00
MaxUlysse	2ccbdd3367	update params to latest version	2020-09-28 13:59:42 +02:00
MaxUlysse	8c0cc4b9ec	code polishing	2020-09-25 09:57:50 +02:00
MaxUlysse	81f910cc95	add specific BamQC config	2020-09-25 09:49:43 +02:00
MaxUlysse	fbe7bd133a	update uppmax specific sarek config	2020-09-25 08:33:53 +02:00
James A. Fellows Yates	11f1fb71db	Update mpcdf.config	2020-09-16 10:21:58 +02:00
James A. Fellows Yates	bbbdd3cb0f	Update mpcdf.config	2020-09-16 10:21:42 +02:00
James A. Fellows Yates	5b3492d240	Update mpcdf.config	2020-09-16 10:21:26 +02:00
James A. Fellows Yates	3115963b3e	Update mpcdf.config	2020-09-15 19:53:27 +02:00
James A. Fellows Yates	c6f7573d01	Update mpcdf.config	2020-09-15 17:48:54 +02:00
James A. Fellows Yates	bf87ec24e7	Update mpcdf.config	2020-09-15 17:45:38 +02:00
Edmund Miller	2c06019d89	fix(utd): Add check for less than 12 cpu	2020-09-13 20:46:14 -05:00
Edmund Miller	dc2735207e	feat(utd): add Kim queue	2020-09-13 20:46:10 -05:00
James A. Fellows Yates	3b7902d11b	Mad multi-core increase CPUs on retry	2020-09-06 08:23:35 +02:00
James A. Fellows Yates	4335e5deb7	Update mpcdf.config	2020-09-04 20:17:09 +02:00
James A. Fellows Yates	b4e275c3b9	Add MPCDF for EAGER	2020-09-04 19:57:25 +02:00
James A. Fellows Yates	5c7ab234b6	Create mpcdf.config	2020-09-04 19:55:40 +02:00
James A. Fellows Yates	0a685c1cc2	Update mpcdf.config	2020-09-03 20:24:11 +02:00
James A. Fellows Yates	42a1a15970	Create mpcdf.config	2020-09-03 20:11:56 +02:00
James A. Fellows Yates	c3fa87e4bc	Add microbiome screening profile for NT sized MALT runs for nf-core/eager@SHH	2020-08-11 09:18:36 +02:00
drpatelh	b804076959	Remove hard Singularity version	2020-08-03 11:38:10 +01:00
maxibor	69a0bd572b	add temporary CDAG setting for SHH config	2020-07-23 15:38:28 +02:00
James A. Fellows Yates	d38ffc289b	Merge pull request #173 from jfy133/shh-eager-hops-update ... Remove now deprecated EAGER flag for HOPS profile	2020-07-20 11:34:49 +02:00
James A. Fellows Yates	57ac9257a9	Remove now deprecated EAGER flag for HOPS profile	2020-07-20 11:29:12 +02:00
Alexander Peltzer	a498e98342	Merge pull request #170 from jfy133/master ... Make walltimes more sophisticated and add a HOPS profile for nf-core/eager @ SHH	2020-07-15 15:11:24 +02:00
James A. Fellows Yates	84e03b8264	Re-bump default walltimes after debugging/testing	2020-07-11 18:31:04 +02:00
James A. Fellows Yates	8f6409d144	Remove min support percent value to avoid confusion	2020-07-08 15:26:19 +02:00
James A. Fellows Yates	1af9ce293c	Update hops profile based on requests from pathogen group	2020-07-08 15:22:33 +02:00
James A. Fellows Yates	c57a404f18	Add desc for hops	2020-07-08 10:45:43 +02:00
jfy133	15dad7e2e7	Add caveats for EAGER @ SHH profiles	2020-07-08 09:47:03 +02:00
jfy133	926c14f7ee	Cleverer process time submission	2020-07-08 09:36:56 +02:00
jfy133	563c27e1bb	Try again to get better time resource submission	2020-07-08 09:36:28 +02:00
James A. Fellows Yates	c6905b609e	Update shh.config	2020-07-08 09:25:21 +02:00
James A. Fellows Yates	b360ce26bc	Update shh.config	2020-07-08 09:24:06 +02:00
James A. Fellows Yates	31edb4b5d7	Update shh.config	2020-07-08 09:20:00 +02:00
James A. Fellows Yates	aac3478e86	Add better task time values to account for large data	2020-07-08 09:12:11 +02:00
James A. Fellows Yates	737d826932	Update shh.config	2020-07-08 08:36:04 +02:00
piotr-faba-ardigen	ba24f1a1c8	Merge pull request #168 from piotr-faba-ardigen/add_bi_config ... Fix bi config	2020-07-07 14:56:43 +02:00
James A. Fellows Yates	fcdbeaa446	Merge branch 'master' into master	2020-07-07 14:34:10 +02:00
James A. Fellows Yates	af01fccba1	Add a HOPS profile for nf-core/eager @ SHH	2020-07-07 14:31:11 +02:00
Piotr Faba	cb7a6f756a	reduce complexity	2020-07-07 13:48:28 +02:00
James A. Fellows Yates	5517d2cbe0	Remove default non-profile bwa parameters from eager profile ... I realised today this is dangerous as these would not necessarily be reported if a user doesn't understand the profiles. Therefore removing these so nf-core/eager defaults are always used unless a specific profile (which would be described in the command itself) is explicitly named.	2020-07-07 13:29:13 +02:00
Piotr Faba	4181184f58	fix spaces	2020-07-02 22:00:37 +02:00