fix: pr review suggestions

Author: maxibor

modules/nf-core/ribodetector/main.nf

@@ -11,19 +11,17 @@ process RIBODETECTOR {
 	tuple val(meta), path(fastq)
 	val length
 
-
 	output:
 	tuple val(meta), path("*.nonrna*.fastq.gz"), emit: fastq
-	tuple val(meta), path("*.log"), emit: log
-	path "versions.yml"           , emit: versions
+	tuple val(meta), path("*.log")             , emit: log
+	path "versions.yml"                        , emit: versions
 
 	when:
 	task.ext.when == null || task.ext.when
 
 	script:
 	def args = task.ext.args ?: ''
 	def prefix = task.ext.prefix ?: "${meta.id}"
-	
 	ribodetector_bin = task.accelerator ? "ribodetector" : "ribodetector_cpu"
 	ribodetector_mem = task.accelerator ? "-m $task.memory.toGiga()" : ""
 	output = meta.single_end ? "${prefix}.nonrna.fastq.gz" : "${prefix}.nonrna.1.fastq.gz ${prefix}.nonrna.2.fastq.gz"
@@ -43,7 +41,6 @@ process RIBODETECTOR {
 		ribodetector: \$(ribodetector --version | sed 's/ribodetector //g')
 	END_VERSIONS
 	"""
-	
 
 	stub:
 	def args = task.ext.args ?: ''
@@ -52,8 +49,8 @@ process RIBODETECTOR {
 	"""
 	echo $args
 	
-	touch ${prefix}.nonrna.1.fastq.gz
-	touch ${prefix}.nonrna.2.fastq.gz
+	echo | gzip > ${prefix}.nonrna.1.fastq.gz  
+    echo | gzip > ${prefix}.nonrna.2.fastq.gz  
 	touch ${prefix}.log
 
 	cat <<-END_VERSIONS > versions.yml

modules/nf-core/ribodetector/meta.yml

@@ -15,7 +15,7 @@ keywords:
 - genomics
 tools:
 - "ribodetector":
-    description: "Accurate and rapid RiboRNA sequences Detector based on deep learning"
+    description: "Accurate and rapid RiboRNA sequences detector based on deep learning"
     homepage: "https://github.com/hzi-bifo/RiboDetector"
     documentation: "https://github.com/hzi-bifo/RiboDetector"
     tool_dev_url: "https://github.com/hzi-bifo/RiboDetector"

modules/nf-core/ribodetector/tests/main.nf.test

@@ -30,6 +30,9 @@ nextflow_process {
                 { assert process.out.fastq },
                 { assert process.out.log },
                 { assert path(process.out.log[0][1]).getText().contains("Writing output non-rRNA sequences") },
+                { assert snapshot(  
+                    path(process.out.versions[0]).yaml  
+                ).match() } 
             )
         }
 
@@ -56,7 +59,10 @@ nextflow_process {
 
         then {
             assertAll(
-                { assert process.success }
+                { assert process.success },
+                { assert snapshot(  
+                    path(process.out.versions[0]).yaml  
+                ).match() }  
             )
         }
 

modules/nf-core/ribodetector/tests/main.nf.test.snap

@@ -0,0 +1,28 @@
+{
+    "ribodetector - rnaseq PE input": {
+        "content": [
+            {
+                "RIBODETECTOR": null,
+                "ribodetector": "0.3.1"
+            }
+        ],
+        "meta": {
+            "nf-test": "0.9.3",
+            "nextflow": "25.10.0"
+        },
+        "timestamp": "2025-10-24T10:37:41.570969"
+    },
+    "ribodetector - stub rnaseq PE input": {
+        "content": [
+            {
+                "RIBODETECTOR": null,
+                "ribodetector": "0.3.1"
+            }
+        ],
+        "meta": {
+            "nf-test": "0.9.3",
+            "nextflow": "25.10.0"
+        },
+        "timestamp": "2025-10-24T10:38:17.647722"
+    }
+}