update modules.config

ggabernet · Aug 20, 2024 · 7792153 · 7792153
1 parent 79234af
commit 7792153
Showing 1 changed file with 39 additions and 3 deletions.
diff --git a/conf/modules.config b/conf/modules.config
@@ -130,7 +130,16 @@ process {
         ]
     }
 
-    withName: 'PRESTO_MASKPRIMERS_SCORE_UMI_*' {
+    withName: 'PRESTO_MASKPRIMERS_SCORE_UMI_R1' {
+        publishDir = [
+            path: { "${params.outdir}/presto/02-maskprimers/${meta.id}" },
+            mode: params.publish_dir_mode,
+            pattern: "*{txt,log,tab}"
+        ]
+        ext.args2 = "-f ID PRIMER ERROR"
+    }
+
+    withName: 'PRESTO_MASKPRIMERS_SCORE_UMI_R2' {
         publishDir = [
             path: { "${params.outdir}/presto/02-maskprimers/${meta.id}" },
             mode: params.publish_dir_mode,
@@ -159,7 +168,16 @@ process {
         ext.args2 = '-f ID PRIMER ERROR --outname cregion_alignment'
     }
 
-    withName: 'PRESTO_MASKPRIMERS_EXTRACT*' {
+    withName: 'PRESTO_MASKPRIMERS_EXTRACT' {
+        publishDir = [
+            path: { "${params.outdir}/presto/02-maskprimers/${meta.id}" },
+            mode: params.publish_dir_mode,
+            pattern: "*{txt,log,tab}"
+        ]
+        ext.args2 = '-f ID PRIMER ERROR PRSTART'
+    }
+
+    withName: 'PRESTO_MASKPRIMERS_EXTRACT_R1' {
         publishDir = [
             path: { "${params.outdir}/presto/02-maskprimers/${meta.id}" },
             mode: params.publish_dir_mode,
@@ -168,7 +186,25 @@ process {
         ext.args2 = '-f ID PRIMER ERROR PRSTART'
     }
 
-    withName: 'PRESTO_MASKPRIMERS_SCORE_SANSUMI*' {
+    withName: 'PRESTO_MASKPRIMERS_EXTRACT_R2' {
+        publishDir = [
+            path: { "${params.outdir}/presto/02-maskprimers/${meta.id}" },
+            mode: params.publish_dir_mode,
+            pattern: "*{txt,log,tab}"
+        ]
+        ext.args2 = '-f ID PRIMER ERROR PRSTART'
+    }
+
+    withName: 'PRESTO_MASKPRIMERS_SCORE_SANSUMI_FWD' {
+        publishDir = [
+            path: { "${params.outdir}/presto/03-maskprimers/${meta.id}" },
+            mode: params.publish_dir_mode,
+            pattern: "*{txt,log,tab}"
+        ]
+        ext.args2 = '-f ID PRIMER ERROR'
+    }
+
+    withName: 'PRESTO_MASKPRIMERS_SCORE_SANSUMI_REV' {
         publishDir = [
             path: { "${params.outdir}/presto/03-maskprimers/${meta.id}" },
             mode: params.publish_dir_mode,