Skip to content
Snippets Groups Projects
Commit bf96062e authored by Gervaise Henry's avatar Gervaise Henry :cowboy:
Browse files

Revert and add outputs for genome param and ref to error exit output

parent ee5e2fd6
Branches
Tags
No related merge requests found
Pipeline #2339 failed with stage
...@@ -8,7 +8,7 @@ params.fastq = "$baseDir/../test_data/*.fastq.gz" ...@@ -8,7 +8,7 @@ params.fastq = "$baseDir/../test_data/*.fastq.gz"
params.designFile = "$baseDir/../test_data/design.csv" params.designFile = "$baseDir/../test_data/design.csv"
params.genome = 'GRCh38' params.genome = 'GRCh38'
params.genomes = [] params.genomes = []
params.ref = params.genome ? params.genomes[ ${params.genome} ].ref ?: false : false params.ref = params.genome ? params.genomes[ params.genome ].ref ?: false : false
params.expectCells = 10000 params.expectCells = 10000
params.forceCells = 0 params.forceCells = 0
...@@ -18,7 +18,7 @@ if( params.ref ){ ...@@ -18,7 +18,7 @@ if( params.ref ){
.fromPath(params.ref) .fromPath(params.ref)
.ifEmpty { exit 1, "referene not found: ${params.ref}" } .ifEmpty { exit 1, "referene not found: ${params.ref}" }
} else { } else {
exit 1, "No reference genome specified." exit 1, "No reference genome specified. ${params.genome} ${params.ref}"
} }
// Define List of Files // Define List of Files
......
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment