Merge pull request nf-core#1243 from adamrtalbot/nf-test_multiqc_cust…

…om_biotype

nf-test for module MULTIQC_CUSTOM_BIOTYPE

modules/local/multiqc_custom_biotype/tests/main.nf.test

@@ -0,0 +1,32 @@
+nextflow_process {
+
+    name "Test Process MULTIQC_CUSTOM_BIOTYPE"
+    script "../main.nf"
+    process "MULTIQC_CUSTOM_BIOTYPE"
+
+    test("test sarscov2 count data succesfully completes") {
+
+        when {
+            process {
+                """
+                input[0] = Channel.of(
+                    [
+                        [ id: 'test' ],
+                        file(params.pipelines_testdata_base_path + 'multiqc_custom_biotype/test.featureCounts.txt', checkIfExists: true)
+                    ]
+                )
+                input[1] = file(params.pipelines_testdata_base_path + 'multiqc_custom_biotype/biotypes_header.txt', checkIfExists: true)
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success},
+                { assert snapshot(process.out).match()}
+            )
+        }
+
+    }
+
+}

modules/local/multiqc_custom_biotype/tests/main.nf.test.snap

@@ -0,0 +1,41 @@
+{
+    "test sarscov2 count data succesfully completes": {
+        "content": [
+            {
+                "0": [
+                    [
+                        {
+                            "id": "test"
+                        },
+                        [
+                            "test.biotype_counts_mqc.tsv:md5,d996f27aeec64370cade26717aa22e1e",
+                            "test.biotype_counts_rrna_mqc.tsv:md5,405217e65a76b104b00bb41f6bf10a92"
+                        ]
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,575b3b4c8a8a6e508c8ceeca41331b6b"
+                ],
+                "tsv": [
+                    [
+                        {
+                            "id": "test"
+                        },
+                        [
+                            "test.biotype_counts_mqc.tsv:md5,d996f27aeec64370cade26717aa22e1e",
+                            "test.biotype_counts_rrna_mqc.tsv:md5,405217e65a76b104b00bb41f6bf10a92"
+                        ]
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,575b3b4c8a8a6e508c8ceeca41331b6b"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "24.01.0"
+        },
+        "timestamp": "2024-03-08T09:38:04.260609"
+    }
+}

tests/nextflow.config

@@ -9,7 +9,7 @@ params {
     modules_testdata_base_path = 's3://ngi-igenomes/testdata/nf-core/modules/'
 
     // Base directory for nf-core/rnaseq test data
-    pipelines_testdata_base_path = 's3://ngi-igenomes/testdata/nf-core/pipelines/rnaseq/3.15'
+    pipelines_testdata_base_path = 's3://ngi-igenomes/testdata/nf-core/pipelines/rnaseq/3.15/'
 
     // for hisat2
     hisat2_build_memory = '3.GB'