millironx/nf-configs
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Author SHA1 Message Date
James A. Fellows Yates
5fbd938bc1
Export user env too 2021-08-27 10:08:20 +02:00
Phil Ewels
3d77ffdf55
Merge pull request #230 from nf-core/docs-custom_config_base 2021-08-23 19:34:30 +02:00
James A. Fellows Yates
bcb844f896
Merge pull request #268 from jfy133/master 
Delete SHH profiles due to decommissioning
 2021-08-23 14:08:13 +02:00
James A. Fellows Yates
e8bb6d0dab
Merge pull request #267 from jfy133/eva-eager-subprofiles 
Add genotyping_ug to SGE fixes for EAGER @ EVA
 2021-08-20 10:22:16 +02:00
James Fellows Yates
f41cb5986f remove from testing 2021-08-20 10:18:04 +02:00
James Fellows Yates
59af7f0eee Delete SHH profiles due to decommissioning 2021-08-20 10:15:39 +02:00
James A. Fellows Yates
6701354060
Add genotyping_ug to SGE fixes 2021-08-20 10:11:11 +02:00
James A. Fellows Yates
5c9896b687
Merge pull request #265 from jfy133/eva-eager-subprofiles 
eva/eager: Try new strategy for SGE and Java incompatibility
 2021-08-04 10:43:14 +02:00
James Fellows Yates
b0e344846d Changes after code review from @aidaanva 2021-08-04 10:37:49 +02:00
James Fellows Yates
76fc461670 Try new strategy for SGE/JAVA bs 2021-08-04 10:14:56 +02:00
James A. Fellows Yates
0c3428f5d1
Merge pull request #263 from jfy133/master 
eager @ eva
 2021-08-03 14:20:50 +02:00
James A. Fellows Yates
00491de038
Update eva.config 2021-08-03 13:54:14 +02:00
BarryDigby
732c3cfe7d
Merge pull request #262 from BarryDigby/master 
NUIG config
 2021-07-28 13:00:50 +01:00
Barry digby
2c6b9176e2 Merge branch 'master' of github.com:BarryDigby/configs 2021-07-28 12:19:45 +01:00
Barry digby
ef6b13e377 tabs rm 2021-07-28 12:19:11 +01:00
BarryDigby
871b82f6f4
Merge branch 'master' into master 2021-07-28 12:16:16 +01:00
Barry digby
f62298d211 w 2021-07-28 11:44:06 +01:00
Barry digby
2fc8082aad w 2021-07-28 11:43:39 +01:00
Barry digby
11cb6cc70d w 2021-07-28 11:41:42 +01:00
Barry digby
380adf083a markdowwwwn 2021-07-28 11:41:16 +01:00
Maxime U. Garcia
f82da1de71
Merge pull request #261 from maxulysse/master_cambridge 
fix: closes #260 + sort some lines
 2021-07-28 10:10:39 +02:00
Barry digby
70b2644c9a . 2021-07-27 17:39:37 +01:00
Barry digby
2a06d956b3 mdlint so picky : ( 2021-07-27 17:18:42 +01:00
Barry digby
b7c7115f1e lll 
Merge branch 'nf-core-master'
 2021-07-27 17:13:58 +01:00
Barry digby
2b6e80561a Merge branch 'master' of https://github.com/nf-core/configs into 2021-07-27 17:13:17 +01:00
Barry digby
4f962260d0 s 2021-07-27 17:08:53 +01:00
Barry digby
04c0da5a2f nuig confg (lugh) 2021-07-27 17:05:27 +01:00
MaxUlysse
895c4eb610 fix: closes #260 + sort some lines 2021-07-27 16:35:19 +02:00
Harshil Patel
6ede44b221
Merge pull request #258 from ameynert/master 
Update eddie config docs & added viralrecon config
 2021-07-22 15:14:54 +01:00
ameynert
2112168420
Set BLASTDB_LMDB_MAP_SIZE 
This environment variable needs to be set in order to prevent memory allocation errors in the MAKEBLASTDB process.
 2021-07-22 15:07:19 +01:00
ameynert
17fad9dd15
Update pipeline/viralrecon.config 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-07-21 12:27:09 +01:00
ameynert
d9abb7d59f
Added eddie config to viralrecon 2021-07-21 12:23:47 +01:00
ameynert
5224eb5574
Updated resources folder & institute name 
Local resources folder was re-organized & re-named BioinformaticsResources. Added note about viralrecon & atacseq pipeline-specific config. IGMM name-changed recently; updated to IGC.
 2021-07-21 12:15:17 +01:00
ameynert
4ceb369af5
eddie.config for viralrecon pipeline 2021-07-21 12:10:43 +01:00
ameynert
0da2c57784
Merge pull request #4 from nf-core/master 
Merge from nf-core/configs
 2021-07-21 12:09:32 +01:00
Maxime U. Garcia
47217cae5b
Merge pull request #231 from maxulysse/master_kraken 
Remove kraken profile
 2021-07-20 09:29:47 +02:00
Maxime U. Garcia
30e058abf0
Merge branch 'master' into master_kraken 2021-07-20 09:26:56 +02:00
Harshil Patel
836d3c4015
Merge pull request #257 from drpatelh/V1200 
Add ARTIC v1200 primers to genomes config for viralrecon
 2021-07-12 14:03:29 +01:00
Harshil Patel
962dca7a46 Add ARTIC v1200 primers to genomes config for viralrecon 2021-07-12 12:24:49 +01:00
Gisela Gabernet
435955ab20
Merge pull request #256 from ggabernet/master 
Add AWS tower config
 2021-07-03 16:54:59 +02:00
ggabernet
e6f1bfaa1a finally add profile 2021-07-03 15:13:10 +02:00
ggabernet
68e12f85ec fix cchecker 2021-07-03 15:11:51 +02:00
ggabernet
2a69b90be6 fix cchecker 2021-07-03 15:09:43 +02:00
ggabernet
6475671c38 test that it fails 2021-07-03 14:57:58 +02:00
ggabernet
926f3ba24f update checker script 2021-07-03 14:52:44 +02:00
ggabernet
79fffbd77f update changes 2021-07-03 14:39:17 +02:00
ggabernet
f3274c49b5 test profile multiline 2021-07-03 14:36:56 +02:00
Gisela Gabernet
e2088a008d
Merge branch 'master' into master 2021-07-03 12:24:42 +02:00
ggabernet
f8690d49e8 add to tests 2021-07-03 12:21:03 +02:00
ggabernet
ee2e8392ab add aws_tower profile 2021-07-03 12:17:21 +02:00