Update snapshotting etc due to topic versions

Author: pinin4fjords

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

@@ -58,11 +58,7 @@ nextflow_process {
         then {
             assertAll(
                 { assert process.success },
-                { assert snapshot(
-                    process.out.fastq,
-                    process.out.log
-                    // Note: versions collected via topic, not available in stub mode
-                ).match() }
+                { assert snapshot(process.out).match() }
             )
         }
 

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

@@ -1,32 +1,69 @@
 {
     "ribodetector - stub rnaseq PE input": {
         "content": [
-            [
-                [
-                    {
-                        "id": "test",
-                        "single_end": false
-                    },
+            {
+                "0": [
                     [
-                        "test.nonrna.1.fastq.gz:md5,68b329da9893e34099c7d8ad5cb9c940",
-                        "test.nonrna.2.fastq.gz:md5,68b329da9893e34099c7d8ad5cb9c940"
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        [
+                            "test.nonrna.1.fastq.gz:md5,68b329da9893e34099c7d8ad5cb9c940",
+                            "test.nonrna.2.fastq.gz:md5,68b329da9893e34099c7d8ad5cb9c940"
+                        ]
+                    ]
+                ],
+                "1": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        "test.log:md5,d41d8cd98f00b204e9800998ecf8427e"
+                    ]
+                ],
+                "2": [
+                    [
+                        "RIBODETECTOR",
+                        "ribodetector",
+                        "0.3.2"
+                    ]
+                ],
+                "fastq": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        [
+                            "test.nonrna.1.fastq.gz:md5,68b329da9893e34099c7d8ad5cb9c940",
+                            "test.nonrna.2.fastq.gz:md5,68b329da9893e34099c7d8ad5cb9c940"
+                        ]
+                    ]
+                ],
+                "log": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        "test.log:md5,d41d8cd98f00b204e9800998ecf8427e"
+                    ]
+                ],
+                "versions_ribodetector": [
+                    [
+                        "RIBODETECTOR",
+                        "ribodetector",
+                        "0.3.2"
                     ]
                 ]
-            ],
-            [
-                [
-                    {
-                        "id": "test",
-                        "single_end": false
-                    },
-                    "test.log:md5,d41d8cd98f00b204e9800998ecf8427e"
-                ]
-            ]
+            }
         ],
         "meta": {
-            "nf-test": "0.9.2",
+            "nf-test": "0.9.3",
             "nextflow": "25.10.0"
         },
-        "timestamp": "2025-11-29T18:00:56.023264"
+        "timestamp": "2025-11-29T20:07:13.509994907"
     }
-}
+}