typo in final publish

Pathogen-Genomics-Cymru · Nov 6, 2024 · af4ffc7 · af4ffc7
1 parent f9a376a
commit af4ffc7
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/modules/vcfpredictModules.nf b/modules/vcfpredictModules.nf
@@ -72,7 +72,7 @@ process tbprofiler {
     label 'new_tmp'
 
     publishDir "${params.output_dir}/${sample_name}/antibiogram", mode: 'copy', pattern: '*.tbprofiler-out.json', overwrite: 'true'
-    publishDir "${params.output_dir}${sample_name}", mode: 'copy', overwrite: 'true', pattern: '*{_err.json,_report.json}'
+    publishDir "${params.output_dir}/${sample_name}", mode: 'copy', overwrite: 'true', pattern: '*{_err.json,_report.json}'
 
     input:
     tuple val(sample_name), path(minos_vcf), path(report_json), val(isSampleTB)
@@ -309,8 +309,8 @@ process finalJson {
     label 'low_cpu'
 
     errorStrategy 'ignore'
-    
-    publishDir "${params.output_dir}${sample_name}", mode: 'copy', overwrite: 'true', pattern: '*_report.json'
+
+    publishDir "${params.output_dir}/${sample_name}", mode: 'copy', overwrite: 'true', pattern: '*_report.json'
 
     input:
     tuple val(sample_name), path(vcfmix_json), path(gnomon_json), path(report_json)