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Author SHA1 Message Date
phue
e2e4dd05d3 cbe: move container cache to different filesystem 
this is a workaround for squashfs errors that occur when containers are run from beeGFS
 2020-03-05 16:34:20 +01:00
James A. Fellows Yates
116720e690
Merge pull request #125 from jfy133/master 
Try 'cleanup' profile option to by default cleanup work directory
 2020-03-04 07:40:34 +01:00
James A. Fellows Yates
41a45187fa
Experiment to see if 'cleanup = true' works as expected 2020-03-03 16:47:49 +01:00
James A. Fellows Yates
5d8c4f9c50
Merge pull request #9 from nf-core/master 
Syncing
 2020-03-03 16:46:09 +01:00
Johannes Alneberg
263230fdde
Merge pull request #124 from nf-core/Update-sarek-specific-UPPMAX-config 
Update sarek specific UPPMAX config
 2020-02-28 07:38:34 +01:00
Maxime Garcia
9a8bb12020
Update conf/pipeline/sarek/uppmax.config 2020-02-27 17:22:03 +01:00
Maxime Garcia
8acbdacf03
Update conf/pipeline/sarek/uppmax.config 
Co-Authored-By: Johannes Alneberg <johannes.alneberg@scilifelab.se>
 2020-02-27 17:21:03 +01:00
Maxime Garcia
09ff8f5790
Update conf/pipeline/sarek/uppmax.config 2020-02-27 17:02:31 +01:00
Maxime Garcia
17d6a7e922
Update conf/pipeline/sarek/uppmax.config 2020-02-27 17:02:13 +01:00
Maxime Garcia
ab8998e12b
Update uppmax.config 2020-02-27 16:52:51 +01:00
Phil Ewels
752a83b4c7
Merge pull request #123 from ewels/params-overwrite 
Remove params.custom_config_base from nf-core/configs
 2020-02-27 12:23:04 +01:00
Phil Ewels
46b08c82e2 Remove params.custom_config_base from nf-core/configs 2020-02-27 11:53:38 +01:00
Maxime Garcia
47de9b8f76
Merge pull request #121 from MaxUlysse/Uppmax 
Uppmax
 2020-02-27 11:11:12 +01:00
MaxUlysse
a8d338d2aa Merge branch 'Uppmax' of github.com:MaxUlysse/nf-core_configs into Uppmax 2020-02-24 14:37:27 +01:00
MaxUlysse
9f74e88041 update file 2020-02-24 14:36:45 +01:00
Maxime Garcia
9b897345da
Update conf/pipeline/sarek/uppmax.config 
Co-Authored-By: Phil Ewels <phil.ewels@scilifelab.se>
 2020-02-21 08:16:31 +01:00
Maxime Garcia
2144a1dc04
Apply suggestions from code review 2020-02-20 17:19:30 +01:00
Maxime Garcia
08e2804b37
Merge branch 'master' into Uppmax 2020-02-20 17:18:46 +01:00
MaxUlysse
aa905cd645 add UPPMAX specific sarek config 2020-02-20 17:14:18 +01:00
Maxime Garcia
fed5524695
Merge pull request #120 from nf-core/d4straub-patch-1 
Update binac.config
 2020-02-19 11:33:47 +01:00
Daniel Straub
744db30da4
Update binac.config 
This is now close to optimal I think.
 2020-02-19 11:27:02 +01:00
Alexander Peltzer
01d571cc4c
Merge pull request #119 from MaxUlysse/master 
Add social preview image
 2020-02-18 00:19:52 +01:00
MaxUlysse
f16c740863 add social preview image 2020-02-12 11:58:26 +01:00
Harshil Patel
abcbb0f5ca
Merge pull request #118 from marchoeppner/ccga-config 
Adding new CCGA Med Cluster to profiles
 2020-02-11 12:00:36 +00:00
Harshil Patel
ef8534d481
Update README.md 2020-02-11 11:57:04 +00:00
marchoeppner
0830203b70 Adding new CCGA Med Cluster to profiles 
Updating README and fixing linting errors in CCGA_MED profile

Fixing order in profile queue and removed leading slash from readme for ccga profile docs

Fixing order in profile queue and removed leading slash from readme for ccga profile docs
 2020-02-11 11:12:51 +01:00
Daniel Straub
a5e183266e
Merge pull request #117 from nf-core/d4straub-patch-1 
Cleanup config
 2020-02-07 15:18:18 +01:00
Daniel Straub
b7be65a31e
Cleanup config 2020-02-07 14:53:43 +01:00
Alexander Peltzer
30735c3de7
Merge pull request #115 from nf-core/d4straub-patch-1 
Update binac.config
 2020-01-28 11:45:29 +01:00
Daniel Straub
7346bffdc8
Update binac.config 
Processes that ask for 128 Gb are queuing forever when on short queue, but executed when send to smp queue.
 2020-01-28 08:48:34 +01:00
James A. Fellows Yates
28d7e4d4e8
Merge pull request #113 from jfy133/master 
Updates SHH specific nf-core/eager pipeline
 2019-12-21 22:28:38 +01:00
James A. Fellows Yates
799f2d5788
Grammar tweak 2019-12-21 20:59:48 +01:00
James A. Fellows Yates
435a5892ea
Updated docs corresponding to 638758423a 2019-12-21 20:59:25 +01:00
James A. Fellows Yates
638758423a
Restricts MALT re-tries and hardcodes resources so cannot go above SDAG max 2019-12-21 20:55:54 +01:00
James A. Fellows Yates
5632a0631a
Merge pull request #8 from nf-core/master 
Syncing
 2019-12-21 20:51:38 +01:00
Harshil Patel
01b7357d1d
Merge pull request #112 from drpatelh/master 
Change iGenomes path after fullish sync
 2019-12-18 11:12:27 +00:00
drpatelh
bcb8950c2f Change URL to website 2019-12-18 10:57:12 +00:00
drpatelh
be5ed21269 Update docs 2019-12-18 10:54:31 +00:00
drpatelh
67c231d05c Change igenomes path 2019-12-18 10:54:23 +00:00
Harshil Patel
aadeea0ab9
Merge pull request #111 from drpatelh/master 
Update awsbatch.config
 2019-12-12 14:32:59 +00:00
drpatelh
089b5b8e3b Update config 2019-12-12 13:44:37 +00:00
drpatelh
0779d25255 Update docs 2019-12-12 13:02:51 +00:00
drpatelh
65c5668568 Update config 2019-12-12 13:02:44 +00:00
Maxime Garcia
d36172d4cf
Merge pull request #110 from MaxUlysse/MUNIN 
fix issue with withLabel selector
 2019-12-12 13:03:23 +01:00
MaxUlysse
2bf66514c5 fix issue with withLabel selector 2019-12-12 11:50:10 +01:00
Alexander Peltzer
a4fa95150c
Merge pull request #109 from apeltzer/master 
TZ env for binac
 2019-12-12 11:10:22 +01:00
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