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Author SHA1 Message Date
Alexander Peltzer
ecc850fd83
Omit this in TOC 2019-12-11 16:13:15 +01:00
Alexander Peltzer
a6d08ed646
Adjust custom pipeline config for ampliseq on BINAC 2019-12-11 16:09:44 +01:00
Alexander Peltzer
49cd35918a
Remove whitespace 2019-12-11 15:59:58 +01:00
Alexander Peltzer
5e6981d0ee
Export TZ in binac config 2019-12-11 15:59:25 +01:00
Alexander Peltzer
271e20e306
Merge pull request #108 from nf-core/fix-env-binac 
Update envWhiteList for Binac Profile for testing purposes
 2019-12-11 14:31:22 +01:00
Alexander Peltzer
ac90acf470
Update envWhiteList for Binac Profile for testing purposes 
Add envWhitelist for TZ to fix https://github.com/nf-core/ampliseq/issues/114
 2019-12-11 14:26:57 +01:00
Alexander Peltzer
e429758e25
Merge pull request #107 from nf-core/pipelineconfigs_readme_update 
Update README to mention EAGER specific configs
 2019-12-10 12:19:26 +01:00
James A. Fellows Yates
71b47e3efa
Updated README to include EAGER specific configs 2019-12-10 11:39:24 +01:00
James A. Fellows Yates
09bc644dcf
Merge pull request #106 from jfy133/master 
Fixes shh eager-specific profile
 2019-12-06 20:02:59 +01:00
James A. Fellows Yates
0beb98696f
Merge branch 'master' into master 2019-12-06 19:31:24 +01:00
James A. Fellows Yates
8747be8120
More tweaks, nextflow appears to add a little extra? 2019-12-06 19:27:16 +01:00
James A. Fellows Yates
5c6760b2f0
Tweak back again 2019-12-06 19:25:07 +01:00
James A. Fellows Yates
46f6d20a77
Put parameters back to correct levels 2019-12-06 19:13:29 +01:00
Phil Ewels
4b0fd12752
Merge pull request #105 from nf-core/jfy133-patch-1 
Wrong bracket typo fix -.-
 2019-12-06 19:12:50 +01:00
James A. Fellows Yates
18931763fa
Add space? 2019-12-06 19:11:08 +01:00
James A. Fellows Yates
f59443daf0
Update shh.config 2019-12-06 19:09:20 +01:00
James A. Fellows Yates
1ab1370872
Try to make resources satisfiable 2019-12-06 19:06:05 +01:00
James A. Fellows Yates
6e596d1730
Fix stupid wrong bracket typo -.- 2019-12-06 18:37:39 +01:00
James A. Fellows Yates
b28e1a0905
Wrong bracket typo fix -.- 2019-12-06 18:34:18 +01:00
Alexander Peltzer
1f7940c2ee
Merge pull request #104 from jfy133/master 
Attempt to fix process specific configs with pipeline specific configs
 2019-12-06 17:16:37 +01:00
jfy133
e8b4675692 Cleanup and tweaking 2019-12-06 13:17:31 +01:00
Maxime Garcia
9497b78149
Merge pull request #100 from MaxUlysse/UPPMAX 
Improve UPPMAX configs
 2019-12-06 10:52:44 +01:00
Maxime Garcia
79528de92f
Update docs/uppmax.md 
Co-Authored-By: Phil Ewels <phil.ewels@scilifelab.se>
 2019-12-06 10:47:09 +01:00
Maxime Garcia
14864bb80b
Update conf/uppmax.config 2019-12-06 10:31:56 +01:00
Alexander Peltzer
da547b4ce3
Merge pull request #102 from phue/cbe_singularity 
cbe: load singularity/3.4.1
 2019-12-06 10:21:55 +01:00
phue
fa777180e6 cbe: map hostname 2019-12-05 23:46:25 +01:00
James A. Fellows Yates
0033b74e4e
Update shh.config 2019-12-05 18:08:39 +01:00
James A. Fellows Yates
dc0f1dfb40
Update shh.config 2019-12-05 17:58:49 +01:00
James A. Fellows Yates
b1a8b45aa0
Maybe typo? 2019-12-05 17:52:53 +01:00
James A. Fellows Yates
ab6c5f05ac
Merge pull request #7 from nf-core/master 
syncing
 2019-12-05 17:37:17 +01:00
James A. Fellows Yates
0467b44f21
Merge pull request #103 from jfy133/master 
EAGER Pipeline specific config for SHH
 2019-12-05 17:21:18 +01:00
jfy133
1650080b6e Linting 2019-12-05 17:03:07 +01:00
jfy133
731372dac2 Added SHH specific EAGER configuration 2019-12-05 17:01:10 +01:00
James A. Fellows Yates
0a3821ce78
Merge pull request #6 from nf-core/master 
Syncing
 2019-12-05 16:14:52 +01:00
phue
381c60e7b7 cbe: load singularity/3.4.1 2019-12-05 16:06:32 +01:00
MaxUlysse
a63ec24626 Merge branch 'UPPMAX' of github.com:MaxUlysse/nf-core_configs into UPPMAX 2019-12-05 15:18:04 +01:00
MaxUlysse
99afe86ea9 update docs 2019-12-05 15:18:01 +01:00
MaxUlysse
f41d325873 automatic configs work on all nodes 2019-12-05 15:07:59 +01:00
Maxime Garcia
78826c9d4e
Merge branch 'master' into UPPMAX 2019-12-05 12:52:34 +01:00
Alexander Peltzer
9cdb915efb
Merge pull request #101 from jfy133/master 
Condensing SHH profile(s) with sub-profiles
 2019-12-05 12:51:31 +01:00
MaxUlysse
cf6e00d9f5 better match for hostname 2019-12-05 12:46:32 +01:00
MaxUlysse
20e451be3b actually define hostname 2019-12-05 12:45:30 +01:00
MaxUlysse
0211b33a55 trying automatic configuration based on hostname 2019-12-05 12:41:18 +01:00
James A. Fellows Yates
842642a2bb
Apply suggestions from code review 
Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
 2019-12-05 12:23:36 +01:00
James A. Fellows Yates
678a3841b6
Update conf/shh.config 
Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
 2019-12-05 12:23:06 +01:00
jfy133
3fc1377ff2 Remove mysterious new line 2019-12-05 12:16:01 +01:00
jfy133
41a795f996 Fixed github actions test 2019-12-05 12:14:01 +01:00
jfy133
54dafbcfa3 Condensing SHH profiles following https://github.com/nf-core/configs/pull/100 2019-12-05 12:09:11 +01:00
MaxUlysse
a79dfdf223 remove uppmax_devel profile 2019-12-05 12:03:04 +01:00
MaxUlysse
cdbdbee0eb replace -profile uppmax_devel by -profile uppmax,devel 2019-12-05 11:49:44 +01:00