organise configs

nf-core · Jan 17, 2025 · f9c96cf · f9c96cf
1 parent 20dc974
commit f9c96cf
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Showing 2 changed files with 9 additions and 14 deletions.
diff --git a/conf/modules/call_snv_MT.config b/conf/modules/call_snv_MT.config
@@ -24,6 +24,15 @@ process {
     withName: '.*CALL_SNV_MT:GATK4_FILTERMUTECTCALLS_MT' {
         ext.prefix = { "${meta.id}_filtered" }
     }
+
+    withName: '.*CALL_SNV:CALL_SNV_MT:HAPLOCHECK_MT' {
+        publishDir = [
+            path: { "${params.outdir}/haplocheck" },
+            mode: params.publish_dir_mode,
+            saveAs: { filename -> filename.endsWith(".txt") ? filename : null }
+        ]
+    }
+
 }
 
 //

diff --git a/conf/modules/raredisease.config b/conf/modules/raredisease.config
@@ -74,20 +74,6 @@ process {
     }
 }
 
-//
-// Haplocheck options
-//
-
-process {
-    withName: '.*CALL_SNV:CALL_SNV_MT:HAPLOCHECK_MT' {
-        publishDir = [
-            path: { "${params.outdir}/haplocheck" },
-            mode: params.publish_dir_mode,
-            saveAs: { filename -> filename.equals('versions.yml') ? null : filename }
-        ]
-    }
-}
-
 //
 // Multiqc options
 //