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Add adapterlist to AR2 subworkflow

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This commit is contained in:
James A. Fellows Yates 2022-10-27 12:23:27 +00:00
parent 76a662ecc5
commit 08d61065e5
1 changed files with 1 additions and 1 deletions
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subworkflows/local/shortread_preprocessing.nf
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@ -22,7 +22,7 @@ workflow SHORTREAD_PREPROCESSING {
ch_versions = ch_versions.mix( SHORTREAD_FASTP.out.versions )
ch_multiqc_files = ch_multiqc_files.mix( SHORTREAD_FASTP.out.mqc )
} else if ( params.shortread_qc_tool == "adapterremoval" ) {
ch_processed_reads = SHORTREAD_ADAPTERREMOVAL ( reads ).reads
ch_processed_reads = SHORTREAD_ADAPTERREMOVAL ( reads, adapterlist ).reads
ch_versions = ch_versions.mix( SHORTREAD_ADAPTERREMOVAL.out.versions )
ch_multiqc_files = ch_multiqc_files.mix( SHORTREAD_ADAPTERREMOVAL.out.mqc )
} else {