Ramprasad Neethiraj
|
1c942759ea
|
update sentieon
|
2022-08-18 15:52:31 +02:00 |
|
Ramprasad Neethiraj
|
40c965c76b
|
fix sentieon errors
|
2022-04-29 00:20:57 +02:00 |
|
Ramprasad Neethiraj
|
9da85209f2
|
change bcftools output format
|
2022-04-22 11:05:56 +02:00 |
|
Ramprasad Neethiraj
|
447b3ee05d
|
add beforescript for sentieon
|
2022-04-22 11:03:09 +02:00 |
|
Ramprasad Neethiraj
|
3e3e2be04b
|
remove duplicate entries
|
2022-04-22 00:09:29 +02:00 |
|
Ramprasad Neethiraj
|
d39bec05dc
|
fix typo
|
2022-04-19 13:21:51 +02:00 |
|
Ramprasad Neethiraj
|
32207a2402
|
update path so that the sentieon version is explicit
|
2022-04-19 11:42:05 +02:00 |
|
Ramprasad Neethiraj
|
6fad232232
|
sentieon env variable
|
2022-04-19 11:27:35 +02:00 |
|
Ramprasad Neethiraj
|
afe935c2d0
|
include stub profile
|
2022-04-15 15:27:41 +02:00 |
|
Maxime U. Garcia
|
e9d93d62e0
|
Merge pull request #362 from nf-core/praveenraj2018-patch-1
Update: sentieon version
|
2022-04-07 12:52:33 +02:00 |
|
Praveen Raj S
|
edaad1cd18
|
Update: sentieon version
Sentieon version has been updated to 202112.02.
|
2022-04-07 12:36:01 +02:00 |
|
James A. Fellows Yates
|
d49b21efdc
|
Merge pull request #361 from jfy133/master
Re-add accidently removed BWA bionode exclusions EAGER @ EVA
|
2022-03-31 14:11:54 +02:00 |
|
James A. Fellows Yates
|
44238471cf
|
Update eva.config
|
2022-03-31 13:12:50 +02:00 |
|
James A. Fellows Yates
|
f172cce8b2
|
Merge pull request #360 from jfy133/master
Re-add bash bin specification for EVA
|
2022-03-31 12:58:06 +02:00 |
|
James Fellows Yates
|
2277b541a3
|
Re-add bash bin specification
|
2022-03-31 11:06:53 +02:00 |
|
James A. Fellows Yates
|
7cad02d327
|
Merge pull request #359 from jfy133/fix-eva
Remove -S /bin/bash in clusteroptions for EVA
|
2022-03-29 13:51:41 +02:00 |
|
James A. Fellows Yates
|
8ad4ddac6a
|
Merge branch 'master' into fix-eva
|
2022-03-29 12:50:54 +02:00 |
|
James Fellows Yates
|
3d2a612b39
|
Remove setting of bash in clusterOotions
|
2022-03-29 12:48:37 +02:00 |
|
James A. Fellows Yates
|
576351219a
|
Update eva.config
|
2022-03-29 12:47:46 +02:00 |
|
James A. Fellows Yates
|
9e502025b9
|
Merge pull request #358 from aidaanva/master
Update eva.config bigmem.q
|
2022-03-28 09:11:18 +02:00 |
|
James A. Fellows Yates
|
b0c9ac9be8
|
Update eva.md
|
2022-03-28 09:02:26 +02:00 |
|
Phil Ewels
|
1f872aea87
|
Merge pull request #357 from mahesh-panchal/uppmax-hostname-fix
Execute sinfo with bash shell
|
2022-03-25 15:31:09 +01:00 |
|
Mahesh Binzer-Panchal
|
3a7f7f431e
|
Execute sinfo with bash shell
|
2022-03-25 13:58:37 +00:00 |
|
Aida Andrades Valtueña
|
b9da0b4f00
|
Update eva.config
Update eva.config to send big memory jobs (>700G) to the bigmem queue
|
2022-03-25 09:36:29 +01:00 |
|
Phil Ewels
|
7d72e8d94b
|
Merge pull request #356 from b97pla/uppmax_miarka_config
removed process-specific requirements for sarek, request miarka high-…
|
2022-03-24 14:33:06 +01:00 |
|
b97pla
|
9a6cdfc21e
|
removed process-specific requirements for sarek, request miarka high-mem node
