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Fix input channels to kraken2
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parent
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commit
120382f51d
1 changed files with 6 additions and 6 deletions
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@ -37,11 +37,11 @@ ch_multiqc_custom_config = params.multiqc_config ? Channel.fromPath(params.multi
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//
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// SUBWORKFLOW: Consisting of a mix of local and nf-core/modules
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//
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include { INPUT_CHECK } from '../subworkflows/local/input_check'
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include { INPUT_CHECK } from '../subworkflows/local/input_check'
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include { DB_CHECK } from '../subworkflows/local/db_check'
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include { DB_CHECK } from '../subworkflows/local/db_check'
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include { SHORTREAD_PREPROCESSING } from '../subworkflows/local/shortread_preprocessing'
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include { LONGREAD_PREPROCESSING } from '../subworkflows/local/longread_preprocessing'
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include { LONGREAD_PREPROCESSING } from '../subworkflows/local/longread_preprocessing'
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/*
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~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
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@ -171,7 +171,7 @@ workflow TAXPROFILER {
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[ temp_meta, it[1], db ]
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}
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.groupTuple(by: [0,2])
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.dump(tag: "input for malt")
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.dump(tag: "input_for_malt")
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.multiMap {
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it ->
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reads: [ it[0], it[1].flatten() ]
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@ -180,10 +180,10 @@ workflow TAXPROFILER {
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// We can run Kraken2 one-by-one sample-wise
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ch_input_for_kraken2 = ch_input_for_profiling.kraken2
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.dump(tag: "input for kraken")
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.dump(tag: "input_for_kraken")
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.multiMap {
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it ->
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reads: [ it[0] + it[2], it[1] ]
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reads: [ it[0] + it[2], it[1].flatten() ]
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db: it[3]
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}
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