Commit 00b66d4c authored by Gervaise Henry's avatar Gervaise Henry 🤠
Browse files

Change report order

parent 42e5fcf0
Pipeline #3472 failed with stages
in 1 minute and 33 seconds
......@@ -7,6 +7,7 @@
params.bcl = "$baseDir/../test_data/*.tar.gz"
params.designFile = "$baseDir/../test_data/design.csv"
params.outDir = "$baseDir/output"
params.references = "$baseDir/../docs/references.md"
// Define List of Files
tarList = Channel.fromPath( params.bcl )
......@@ -16,6 +17,7 @@ designLocation = Channel
.fromPath(params.designFile)
.ifEmpty { exit 1, "design file not found: ${params.designFile}" }
outDir = params.outDir
references = params.references
process checkDesignFile {
......@@ -140,6 +142,7 @@ process versions {
ulimit -a
module load python/3.6.1-2-anaconda
echo $workflow.nextflow.version > version_nextflow.txt
python3 $baseDir/scripts/generate_references.py -r $references -o references
python3 $baseDir/scripts/generate_versions.py -f version_*.txt -o versions
"""
}
......@@ -164,6 +167,6 @@ process multiqc {
hostname
ulimit -a
module load multiqc/1.7
multiqc .
multiqc . -c $baseDir/scripts/.multiqc_config.yaml
"""
}
top_modules:
- 'Software Versions'
module_order:
- bcl2fastq
- fastqc
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