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Author SHA1 Message Date
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
Harshil Patel
69f63a006d
Merge pull request #254 from drpatelh/articv4 
Add ARTIC v4 primers to genomes config for viralrecon
 2021-07-01 12:31:02 +01:00
Gisela Gabernet
aae0f0bf07
Merge pull request #255 from ggabernet/master 
update cfc configs
 2021-07-01 10:59:25 +02:00
ggabernet
d59d099fe8 remove load module in cfc configs 2021-07-01 10:52:54 +02:00
James A. Fellows Yates
9298b353f5
Merge pull request #253 from jfy133/eva 
eager@EVA fixes more SGE + java silliness
 2021-06-29 12:53:34 +02:00
James A. Fellows Yates
5f4b915ae8
Update eva.config 2021-06-29 11:31:00 +02:00
ameynert
85c3f07f3c
Merge pull request #3 from nf-core/master 
Merge in from nf-core/configs
 2021-06-25 10:39:18 +01:00
Harshil Patel
93cfc48afd Add ARTIC v4 primers to genomes config 2021-06-21 21:04:16 +01:00
Edmund Miller
3019035fdb
Merge pull request #252 from Emiller88/utd_sysbio 
Add UTD sysbio
 2021-06-17 14:36:30 +00:00
Edmund Miller
cb213a499c
ci: Another missing comma 2021-06-17 09:34:03 -05:00
Edmund Miller
5ad959a436
fix(sysbio): Missing comma 2021-06-17 09:18:45 -05:00
Edmund Miller
f9e4ec4a8d
fix(sysbio): Add sysbio to rnaseq 2021-06-17 09:18:45 -05:00
Edmund Miller
21e1037e0c
docs(sysbio): Add rnaseq specific docs 2021-06-17 09:18:45 -05:00
Edmund Miller
e35c5fd1d8
fix(sysbio): Add nf-core params 2021-06-17 08:32:31 -05:00
Edmund Miller
41ae99d34a
feat(sysbio): Add cleanup 2021-06-17 08:17:55 -05:00
Edmund Miller
87c8e346e0
fix(sysbio): Change filetype 2021-06-17 08:14:48 -05:00
Edmund Miller
14a2106c63
fix(sysbio): Move rnaseq specific things to pipeline config 2021-06-17 08:14:48 -05:00
Edmund Miller
7ff1c6cc7d
ci: Add sysbio 2021-06-16 21:19:49 -05:00
Edmund Miller
2a958f5ce3
docs: Add sysbio 2021-06-16 21:19:38 -05:00
Edmund Miller
472082254a
fix(sysbio): Add Star resources 2021-06-16 21:18:48 -05:00
Edmund Miller
b11f137901
fix(sysbio): Leave igenomes unfinished 2021-06-16 21:18:28 -05:00
Edmund Miller
04d0b27e81
fix(sysbio): Reduce memory on high processes 2021-06-16 21:17:40 -05:00
Edmund Miller
2b58a62a9b
feat(utd): Add initial sysbio config 2021-06-11 14:50:58 -05:00
Gisela Gabernet
9cca0eaf85
Merge pull request #250 from ggabernet/master 
cfc config
 2021-06-11 15:05:16 +02:00
ggabernet
c3385593cb revert cfc config 2021-06-11 14:59:09 +02:00
Gisela Gabernet
1f45b9c297
Merge pull request #249 from nf-core/mseybold-patch-1 
Update cfc.config
 2021-06-11 14:42:37 +02:00
mseybold
f196de8246
Update cfc.config 
singularity is now installed natively on the nodes, so no more need for a module here
 2021-06-10 12:34:58 +02:00
James A. Fellows Yates
756f067213
Merge pull request #248 from jfy133/eva 
Fix MakeSeqDict eager @ eva
 2021-06-07 13:26:05 +02:00
James A. Fellows Yates
da8e002969
Merge pull request #247 from jfy133/shh-fx 
Fix eageR@SHH HOPS profile human ref path
 2021-06-07 10:55:01 +02:00
James A. Fellows Yates
fc8b1162c1
Fix HOPS huamn ref path 2021-06-07 10:48:35 +02:00
James A. Fellows Yates
5bf57894a5
Merge pull request #246 from jfy133/shh-update 
Make eager@SHH big_data go by default to medium via run time
 2021-06-04 12:32:28 +02:00
James A. Fellows Yates
31d46cb0a9
Make big_data go by default to medium via run time 2021-06-04 12:22:54 +02:00
Øyvind Almelid
c75ceec35d
Merge pull request #244 from oalmelid/master 
eddie.conf: Add TMPDIR and mount for it to singularity configuration + Migrate to BioinformaticsResources for genomes.
 2021-05-25 10:03:05 +01:00
Øyvind Almelid
f6578f727d Add TMPDIR and mount for it to singularity configuration 2021-05-25 09:54:08 +01:00
Olga Botvinnik
2ac4693421
Merge pull request #243 from nf-core/olgabot-patch-1 
executor.cli --> aws.batch.cliPath
 2021-05-20 10:34:55 -07:00
Maxime U. Garcia
483e24aab6
Merge pull request #242 from maxulysse/master_munin 
feat: update owner of munin profile
 2021-05-20 10:08:32 +02:00
MaxUlysse
05548bdb75 fix: forgotten } 2021-05-20 09:37:48 +02:00
Olga Botvinnik
8166e0f606
executor.cli --> aws.batch.cliPath 2021-05-19 13:36:15 -07:00
MaxUlysse
73fcc4495a feat: update owner of profile 2021-05-19 20:46:52 +02:00
Phil Ewels
9c4830c8d5
Merge pull request #238 from nf-core/hebbe-config-fix 2021-05-19 17:46:52 +02:00
James A. Fellows Yates
3bcd55966d
Update eva.config 2021-05-05 11:39:33 +02:00
James A. Fellows Yates
f2413553a3
Merge pull request #240 from jfy133/shh 
eager@SHH Add additional retry allowance for silly big data in markdups
 2021-05-05 10:52:58 +02:00