Merge pull request #221 from hoelzer-lab/optimize-hpc-ressources

DESeq2 error handling, increase RAM on HPC
hoelzer-lab · Jul 28, 2023 · 851b8b7 · 851b8b7
2 parents d0f6ebe + 4661cf0
commit 851b8b7
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/configs/nodes.config b/configs/nodes.config
@@ -1,6 +1,6 @@
 process {   
-    withLabel: hisat2 { cpus = 24 ; memory = { 24.GB * task.attempt } ; maxRetries = 3 ; errorStrategy = { task.exitStatus in 134 ? 'retry' : 'terminate' } }
-    withLabel: deseq2 { cpus = 10 ; memory = '12 GB' }
+    withLabel: hisat2 { cpus = 24 ; memory = { 24.GB * task.attempt } ; maxRetries = 3 ; errorStrategy = { task.exitStatus in 130..140 ? 'retry' : 'terminate' } }
+    withLabel: deseq2 { cpus = 24 ; memory = { 12.GB * task.attempt } ; maxRetries = 2 ; errorStrategy = { task.exitStatus in 130..140 ? 'retry' : 'terminate' } }
     withLabel: fastp { cpus = 12 ; memory = '12 GB' }
     withLabel: fastqc { cpus = 1 ; memory = '2 GB' }
     withLabel: subread { cpus = 12 ; memory = '12 GB' }