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19 lines
527 B
Text
19 lines
527 B
Text
process {
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publishDir = { "${params.outdir}/${task.process.tokenize(':')[-1].tokenize('_')[0].toLowerCase()}" }
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withName: GATK4_MARKDUPLICATES_SPARK {
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ext.prefix = { "${meta.id}.bam" }
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}
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withName: GATK4_MARKDUPLICATES_SPARK_CRAM {
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ext.prefix = { "${meta.id}.cram" }
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}
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withName: GATK4_MARKDUPLICATES_SPARK_METRICS {
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ext.args = '--metrics-file test.metrics'
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ext.prefix = { "${meta.id}.bam" }
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}
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}
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// override tests/config/nextflow.config
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docker.userEmulation = false
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