|
2022-03-24 14:25:43 +01:00 |
|
Phil Ewels
|
80ec4485b6
|
Merge pull request #355 from b97pla/uppmax_miarka_config
added requirements for uppmax cluster miarka
|
2022-03-23 16:56:44 +01:00 |
|
b97pla
|
5466d927f1
|
added requirements for uppmax cluster miarka
|
2022-03-23 15:29:40 +01:00 |
|
Phil Ewels
|
2c18f8c5da
|
Merge pull request #354 from Emiller88/prettier
|
2022-03-23 12:31:41 +01:00 |
|
Edmund Miller
|
590045be31
|
ci: Run linting only once
|
2022-03-21 19:23:29 -05:00 |
|
Edmund Miller
|
ac6c08fbf4
|
style: yaml => yml
|
2022-03-21 19:23:29 -05:00 |
|
Edmund Miller
|
c909b36a5e
|
style: Allow editorconfig to manage tab widths
|
2022-03-21 19:23:29 -05:00 |
|
Edmund Miller
|
6c37bf3b20
|
style: Run prettier
|
2022-03-21 19:23:28 -05:00 |
|
Edmund Miller
|
58da86d729
|
ci: Use prettier
|
2022-03-21 19:13:59 -05:00 |
|
Edmund Miller
|
c42ab624c2
|
style: Replace markdownlint with prettier
|
2022-03-21 19:13:56 -05:00 |
|
James A. Fellows Yates
|
962d86d604
|
Merge pull request #346 from sagc-bioinformatics/sahmri
Added SAHMRI profile
|
2022-03-18 13:01:36 +01:00 |
|
Nathan S. Watson-Haigh
|
30f710ada4
|
Add debug profile
|
2022-03-17 13:38:43 +10:30 |
|
Praveen Raj S
|
066a2181cb
|
Merge pull request #353 from nf-core/praveenraj2018-patch-1
Added PileupSummariesForMutect2 in CPU limit list
|
2022-03-16 14:39:43 +01:00 |
|
Praveen Raj S
|
1d4f254e43
|
Update munin.config
|
2022-03-16 14:37:28 +01:00 |
|
Praveen Raj S
|
9747d5fe15
|
Added PileupSummariesForMutect2 in CPU limit list
Add PileupSummariesForMutect2 to the list to run with less threads.
Changed the MaxForks to 12
Tested on an internal sample and it worked!
|
2022-03-16 14:36:25 +01:00 |
|
Alexander Peltzer
|
d510cb254e
|
Merge pull request #165 from ewels/fix-show-profiles
Set params.custom_config_base in nextflow.config
|
2022-03-15 17:13:24 +01:00 |
|
Praveen Raj S
|
5828a48ef7
|
Merge pull request #351 from nf-core/praveenraj2018-patch-1
Adjusted time and maxforks for Mutect2
|
2022-03-15 17:00:09 +01:00 |
|
Praveen Raj S
|
a844335942
|
Update conf/munin.config
Co-authored-by: Maxime U. Garcia <max.u.garcia@gmail.com>
|
2022-03-15 16:59:06 +01:00 |
|
Praveen Raj S
|
cb96c4bd2d
|
Update conf/munin.config
Co-authored-by: Maxime U. Garcia <max.u.garcia@gmail.com>
|
2022-03-15 16:56:11 +01:00 |
|
Praveen Raj S
|
13c66f7e98
|
Update conf/munin.config
Co-authored-by: Maxime U. Garcia <max.u.garcia@gmail.com>
|
2022-03-15 16:56:03 +01:00 |
|
Praveen Raj S
|
50c4610345
|
Adjusted time and maxforks for Mutect2
|
2022-03-15 16:29:19 +01:00 |
|
Alexander Peltzer
|
3e4fae71a4
|
Merge branch 'master' into fix-show-profiles
|
2022-03-15 14:52:29 +01:00 |
|
James A. Fellows Yates
|
47bb41a1d8
|
Merge pull request #348 from jfy133/eva-update
Update eager @ eva to exclude slow nodes for mapping
|
2022-03-15 07:54:52 +01:00 |
|
James A. Fellows Yates
|
1b5037ce5e
|
Update eva.config
|
2022-03-15 07:49:06 +01:00 |
|
James A. Fellows Yates
|
1565b2ce63
|
Update eva.config
|
2022-03-15 07:42:23 +01:00 |
|