Added nf-test for bedtools/multiinter (#6327)

nf-core · Aug 26, 2024 · c63d090 · c63d090
1 parent 4effd04
commit c63d090
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Showing 6 changed files with 137 additions and 59 deletions.
diff --git a/modules/nf-core/bedtools/multiinter/tests/main.nf.test b/modules/nf-core/bedtools/multiinter/tests/main.nf.test
@@ -0,0 +1,65 @@
+
+nextflow_process {
+
+    name "Test Process BEDTOOLS_MULTIINTER"
+    script "../main.nf"
+    process "BEDTOOLS_MULTIINTER"
+
+    tag "modules"
+    tag "modules_nfcore"
+    tag "bedtools"
+    tag "bedtools/multiinter"
+
+    test("test-bedtools-multiinter") {
+
+        when {
+            process {
+                """
+                input[0] = [
+				    [ id:'test', single_end:false ], // meta map
+				    [
+				        file(params.modules_testdata_base_path + 'genomics/sarscov2/genome/bed/test.bed', checkIfExists: true),
+				        file(params.modules_testdata_base_path + 'genomics/sarscov2/genome/bed/test2.bed', checkIfExists: true)
+				    ]
+                ]
+				input[1] = []
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+    }
+
+    test("test-bedtools-multiinter-genome") {
+
+        when {
+            process {
+                """
+                input[0] = [
+				    [ id:'test', single_end:false ], // meta map
+				    [
+				        file(params.modules_testdata_base_path + 'genomics/sarscov2/genome/bed/test.bed', checkIfExists: true),
+				        file(params.modules_testdata_base_path + 'genomics/sarscov2/genome/bed/test2.bed', checkIfExists: true)
+				    ]
+                ]
+				input[1] = file(params.modules_testdata_base_path + 'genomics/sarscov2/genome/genome.sizes', checkIfExists: true)
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+    }
+
+}
diff --git a/modules/nf-core/bedtools/multiinter/tests/main.nf.test.snap b/modules/nf-core/bedtools/multiinter/tests/main.nf.test.snap
@@ -0,0 +1,72 @@
+{
+    "test-bedtools-multiinter": {
+        "content": [
+            {
+                "0": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        "test.bed:md5,03d8d889a19cf26e038868775bbcbaa7"
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,d50d8662e6ba7227f29713a252d0b51c"
+                ],
+                "bed": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        "test.bed:md5,03d8d889a19cf26e038868775bbcbaa7"
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,d50d8662e6ba7227f29713a252d0b51c"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-08-26T13:55:57.797405"
+    },
+    "test-bedtools-multiinter-genome": {
+        "content": [
+            {
+                "0": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        "test.bed:md5,03d8d889a19cf26e038868775bbcbaa7"
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,d50d8662e6ba7227f29713a252d0b51c"
+                ],
+                "bed": [
+                    [
+                        {
+                            "id": "test",
+                            "single_end": false
+                        },
+                        "test.bed:md5,03d8d889a19cf26e038868775bbcbaa7"
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,d50d8662e6ba7227f29713a252d0b51c"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-08-26T13:56:02.192345"
+    }
+}
diff --git a/tests/config/pytest_modules.yml b/tests/config/pytest_modules.yml
@@ -76,9 +76,6 @@ bedtools/makewindows:
 bedtools/maskfasta:
   - modules/nf-core/bedtools/maskfasta/**
   - tests/modules/nf-core/bedtools/maskfasta/**
-bedtools/multiinter:
-  - modules/nf-core/bedtools/multiinter/**
-  - tests/modules/nf-core/bedtools/multiinter/**
 bedtools/shift:
   - modules/nf-core/bedtools/shift/**
   - tests/modules/nf-core/bedtools/shift/**

diff --git a/tests/modules/nf-core/bedtools/multiinter/main.nf b/tests/modules/nf-core/bedtools/multiinter/main.nf
diff --git a/tests/modules/nf-core/bedtools/multiinter/nextflow.config b/tests/modules/nf-core/bedtools/multiinter/nextflow.config
diff --git a/tests/modules/nf-core/bedtools/multiinter/test.yml b/tests/modules/nf-core/bedtools/multiinter/test.yml