Merge branch 'dev' into concurrency_error_in_ci_pipeline

Author: adamrtalbot

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

@@ -0,0 +1,27 @@
+nextflow_process {
+
+    name "Test Process GTF_FILTER"
+    script "../main.nf"
+    process "GTF_FILTER"
+
+    test("Should run without failures") {
+
+        when {
+            process {
+                """
+                input[0] = file(params.modules_testdata_base_path + 'genomics/sarscov2/genome/genome.fasta', checkIfExists: true)
+                input[1] = file(params.modules_testdata_base_path + 'genomics/sarscov2/genome/genome.gtf', checkIfExists: true)
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+
+    }
+
+}

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

@@ -0,0 +1,25 @@
+{
+    "Should run without failures": {
+        "content": [
+            {
+                "0": [
+                    "genome.filtered.gtf:md5,aa8b2aa1e0b5fbbba3b04d471e1b0535"
+                ],
+                "1": [
+                    "versions.yml:md5,4adf55ec05d247fd6d253459bd80856f"
+                ],
+                "genome_gtf": [
+                    "genome.filtered.gtf:md5,aa8b2aa1e0b5fbbba3b04d471e1b0535"
+                ],
+                "versions": [
+                    "versions.yml:md5,4adf55ec05d247fd6d253459bd80856f"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "23.10.1"
+        },
+        "timestamp": "2024-03-06T15:52:37.977802"
+    }
+}