millironx/nf-configs
1
0
Fork 0
mirror of https://github.com/MillironX/nf-configs.git synced 2024-11-21 16:16:04 +00:00
Code Issues Releases Packages Activity

Merge pull request #248 from jfy133/eva

Browse source 
Fix MakeSeqDict eager @ eva
This commit is contained in:
James A. Fellows Yates 2021-06-07 13:26:05 +02:00 committed by GitHub
commit 756f067213
No known key found for this signature in database
GPG key ID: 4AEE18F83AFDEB23
1 changed files with 6 additions and 2 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

8
conf/pipeline/eager/eva.config
View file

@ -61,7 +61,7 @@ process {
// Fixes for SGE and Java incompatibility due to Java using more memory than you tell it to use
withName: makeSeqDict {
clusterOptions = { "-S /bin/bash -v JAVA_OPTS='-XX:ParallelGCThreads=1' -l h_vmem=${(task.memory.toGiga() + 3)}G,virtual_free=${(task.memory.toGiga() + 3)}G" }
clusterOptions = { "-S /bin/bash -l h_vmem=${(task.memory.toGiga() * 2)}G,virtual_free=${(task.memory.toGiga() * 2)}G" }
}
withName: fastqc {
@ -79,6 +79,10 @@ process {
withName: markduplicates {
clusterOptions = { "-S /bin/bash -l h_vmem=${(task.memory.toGiga() + 6)}G,virtual_free=${(task.memory.toGiga() + 6)}G" }
}
withName: library_merge {
clusterOptions = { "-S /bin/bash -l h_vmem=${(task.memory.toGiga() + 6)}G,virtual_free=${(task.memory.toGiga() + 6)}G" }
}
withName: malt {
clusterOptions = { "-S /bin/bash -l h_vmem=${(task.memory.toGiga() * 2)}G,virtual_free=${(task.memory.toGiga() * 2)}G" }
@ -212,4 +216,4 @@ profiles {
bwaalnl = 16500
}
}
}
}