diff --git a/src/nf_modules/samblaster/dedup_sams.config b/src/nf_modules/samblaster/dedup_sams.config index c7e1525c483efdccf1ecd9cea73f055159f69845..883cbe69e2e1707c8e003b1132b98e7852bcdcac 100644 --- a/src/nf_modules/samblaster/dedup_sams.config +++ b/src/nf_modules/samblaster/dedup_sams.config @@ -33,4 +33,19 @@ profiles { } } } + ccin2p3 { + process{ + withName: dedup_sam { + beforeScript = "PATH=/sps/lbmc/common/nextflow/src/singularity_modules/samblaster/0.1.24/:/usr/bin:$PATH" + scratch = true + stageInMode = "copy" + stageOutMode = "rsync" + executor = "sge" + clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n" + cpus = 1 + memory = "10GB" + time = "24h" + } + } + } }