profiles { docker { docker.temp = 'auto' docker.enabled = true process { withName: index_fasta { container = "bowtie2:2.3.4.1" cpus = 4 } } } singularity { singularity.enabled = true process { withName: index_fasta { container = "file://bin/bowtie2:2.3.4.1.sif" cpus = 4 } } } psmn { process{ withName: index_fasta { beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules" module = "bowtie2/2.3.4.1" executor = "sge" clusterOptions = "-m e -cwd -V" cpus = 16 memory = "20GB" time = "12h" queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F' penv = 'openmp16' } } } }