Commit 6f71348c authored by Chris Cheshire's avatar Chris Cheshire
Browse files

tidy

parent 70bbd640

subworkflows/local/calculate_fragments.nf

+3 −3
Original line number Diff line number Diff line
@@ -10,7 +10,7 @@ params.awk_options = [:] 
params.cut_options           = [:]



include { SAMTOOLS_VIEW      } from "../../modules/nf-core/modules/samtools/view/main"     addParams( options: params.samtools_view_options )

include { SAMTOOLS_SORT      } from '../../modules/nf-core/modules/samtools/sort/main'     addParams( options: params.samtools_sort_options )

include { SAMTOOLS_SORT      } from "../../modules/nf-core/modules/samtools/sort/main"     addParams( options: params.samtools_sort_options )

include { BEDTOOLS_BAMTOBED  } from "../../modules/nf-core/modules/bedtools/bamtobed/main" addParams( options: params.bamtobed_options      )

include { AWK                } from "../../modules/local/awk"                              addParams( options: params.awk_options           )

include { CUT                } from "../../modules/local/cut"                              addParams( options: params.cut_options           )

workflows/cutandrun.nf

+1 −2
Original line number Diff line number Diff line
@@ -605,8 +605,7 @@ workflow CUTANDRUN { 
     */

    ch_samtools_bam_scale

        .map { row -> [ row[0], row[1] ] }

        .set { ch_samtools_bam_sf }

    ch_samtools_bam = ch_samtools_bam_sf

        .set { ch_samtools_bam }

    //EXAMPLE CHANNEL STRUCT: [[META], BAM]

    //ch_samtools_bam | view

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