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Author SHA1 Message Date
James A. Fellows Yates
c52428cd72
Bump number of eager @shh retries to account for deep sequencing data 2020-06-30 08:19:25 +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
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
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
James A. Fellows Yates
e395007ba8
Add reference to EBC in README docs 2020-03-10 09:34:30 +01:00
James A. Fellows Yates
3d9e2288b7
Merge pull request #10 from nf-core/master 
Get latest changes
 2020-03-10 09:33:46 +01:00
James A. Fellows Yates
52214cc22d
Merge pull request #134 from marcel-keller/ebc 
adding Estonian Biocentre cluster profile
 2020-03-09 16:09:27 +01:00
marcel-keller
dcb478c904
Update ebc.md 2020-03-09 17:07:03 +02:00
marcel-keller
8e3803e4d7
Update ebc.config 2020-03-09 16:57:45 +02:00
marcel-keller
c00bbe982b
Update ebc.config 2020-03-09 16:51:38 +02:00
marcel-keller
3b57519500
Update ebc.config 2020-03-09 16:48:50 +02:00
marcel-keller
edc6a6aa87
Update nfcore_custom.config 2020-03-09 16:35:45 +02:00
marcel-keller
88cfe11187
Update ebc.md 2020-03-09 16:32:14 +02:00
marcel-keller
f48a4cbfb8
Update main.yml 2020-03-09 16:25:19 +02:00
marcel-keller
418f4b52b6
Create ebc.md 2020-03-09 16:23:16 +02:00
Alexander Peltzer
b8d020b78c
Update cfc.md 2020-03-09 15:12:49 +01:00
marcel-keller
de914e56ee
Create ebc.config 2020-03-09 16:08:01 +02:00
Alexander Peltzer
55fa7e4e00
Merge pull request #132 from nf-core/evanfloden-patch-1 
Update google.md
 2020-03-09 15:07:38 +01:00
Evan Floden
6141e008a3
Update google.md 2020-03-09 14:44:58 +01:00
Evan Floden
362c737073
Merge pull request #131 from nf-core/merge-gogole 
Merge Evans Google additions
 2020-03-09 13:56:24 +01:00
Alexander Peltzer
ebae81ceb3
Update main.yml 
Drop CCGA, as it was removed in an intermediate merge.
 2020-03-06 17:18:03 +01:00
Alexander Peltzer
9fa08cde5c
Merge pull request #127 from seqeralabs/master 
Add Google Cloud Life Sciences config
 2020-03-06 17:17:05 +01:00
Evan Floden
d8ad376f71
Merge branch 'master' into master 2020-03-06 10:29:50 +00:00
Evan Floden
f5364e45e7
Update google.md or markdown linting 2020-03-06 11:27:44 +01:00
Alexander Peltzer
59a787b179
Merge pull request #122 from marchoeppner/ccga-config 
Removing old CCGA profile from docs and linting
 2020-03-06 11:17:08 +01:00
Alexander Peltzer
3ae3842e61
Merge pull request #130 from nf-core/mseybold-patch-3 
Update RADME.md
 2020-03-06 11:16:00 +01:00
Alexander Peltzer
dfdb46180d
Merge pull request #129 from nf-core/mseybold-patch-2 
Update cfc.md
 2020-03-06 11:15:36 +01:00
Alexander Peltzer
edc34e7358
Merge pull request #128 from nf-core/mseybold-patch-1 
Update cfc.config
 2020-03-06 11:15:16 +01:00
mseybold
48400b8863
Update RADME.md 
fixed link to cfc.md
 2020-03-06 11:14:27 +01:00
mseybold
2135996b13
Update cfc.md 2020-03-06 11:12:21 +01:00
mseybold
52842de88b
Update cfc.config 
test failed, so added the the default queue
 2020-03-06 10:46:37 +01:00
mseybold
8e42bbd7d0
Update cfc.config 
We just added some new HighMem nodes to the cfc, Partition/queue name is qbic, each node has 128Cores and 2TB of RAM.
The old queue (Name compute) is set to default by slurm.
Each process over 60GB of RAM or over 20cpus should run on those new nodes.
So added the queue State and adjusted the max_memory and max_cpu setting.
 2020-03-06 10:25:08 +01:00
Evan Floden
44cd3089de
Alphabetical ordering of GitHub workflows 2020-03-06 09:48:00 +01:00
Evan Floden
87e8da61a4 Readme formatting 2020-03-06 05:58:59 +00:00
Evan Floden
8a9d3ad8a0 First commit of Google Cloud config 2020-03-06 05:47:29 +00:00
Alexander Peltzer
cd1932e9bb
Merge pull request #126 from phue/cbe-container-cache 
cbe: move container cache to different filesystem
 2020-03-05 17:02:32 +01:00
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