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Code Issues Releases Packages Activity

Pick up Kraken2 files correctly

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James Fellows Yates 2023-01-24 14:44:14 +01:00
parent 00178d3431
commit e7d7affcd0
1 changed files with 1 additions and 1 deletions
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2
conf/modules.config
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@ -350,7 +350,7 @@ process {
withName: KRAKEN2_KRAKEN2 { withName: KRAKEN2_KRAKEN2 {
ext.args = params.kraken2_save_minimizers ? { "${meta.db_params} --report-minimizer-data" } : { "${meta.db_params}" } ext.args = params.kraken2_save_minimizers ? { "${meta.db_params} --report-minimizer-data" } : { "${meta.db_params}" }
ext.prefix = params.perform_runmerging ? { meta.tool == "bracken" ? "${meta.id}_${meta.db_name}.bracken" : "${meta.id}_${meta.db_name}.kraken" } : { meta.tool == "bracken" ? "${meta.id}_${meta.run_accession}_${meta.db_name}.bracken" : "${meta.id}_${meta.run_accession}_${meta.db_name}.kraken" } ext.prefix = params.perform_runmerging ? { meta.tool == "bracken" ? "${meta.id}_${meta.db_name}.bracken" : "${meta.id}_${meta.db_name}.kraken2" } : { meta.tool == "bracken" ? "${meta.id}_${meta.run_accession}_${meta.db_name}.bracken" : "${meta.id}_${meta.run_accession}_${meta.db_name}.kraken2" }
publishDir = [ publishDir = [
path: { "${params.outdir}/kraken2/${meta.db_name}/" }, path: { "${params.outdir}/kraken2/${meta.db_name}/" },
mode: params.publish_dir_mode, mode: params.publish_dir_mode,