b97pla
9a6cdfc21e
removed process-specific requirements for sarek, request miarka high-mem node
2022-03-24 14:25:43 +01:00
b97pla
5466d927f1
added requirements for uppmax cluster miarka
2022-03-23 15:29:40 +01:00
Maxime U. Garcia
61682f33b3
Merge pull request #310 from nf-core/praveenraj2018-patch-1
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Updated sentieon version through a new module file
2022-01-10 12:04:20 +01:00
ameynert
0f56588acc
Added memory & cluster options specification for eddie sarek config
2022-01-06 10:15:34 +00:00
praveenraj2018
53ab5ee34f
Updated sentieon version through a new module file
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A local module file has been created to run the latest version of Sentieon. Doing this change, as the new version of Sentieon has only a dependency library update, hence it should not break the Sentieon pipeline. Tested locally with a test.conf having the new process block.
2021-12-21 15:21:59 +01:00
Rike
f6e16f2872
Add check_resource to respect max_resource/max_cpus
2021-10-04 10:14:02 +02:00
MaxUlysse
73fcc4495a
feat: update owner of profile
2021-05-19 20:46:52 +02:00
Gisela Gabernet
4e9e5d2c67
Merge branch 'master' into cfc_sarek
2021-04-23 16:47:04 +02:00
ameynert
e5f2a63079
Java overhead processes list updated
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Added all processes calling GATK for Mutect2 variant calling
2021-03-30 16:21:53 +01:00
ameynert
adfb5366b9
Java overhead process list updated
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Added HaplotypeCaller and GenotypeGVCFs to set of processes that need Java overhead
2021-03-30 16:15:17 +01:00
ameyner2
da8cf2f207
Added pipeline-specific config files for rnaseq and sarek
2021-03-24 10:46:26 +00:00
Rike
6221b67bcf
Give Strelka a complete compute node
2021-03-18 11:11:02 +01:00
Rike
b1846af9d3
reduce mapping resource further to compute node
2021-03-18 11:10:00 +01:00
FriederikeHanssen
67c93a4743
Update conf/pipeline/sarek/cfc.config
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Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com>
2021-03-18 11:06:38 +01:00
Rike
b70097e495
remove new line
2021-03-17 15:46:18 +01:00
Rike
bb124a9be8
Reduce vc to run on compute
2021-03-11 16:11:41 +01:00
FriederikeHanssen
79ddbe1fea
Add missing bracket
2021-03-11 09:29:03 +01:00
FriederikeHanssen
0057132e02
remove check_reource statement
2021-03-11 09:27:08 +01:00
FriederikeHanssen
eb9012919c
Set values for processes with max_mem/max_cpus
2021-03-10 11:16:18 +01:00
MaxUlysse
8c0cc4b9ec
code polishing
2020-09-25 09:57:50 +02:00
MaxUlysse
81f910cc95
add specific BamQC config
2020-09-25 09:49:43 +02:00
MaxUlysse
fbe7bd133a
update uppmax specific sarek config
2020-09-25 08:33:53 +02:00
Alexander Peltzer
f877644059
Merge branch 'master' into master
2020-05-29 11:43:47 +02:00
Maxime Garcia
34dc18faf6
Update uppmax.config
2020-04-09 11:35:37 +02:00
Adrian Larkeryd
405801638a
icr_davros sarek config description
2020-04-08 11:56:17 +01:00
MaxUlysse
db2dd4458b
Merge remote-tracking branch 'upstream/master' into UPPMAX
2020-03-30 16:41:08 +02:00
MaxUlysse
8b570507cd
update s
2020-03-30 16:40:11 +02:00
Maxime Garcia
123132d89a
Update munin.config
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fix typo
2020-03-12 17:23:55 +01:00
Maxime Garcia
b6d52fdb89
Update conf/pipeline/sarek/munin.config
2020-03-11 15:48:29 +01:00
MaxUlysse
dd1ddf864b
update sarek munin config
2020-03-11 14:01:28 +01:00
Adrian Larkeryd
a882b6cbaa
adding icr_davros config files generic and sarek
2020-03-04 15:00:33 +00:00
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
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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
MaxUlysse
9f74e88041
update file
2020-02-24 14:36:45 +01:00
MaxUlysse
aa905cd645
add UPPMAX specific sarek config
2020-02-20 17:14:18 +01:00
MaxUlysse
2bf66514c5
fix issue with withLabel selector
2019-12-12 11:50:10 +01:00
MaxUlysse
25f3bd68f8
container = null
2019-11-26 15:21:53 +01:00
MaxUlysse
ebdfc2a768
fix container/module collision
2019-11-26 11:59:00 +01:00
Maxime Garcia
880551d246
Apply suggestions from code review
2019-11-26 11:58:13 +01:00
Maxime Garcia
f6c2e4c65f
Update docs/pipeline/sarek/munin.md
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Update conf/pipeline/sarek/munin.config
testing out module and containers collision
2019-11-26 11:57:51 +01:00
Maxime Garcia
9d23f7a266
Update conf/pipeline/sarek/munin.config
2019-11-26 11:56:02 +01:00
MaxUlysse
45cec1ac2f
Add specific sarek config base, munin specific sarek config and docs
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rename file
improve configs
remove unnecessary params
2019-11-26 11:52:53 +01:00
MaxUlysse
028008c1d0
improve syntax
2019-11-26 11:48:29 +01:00
MaxUlysse
e98f74e47b
actually belong to nf-core/configs/munin
2019-11-26 11:48:29 +01:00
MaxUlysse
edde1ee64d
fix container/module collision
2019-11-26 11:48:29 +01:00
Maxime Garcia
9a57e487d7
Apply suggestions from code review
2019-11-26 11:48:29 +01:00
Maxime Garcia
b029ccaa59
Update docs/pipeline/sarek/munin.md
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Update conf/pipeline/sarek/munin.config
2019-11-26 11:48:11 +01:00