diff --git a/src/RNAseq_sen1D.config b/src/RNAseq_sen1D.config new file mode 100644 index 0000000000000000000000000000000000000000..aa27e45ff9b72be5c9fb0317639e546f8b62060c --- /dev/null +++ b/src/RNAseq_sen1D.config @@ -0,0 +1,67 @@ +profiles { + docker { + docker.temp = 'auto' + docker.enabled = true + process { + $adaptor_removal { + container = "cutadapt:1.14" + } + $4_random_bases_trimming { + container = "cutadapt:1.14" + } + } + } + sge { + process{ + $adaptor_removal { + beforeScript = "module purge; module load cutadapt/1.14" + executor = "sge" + cpus = 1 + memory = "5GB" + time = "6h" + queueSize = 1000 + pollInterval = '60sec' + queue = 'h6-E5-2667v4deb128' + penv = 'openmp8' + } + + $4_random_bases_trimming { + beforeScript = "module purge; module load cutadapt/1.14" + executor = "sge" + cpus = 1 + memory = "5GB" + time = "6h" + queueSize = 1000 + pollInterval = '60sec' + queue = 'h6-E5-2667v4deb128' + penv = 'openmp8' + } + } + } +} +profiles { + docker { + docker.temp = 'auto' + docker.enabled = true + process { + $trimming { + container = "urqt:d62c1f8" + } + } + } + sge { + process{ + $trimming { + beforeScript = "module purge; module load UrQt/d62c1f8" + executor = "sge" + cpus = 4 + memory = "5GB" + time = "6h" + queueSize = 1000 + pollInterval = '60sec' + queue = 'h6-E5-2667v4deb128' + penv = 'openmp8' + } + } + } +}