Added nf-test for scoary (#6255)

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

@@ -0,0 +1,35 @@
+
+nextflow_process {
+
+    name "Test Process SCOARY"
+    script "../main.nf"
+    process "SCOARY"
+
+    tag "modules"
+    tag "modules_nfcore"
+    tag "scoary"
+
+    test("test-scoary") {
+
+        when {
+            process {
+                """
+                input[0] = [ [ id:'test', single_end:false ], // meta map
+				    file("https://github.com/AdmiralenOla/Scoary/raw/master/scoary/exampledata/Gene_presence_absence.csv", checkIfExists: true),
+				    file("https://github.com/AdmiralenOla/Scoary/raw/master/scoary/exampledata/Tetracycline_resistance.csv", checkIfExists: true)
+                ]
+				input[1] = []
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+    }
+
+}

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

@@ -0,0 +1,43 @@
+{
+    "test-scoary": {
+        "content": [
+            {
+                "0": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        [
+                            "Bogus_trait.results.csv:md5,9550c692bbe6ff0ac844357bfabb809b",
+                            "Tetracycline_resistance.results.csv:md5,a87740818ab4de69a758fc75d7b879dd"
+                        ]
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,f8f8a2300f84de4e8184c9dd33579ccd"
+                ],
+                "csv": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        [
+                            "Bogus_trait.results.csv:md5,9550c692bbe6ff0ac844357bfabb809b",
+                            "Tetracycline_resistance.results.csv:md5,a87740818ab4de69a758fc75d7b879dd"
+                        ]
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,f8f8a2300f84de4e8184c9dd33579ccd"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-08-23T10:40:51.183745"
+    }
+}

tests/config/pytest_modules.yml

@@ -1268,9 +1268,6 @@ samtools/reheader:
 scimap/mcmicro:
   - modules/nf-core/scimap/mcmicro/**
   - tests/modules/nf-core/scimap/mcmicro/**
-scoary:
-  - modules/nf-core/scoary/**
-  - tests/modules/nf-core/scoary/**
 scramble/clusteranalysis:
   - modules/nf-core/scramble/clusteranalysis/**
   - tests/modules/nf-core/scramble/clusteranalysis/**