Commit 3fb47bbd authored by Chris Cheshire's avatar Chris Cheshire
Browse files

Updated conda versions

parent 66d7f019

modules/local/awk.nf

+1 −1
Original line number Diff line number Diff line
@@ -13,7 +13,7 @@ process AWK { 
        mode: params.publish_dir_mode,

        saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }



    conda (params.enable_conda ? null : null)

    conda (params.enable_conda ? "conda-forge::sed=4.7" : null)

    if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

        container "https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv1/biocontainers_v1.2.0_cv1.img"

    } else {

modules/local/awk_script.nf

+1 −1
Original line number Diff line number Diff line
@@ -10,7 +10,7 @@ process AWK_SCRIPT { 
        mode: params.publish_dir_mode,

        saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }



    conda (params.enable_conda ? null : null)

    conda (params.enable_conda ? "conda-forge::sed=4.7" : null)

    if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

        container "https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv1/biocontainers_v1.2.0_cv1.img"

    } else {

modules/local/cat_fastq.nf

+1 −1
Original line number Diff line number Diff line
@@ -14,7 +14,7 @@ process CAT_FASTQ { 
        mode: params.publish_dir_mode,

        saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'merged_fastq', publish_id:meta.id) }



    conda (params.enable_conda ? null : null)

    conda (params.enable_conda ? "conda-forge::sed=4.7" : null)

    if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

        container "https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv1/biocontainers_v1.2.0_cv1.img"

    } else {

modules/local/export_meta.nf

+1 −1
Original line number Diff line number Diff line
@@ -9,7 +9,7 @@ process EXPORT_META { 
        mode: params.publish_dir_mode,

        saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }



    conda (params.enable_conda ? "" : null)

    conda (params.enable_conda ? null : null)

    if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

        container "https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv1/biocontainers_v1.2.0_cv1.img"

    } else {

modules/local/sort.nf

+1 −1
Original line number Diff line number Diff line
@@ -15,7 +15,7 @@ process SORT { 
        saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }





    conda (params.enable_conda ? null : null)

    conda (params.enable_conda ? "conda-forge::sed=4.7" : null)

    if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

        container "https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv1/biocontainers_v1.2.0_cv1.img"

    } else {

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