942 commits

This branch

This branch

All branches

Author	SHA1	Message	Date
Alexander Peltzer	f877644059	Merge branch 'master' into master	2020-05-29 11:43:47 +02:00
Alexander Peltzer	0d5899eb26	Merge pull request #157 from nf-core/bi-docs ... Add BI to main readme.md	2020-05-28 10:25:19 +02:00
Alexander Peltzer	dd56355c7c	Update bi.md ... No trailing spaces it said.	2020-05-28 10:18:16 +02:00
Alexander Peltzer	f4df5b5a75	Add BI Docs	2020-05-28 10:16:22 +02:00
Alexander Peltzer	0efa9f248e	Add BI to main readme.md	2020-05-28 10:12:50 +02:00
Alexander Peltzer	32ec230098	Merge pull request #156 from piotr-faba-ardigen/add_bi_config ... Add bi config	2020-05-27 21:03:15 +02:00
Piotr Faba	f139750bf4	print the error message before throwing Exception	2020-05-27 19:14:43 +02:00
Piotr Faba	3c695ba71c	test error display	2020-05-27 18:00:47 +02:00
Alexander Peltzer	6011419454	Merge pull request #154 from jfy133/master ... Update SHH nf-core/eager group-specific profiles	2020-05-27 17:52:09 +02:00
Alexander Peltzer	27f3207cb9	Merge pull request #155 from piotr-faba-ardigen/add_bi_config ... Add BI internal config	2020-05-27 17:49:41 +02:00
Piotr Faba	18d8edb046	add description and profile	2020-05-27 17:41:19 +02:00
Piotr Faba	f5e2a9f9f3	try without dummy.config: use relative path	2020-05-27 16:55:37 +02:00
Piotr Faba	3ad0003979	test without dummy config	2020-05-27 16:46:08 +02:00
Piotr Faba	1a9db371c3	remove echos	2020-05-27 16:43:32 +02:00
Piotr Faba	ac47d020cb	debug: continue	2020-05-27 16:38:11 +02:00
Piotr Faba	ff5fdd097b	debug	2020-05-27 16:35:55 +02:00
Piotr Faba	ab3070582e	Fix paths to dummy.config	2020-05-27 16:32:19 +02:00
Piotr Faba	66f191a1cf	declate NXF_GLOBAL_CONFIG in ci	2020-05-27 16:30:00 +02:00
Piotr Faba	2685275952	switch include off	2020-05-27 16:24:47 +02:00
Piotr Faba	c31b03108c	retry without Exception	2020-05-27 16:22:56 +02:00
Piotr Faba	1354ae4063	add bi config	2020-05-27 16:19:15 +02:00
James A. Fellows Yates	0943ba088a	Mention SHH EAGER group-specific profiles	2020-05-26 11:14:42 +02:00
James A. Fellows Yates	d070ed70d1	Update BWA settings based on feedback	2020-05-26 11:11:42 +02:00
James A. Fellows Yates	e31e781f29	Remove debugging	2020-05-26 11:07:06 +02:00
Harshil Patel	5981e5ec27	Merge pull request #153 from FriederikeHanssen/cfc_scratch ... Add scratch = true to avoid writing of intermediate file to /tmp	2020-05-22 15:48:00 +01:00
James A. Fellows Yates	ff915ee504	Update shh.config	2020-05-12 12:47:59 +02:00
James A. Fellows Yates	8225e07819	Condensed base params and added names for debugging	2020-05-12 12:47:25 +02:00
James A. Fellows Yates	4814bac1c3	Fix sub-profiles	2020-05-12 12:42:42 +02:00
Phil Ewels	a7afd6a4e5	Merge pull request #152 from nf-core/jfy133-patch-1 ... SHH doc typo fixes	2020-05-07 12:03:45 +02:00
James A. Fellows Yates	2e3b577fb3	Typo fixes ... I'll never forgive our directory for that name...	2020-05-07 11:50:11 +02:00
James A. Fellows Yates	38e9e54932	Merge pull request #151 from jfy133/master ... Add additional custom nf-core/eager params for SHH profile	2020-05-07 09:25:02 +02:00
James A. Fellows Yates	0a312cd2c9	Update shh.md	2020-05-07 09:17:56 +02:00
James A. Fellows Yates	cf6e697f0b	Further update aln based on modifications of EAGER defaults	2020-05-07 09:16:08 +02:00
James A. Fellows Yates	4d7e9ccf2f	Apply suggestions from review	2020-05-06 08:35:23 +02:00
James A. Fellows Yates	4804052b23	Update SHH nf-core/eager pipeline docs	2020-05-04 21:04:17 +02:00
James A. Fellows Yates	d42d7f4146	Sets the bwa aln parameter to 0.01 which is more commonly used at SHH	2020-05-04 21:02:16 +02:00
FriederikeHanssen	d6813d9c39	Add scratch = true to avoid writing of intermediate file to /tmp	2020-05-04 17:09:43 +02:00
Maxime Garcia	fe77f02551	Merge pull request #150 from MaxUlysse/Munin ... update rnafusion munin specific config	2020-04-28 17:46:17 +02:00
MaxUlysse	e6f4d58fa6	update rnafusion munin specific config	2020-04-28 17:06:04 +02:00
Adrian	ad12bd4ad1	testing automounts	2020-04-28 16:03:06 +01:00
Adrian	1e68a10ef0	adding documentation for icr_davros	2020-04-28 16:02:26 +01:00
Harshil Patel	2300d5a962	Update genomes.config	2020-04-09 18:22:41 +01:00
Harshil Patel	a17cac1ceb	Merge pull request #149 from MaxUlysse/viralreconupdate ... Viralreconupdate	2020-04-09 18:22:06 +01:00
Harshil Patel	53125368be	Merge branch 'master' into viralreconupdate	2020-04-09 18:21:05 +01:00
Harshil Patel	6834f020cb	Update viralrecon.config	2020-04-09 17:49:15 +01:00
MaxUlysse	5678494e45	fix typo	2020-04-09 17:13:19 +02:00
MaxUlysse	50a44d037b	better docs and organisation of giles	2020-04-09 17:02:36 +02:00
Harshil Patel	6adc7342e9	Merge pull request #148 from MaxUlysse/viralrecon ... add viralrecon specific config	2020-04-09 13:34:23 +01:00
Harshil Patel	4fd9b73cec	Update pipeline/viralrecon.config	2020-04-09 13:31:39 +01:00
Harshil Patel	290d0a2180	Update pipeline/viralrecon.config	2020-04-09 13:31:20 +01:00