From fab020461b55f0aab452503ce3400d0f2d5d4493 Mon Sep 17 00:00:00 2001 From: drpatelh Date: Fri, 7 Aug 2020 09:44:16 +0100 Subject: [PATCH] Add -with-docker --- .github/workflows/fastqc.yml | 2 +- software/fastqc/test/main.nf | 4 ++-- 2 files changed, 3 insertions(+), 3 deletions(-) diff --git a/.github/workflows/fastqc.yml b/.github/workflows/fastqc.yml index 7f488f70..6a79746d 100644 --- a/.github/workflows/fastqc.yml +++ b/.github/workflows/fastqc.yml @@ -27,4 +27,4 @@ jobs: sudo mv nextflow /usr/local/bin/ # Test the module - - run: nextflow run ./software/fastqc/test/ + - run: nextflow run ./software/fastqc/test/ -with-docker diff --git a/software/fastqc/test/main.nf b/software/fastqc/test/main.nf index 96f59d2f..cb0916d9 100755 --- a/software/fastqc/test/main.nf +++ b/software/fastqc/test/main.nf @@ -14,7 +14,7 @@ include { FASTQC } from '../main.nf' workflow test_single_end { def input = [] - input = [ [ id:'test', single_end:true ], + input = [ [ id:'test', single_end:true ], // meta map [ file("${baseDir}/input/test_single_end.fastq.gz", checkIfExists: true) ] ] FASTQC ( input, [ publish_dir:'test_single_end' ] ) @@ -26,7 +26,7 @@ workflow test_single_end { workflow test_paired_end { def input = [] - input = [ [ id:'test', single_end:false ], + input = [ [ id:'test', single_end:false ], // meta map [ file("${baseDir}/input/test_R1.fastq.gz", checkIfExists: true), file("${baseDir}/input/test_R2.fastq.gz", checkIfExists: true) ] ]