diff --git a/src/nf_modules/sratoolkit/fastqdump.config b/src/nf_modules/sratoolkit/fastqdump.config index 043a378494ccebf2351db163a87cc69ee632844a..8c1087e5c70b88a928e4aab91b467b9def73a202 100644 --- a/src/nf_modules/sratoolkit/fastqdump.config +++ b/src/nf_modules/sratoolkit/fastqdump.config @@ -32,4 +32,19 @@ profiles { } } } + ccin2p3 { + process{ + withName: fastq_dump { + beforeScript = "PATH=/sps/lbmc/common/nextflow/src/singularity_modules/sratoolkit/2.8.2/:/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" + } + } + } }