Added nf-test for gatk4/condensedepthevidence (#6316)

modules/nf-core/gatk4/condensedepthevidence/tests/main.nf.test

@@ -0,0 +1,44 @@
+
+nextflow_process {
+
+    name "Test Process GATK4_CONDENSEDEPTHEVIDENCE"
+    script "../main.nf"
+    process "GATK4_CONDENSEDEPTHEVIDENCE"
+
+    tag "modules"
+    tag "modules_nfcore"
+    tag "gatk4"
+    tag "gatk4/condensedepthevidence"
+
+    test("test-gatk4-condensdepthevidence") {
+
+        when {
+            process {
+                """
+                input[0] = [
+				    [ id:'test', single_end:false ], // meta map
+				    file("https://raw.githubusercontent.com/nf-core/test-datasets/modules/data/delete_me/condensedepthevidence/testN.rd.txt.gz", checkIfExists: true),
+				    file("https://raw.githubusercontent.com/nf-core/test-datasets/modules/data/delete_me/condensedepthevidence/testN.rd.txt.gz.tbi", checkIfExists: true)
+				]
+				input[1] = file(params.modules_testdata_base_path + 'genomics/homo_sapiens/genome/genome.fasta', checkIfExists: true)
+				input[2] = file(params.modules_testdata_base_path + 'genomics/homo_sapiens/genome/genome.fasta.fai', checkIfExists: true)
+				input[3] = file(params.modules_testdata_base_path + 'genomics/homo_sapiens/genome/genome.dict', checkIfExists: true)
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(
+					path(process.out.condensed_evidence[0][1]).linesGzip[0..1],
+					file(process.out.condensed_evidence_index[0][1]).name,
+					process.out.versions
+					).match()
+				}
+            )
+        }
+    }
+
+}

modules/nf-core/gatk4/condensedepthevidence/tests/main.nf.test.snap

@@ -0,0 +1,19 @@
+{
+    "test-gatk4-condensdepthevidence": {
+        "content": [
+            [
+                "#Chr\tStart\tEnd\ttestN",
+                "chr22\t0\t40001\t5642"
+            ],
+            "test.rd.txt.gz.tbi",
+            [
+                "versions.yml:md5,d1d29007b92a10b3e50bdd25335013a8"
+            ]
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-08-26T12:33:21.910858"
+    }
+}

tests/config/pytest_modules.yml

@@ -386,9 +386,6 @@ gatk4/cnnscorevariants:
 gatk4/collectsvevidence:
   - modules/nf-core/gatk4/collectsvevidence/**
   - tests/modules/nf-core/gatk4/collectsvevidence/**
-gatk4/condensedepthevidence:
-  - modules/nf-core/gatk4/condensedepthevidence/**
-  - tests/modules/nf-core/gatk4/condensedepthevidence/**
 gatk4/createreadcountpanelofnormals:
   - modules/nf-core/gatk4/createreadcountpanelofnormals/**
   - tests/modules/nf-core/gatk4/createreadcountpanelofnormals/**