cluster.json

{
    "__default__" :
    {
      "mem" : 2000,
      "n" : 1,
	    "tasks" : 1,
      "name" : "{rule}-{wildcards}",
	    "logfile": "log/snake-{rule}-{wildcards}-%j.out"
    },
    "fastqc" :
    {
	    "mem" : 8000
    },
    "fastq_merge_r1" :
    {
	    "mem": 16000
    },
    "fastq_merge_r2" :
    {
	    "mem": 16000
    },
    "umi_create_whitelist" :
    {
	    "mem": 8000,
	    "tasks": 8
    },
    "trim_read2" :
    {
	    "mem": 8000
    },
    "align" :
    {
	    "mem": 32000,
      "n": 4
    },
    "reads_to_genes" :
    {
	    "mem": 48000,
      "tasks": 4
    },
    "sort_gene_bams" :
    {
	    "mem" : 8000
    },
    "make_gene_DGE_matrix" :
    {
	    "mem" : 16000
    },
    "reads_to_transcripts" :
    {
      "mem": 48000,
      "tasks": 4
    },
    "sort_transcript_bams" :
    {
      "mem" : 8000
    },
    "make_transcript_DGE_matrix" :
    {
      "mem" : 16000
    },
    "collect_rna_metrics" :
    {
      "mem" : 20000
    }
}