BugFix:Updates aws cov mask path to align with chr names

mskilab-org · Mar 4, 2024 · 349dc77 · 349dc77
1 parent c6a0554
commit 349dc77
Show file tree

Hide file tree

Showing 2 changed files with 5 additions and 5 deletions.
diff --git a/conf/igenomes.config b/conf/igenomes.config
@@ -88,7 +88,7 @@ params {
             build_dryclean               = 'hg38'
             hapmap_sites                 = "${params.igenomes_base}/Homo_sapiens/GATK/GRCh38/Annotation/GATKBundle/hapmap_3.3.hg38.vcf.gz"
             pon_dryclean                 = "${params.mski_base}/dryclean/pon/hg38/detergent.rds"
-            blacklist_coverage_jabba     = "${params.mski_base}/JaBbA/blacklist_coverage/hg38/hg38.coverage.mask.rds"
+            blacklist_coverage_jabba     = "${params.mski_base}/JaBbA/blacklist_coverage/hg38/hg38.coverage.mask.nochr.rds"
 	}
 
         'GRCh37' {

diff --git a/modules/local/jabba/main.nf b/modules/local/jabba/main.nf
@@ -3,8 +3,8 @@ process JABBA {
     label 'process_high'
 
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'docker://mskilab/jabba_cplex:latest':
-        'mskilab/jabba_cplex:latest' }"
+        'docker://mskilab/jabba:latest':
+        'mskilab/jabba:latest' }"
 
     input:
     tuple val(meta), path(cov_rds)
@@ -177,8 +177,8 @@ process COERCE_SEQNAMES {
     label 'process_low'
 
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'docker://mskilab/jabba_cplex:latest':
-        'mskilab/jabba_cplex:latest' }"
+        'docker://mskilab/jabba:latest':
+        'mskilab/jabba:latest' }"
 
     input:
     tuple val(meta), path(file)