refactor(homer): Update output path for bedGraph (#1438)

This allow for caching because otherwise it modifies the tag directory input

modules/homer/makeucscfile/main.nf

@@ -13,8 +13,8 @@ process HOMER_MAKEUCSCFILE {
     tuple val(meta), path(tagDir)
 
     output:
-    tuple val(meta), path("tag_dir/*ucsc.bedGraph.gz"), emit: bedGraph
-    path  "versions.yml"                              , emit: versions
+    tuple val(meta), path("*.bedGraph.gz"), emit: bedGraph
+    path  "versions.yml"                  , emit: versions
 
     when:
     task.ext.when == null || task.ext.when
@@ -25,7 +25,7 @@ process HOMER_MAKEUCSCFILE {
     """
     makeUCSCfile \\
         $tagDir \\
-        -o auto \\
+        -o ${prefix}.bedGraph \\
         $args
 
     cat <<-END_VERSIONS > versions.yml

modules/homer/makeucscfile/meta.yml

@@ -30,7 +30,7 @@ output:
   - bedGraph:
       type: file
       description: The UCSC bed graph
-      pattern: "tag_dir/*ucsc.bedGraph.gz"
+      pattern: "*.bedGraph.gz"
   - versions:
       type: file
       description: File containing software versions

tests/modules/homer/makeucscfile/test.yml

@@ -4,4 +4,4 @@
     - homer
     - homer/makeucscfile
   files:
-    - path: output/homer/tag_dir/tag_dir.ucsc.bedGraph.gz
+    - path: output/homer/test.bedGraph.gz