Included name- and label-specific resource settings in resources.config (4bf0df0a) · Commits · Chaos / Cutandrun

conf/resources.config

+151 −2

Original line number	Diff line number	Diff line
		@@ -6,6 +6,12 @@
		----------------------------------------------------------------------------------------
		*/

		/*
		========================================================================================
		MINIMAL AND ULTRA LOW RESOURCE ALLOCATION
		========================================================================================
		*/

		process {
		withLabel:process_min {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		@@ -19,3 +25,146 @@ process {
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}
		}

		/*
		========================================================================================
		MODULE-SPECIFIC RESOURCE ALLOCATION
		========================================================================================
		*/

		process {
		withName: '.*:ALIGN_BOWTIE2:BOWTIE2_ALIGN' {
		cpus = { check_max( 32 * task.attempt, 'cpus' ) }
		memory = { check_max( 64.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: '.*:ALIGN_BOWTIE2:BOWTIE2_SPIKEIN_ALIGN' {
		cpus = { check_max( 32 * task.attempt, 'cpus' ) }
		memory = { check_max( 64.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:DEEPTOOLS_COMPUTEMATRIX_GENE' {
		cpus = { check_max( 16 * task.attempt, 'cpus' ) }
		memory = { check_max( 32.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:DEEPTOOLS_COMPUTEMATRIX_PEAKS' {
		cpus = { check_max( 16 * task.attempt, 'cpus' ) }
		memory = { check_max( 32.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:CUSTOM_DUMPSOFTWAREVERSIONS' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 2.GB * task.attempt, 'memory' ) }
		time = { check_max( 1.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:.*:SAMTOOLS_INDEX' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 2.GB * task.attempt, 'memory' ) }
		time = { check_max( 1.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:.*:SAMTOOLS_STATS' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 2.GB * task.attempt, 'memory' ) }
		time = { check_max( 1.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:.*:SAMTOOLS_STATS' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 2.GB * task.attempt, 'memory' ) }
		time = { check_max( 1.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:.*:SAMTOOLS_IDXSTATS' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 2.GB * task.attempt, 'memory' ) }
		time = { check_max( 1.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:.*:SAMTOOLS_FLAGSTAT' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 2.GB * task.attempt, 'memory' ) }
		time = { check_max( 1.h * task.attempt, 'time' ) }
		}

		withName: '.*CHROMSIZES' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 2.GB * task.attempt, 'memory' ) }
		time = { check_max( 1.h * task.attempt, 'time' ) }
		}

		// 1 CPU 8 GB
		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:PREPARE_PEAKCALLING:BEDTOOLS_GENOMECOV' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 8.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:PREPARE_PEAKCALLING:BEDTOOLS_SORT' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 8.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:PREPARE_PEAKCALLING:UCSC_BEDGRAPHTOBIGWIG' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 8.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:BEDTOOLS_INTERSECT' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 8.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: '.:CONSENSUS_PEAKS:BEDTOOLS_MERGE\|.:CONSENSUS_PEAKS_ALL:BEDTOOLS_MERGE' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 8.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:PREPARE_PEAKCALLING:UCSC_BEDCLIP' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 8.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		// ultralow
		withName: '.*:CALCULATE_FRAGMENTS:BEDTOOLS_BAMTOBED' {
		cpus = { check_max( 2 * task.attempt, 'cpus' ) }
		memory = { check_max( 8.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:SEACR_CALLPEAK' {
		cpus = { check_max( 2 * task.attempt, 'cpus' ) }
		memory = { check_max( 8.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:FASTQC_TRIMGALORE:FASTQC' {
		cpus = { check_max( 2 * task.attempt, 'cpus' ) }
		memory = { check_max( 8.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		// memory
		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:DEEPTOOLS_PLOTHEATMAP_PEAKS' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 32.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}

		withName: 'NFCORE_CUTANDRUN:CUTANDRUN:.*:SAMTOOLS_VIEW' {
		cpus = { check_max( 1 * task.attempt, 'cpus' ) }
		memory = { check_max( 32.GB * task.attempt, 'memory' ) }
		time = { check_max( 4.h * task.attempt, 'time' ) }
		}
		}
		No newline at end of file

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