Added nf-test for rapidnj (#6257)

* Added nf-test for rapidnj * Fixed assertion * Update main.nf.test Co-authored-by: Joon Klaps <[email protected]> --------- Co-authored-by: Joon Klaps <[email protected]>
nf-core · Aug 23, 2024 · 6650b69 · 6650b69
1 parent 0a7ad7c
commit 6650b69
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diff --git a/modules/nf-core/rapidnj/tests/main.nf.test b/modules/nf-core/rapidnj/tests/main.nf.test
@@ -0,0 +1,36 @@
+
+nextflow_process {
+
+    name "Test Process RAPIDNJ"
+    script "../main.nf"
+    process "RAPIDNJ"
+
+    tag "modules"
+    tag "modules_nfcore"
+    tag "rapidnj"
+
+    test("sarscov2-fasta") {
+
+        when {
+            process {
+                """
+                input[0] = [ file(params.modules_testdata_base_path + 'genomics/sarscov2/genome/alignment/informative_sites.fas', checkIfExists: true) ]
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert process.out.phylogeny },
+                { assert snapshot(
+					process.out.stockholm_alignment,
+					process.out.versions
+					).match()
+				}
+            )
+        }
+    }
+
+}
diff --git a/modules/nf-core/rapidnj/tests/main.nf.test.snap b/modules/nf-core/rapidnj/tests/main.nf.test.snap
@@ -0,0 +1,17 @@
+{
+    "test-rapidnj": {
+        "content": [
+            [
+                "alignment.sth:md5,d2e995c5dd3e3a8212a98414ae5b5de7"
+            ],
+            [
+                "versions.yml:md5,6949732c2fc12b8a5a3e478f197e7fe7"
+            ]
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-08-23T11:53:44.324999"
+    }
+}
diff --git a/tests/config/pytest_modules.yml b/tests/config/pytest_modules.yml
@@ -1223,9 +1223,6 @@ qcat:
 quast:
   - modules/nf-core/quast/**
   - tests/modules/nf-core/quast/**
-rapidnj:
-  - modules/nf-core/rapidnj/**
-  - tests/modules/nf-core/rapidnj/**
 raven:
   - modules/nf-core/raven/**
   - tests/modules/nf-core/raven/**

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