Unverified Commit 1431db1a authored by Chris Cheshire's avatar Chris Cheshire Committed by GitHub
Browse files

Merge pull request #49 from luslab/dev 

Version and multiqc fix
parents a56f79a1 7f29258a

conf/modules.config

+1 −1
Original line number Diff line number Diff line
@@ -259,7 +259,7 @@ params { 
        }



        "multiqc" {

            args          = ""

            args          = "-v"

            publish_dir   = "04_reporting/multiqc"

        }

modules/local/modules/trimgalore/main.nf

+4 −4
Original line number Diff line number Diff line
@@ -86,11 +86,11 @@ process TRIMGALORE { 
        mv ${meta.id}_1_val_1.fq.gz ${prefix_1}.fastq.gz

        mv ${meta.id}_2_val_2.fq.gz ${prefix_2}.fastq.gz



        [ ! -f  ${meta.id}_1_val_1_fastqc.html ] || mv ${meta.id}_1_val_1_fastqc.html ${meta.id}_1_fastqc${suffix}.html

        [ ! -f  ${meta.id}_2_val_2_fastqc.html ] || mv ${meta.id}_2_val_2_fastqc.html ${meta.id}_2_fastqc${suffix}.html

        [ ! -f  ${meta.id}_1_val_1_fastqc.html ] || mv ${meta.id}_1_val_1_fastqc.html ${meta.id}_1${suffix}_fastqc.html

        [ ! -f  ${meta.id}_2_val_2_fastqc.html ] || mv ${meta.id}_2_val_2_fastqc.html ${meta.id}_2${suffix}_fastqc.html



        [ ! -f  ${meta.id}_1_val_1_fastqc.zip ] || mv ${meta.id}_1_val_1_fastqc.zip ${meta.id}_1_fastqc${suffix}.zip

        [ ! -f  ${meta.id}_2_val_2_fastqc.zip ] || mv ${meta.id}_2_val_2_fastqc.zip ${meta.id}_2_fastqc${suffix}.zip

        [ ! -f  ${meta.id}_1_val_1_fastqc.zip ] || mv ${meta.id}_1_val_1_fastqc.zip ${meta.id}_1${suffix}_fastqc.zip

        [ ! -f  ${meta.id}_2_val_2_fastqc.zip ] || mv ${meta.id}_2_val_2_fastqc.zip ${meta.id}_2${suffix}_fastqc.zip

        """

    }

}

nextflow.config

+1 −1
Original line number Diff line number Diff line
@@ -225,7 +225,7 @@ manifest { 
    homePage        = "https://github.com/nf-core/cutandrun"

    description     = "Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes sequencing QC, spike-in normalisation, IgG control normalisation, peak calling and downstream peak analysis."

    mainScript      = "main.nf"

    nextflowVersion = '!>=21.04.3'

    nextflowVersion = '!>=21.04.0'

    version         = '1.0.0dev'

}

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