profiles { docker { docker.temp = 'auto' docker.enabled = true process { withName: mapping_fastq { container = "bowtie:1.2.2" cpus = 4 } } } singularity { singularity.enabled = true process { withName: mapping_fastq { cpus = 4 container = "file://bin/bowtie:1.2.2.img" } } } psmn { process{ withName: mapping_fastq { beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules" module = "bowtie/1.2.2:samtools/1.7" executor = "sge" clusterOptions = "-cwd -V" cpus = 16 memory = "30GB" time = "24h" queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F' penv = 'openmp16' } } } }