stub added

nf-core · Nov 29, 2024 · 58bd40a · 58bd40a
1 parent c505b1b
commit 58bd40a
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Showing 2 changed files with 15 additions and 14 deletions.
diff --git a/modules/nf-core/plink/genome/main.nf b/modules/nf-core/plink/genome/main.nf
@@ -25,8 +25,8 @@ process PLINK_GENOME {
         --bed ${bed} \\
         --bim ${bim} \\
         --fam ${fam} \\
-        $args \\
         --genome \\
+        $args \\
         --threads $task.cpus \\
         --out ${prefix}
 
@@ -36,15 +36,15 @@ process PLINK_GENOME {
     END_VERSIONS
     """
 
-    stub:
-    def args   = task.ext.args ?: ''
-    def prefix = task.ext.prefix ?: "${meta.id}"
-    """
-    touch ${prefix}.genome
-
-    cat <<-END_VERSIONS > versions.yml
-    "${task.process}":
-        plink: \$(echo \$(plink --version 2>&1) | sed 's/^PLINK v//' | sed 's/..-bit.*//' )
-    END_VERSIONS
-    """
+   stub:
+   def prefix = task.ext.prefix ?: "${meta.id}"
+   """
+   touch ${prefix}.genome
+
+   cat <<-END_VERSIONS > versions.yml
+   "${task.process}":
+       plink: \$(echo \$(plink --version 2>&1) | sed 's/^PLINK v//' | sed 's/..-bit.*//' )
+   END_VERSIONS
+   """
+
 }
diff --git a/modules/nf-core/plink/genome/tests/main.nf.test b/modules/nf-core/plink/genome/tests/main.nf.test
@@ -9,7 +9,6 @@ nextflow_process {
     tag "plink"
     tag "plink/genome"
 
-
     test("plink - genome") {
         when {
             process {
@@ -33,7 +32,9 @@ nextflow_process {
 
     }
 
-    test("plink - genome-stub") {
+    test("plink - genome - stub") {
+        options "-stub"
+
         when {
             process {
                 """