rna.nextflow.config

//
// There should be no need to change this
//

singularity.autoMounts = true
nextflowVersion = '>=19.04.1'


//
// You may need to change this section, based on your computing environment
//

process {
	executor='slurm'
	containerOptions='--bind "/lab:/lab"'
	validExitStatus=[0, 141]
}


executor {
	name = 'local'
	cpus = 5
	memory = '300 GB'
}



//
// Below are the key file names you'll need to change
//

params.chrom_sizes = ["hg19": "/lab/data/reference/human/hg19/hg19.chrom_sizes", "rn6": "/lab/work/porchard/data/chrom_sizes/rn6.chrom_sizes"]
params["barcode-whitelist"] = "/home/porchard/github/snRNAseq-NextFlow/3M-february-2018.txt"
params.star_index = ["hg19": "/lab/work/porchard/sn-muscle-project/data/star/hg19", "rn6": "/lab/work/porchard/sn-muscle-project/data/star/rn6"]