Added nf-test for krona/ktupdatetaxonomy

modules/nf-core/krona/ktupdatetaxonomy/main.nf

@@ -8,6 +8,8 @@ process KRONA_KTUPDATETAXONOMY {
         'https://depot.galaxyproject.org/singularity/krona:2.7.1--pl526_5' :
         'biocontainers/krona:2.7.1--pl526_5' }"
 
+    input:
+
     output:
     path 'taxonomy/taxonomy.tab', emit: db
     path "versions.yml"         , emit: versions
@@ -27,4 +29,16 @@ process KRONA_KTUPDATETAXONOMY {
         krona: $VERSION
     END_VERSIONS
     """
+
+    stub:
+    """
+    mkdir taxonomy
+
+    touch taxonomy/taxonomy.tab
+
+    cat <<-END_VERSIONS > versions.yml
+    "${task.process}":
+        krona: $VERSION
+    END_VERSIONS
+    """
 }

modules/nf-core/krona/ktupdatetaxonomy/tests/main.nf.test

@@ -0,0 +1,50 @@
+
+nextflow_process {
+
+    name "Test Process KRONA_KTUPDATETAXONOMY"
+    script "../main.nf"
+    process "KRONA_KTUPDATETAXONOMY"
+
+    tag "modules"
+    tag "modules_nfcore"
+    tag "krona"
+    tag "krona/ktupdatetaxonomy"
+
+    test("test-krona-ktupdatetaxonomy") {
+
+        when {
+            process {
+                """
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+    }
+
+    test("test-krona-ktupdatetaxonomy-stub") {
+        options '-stub'
+
+        when {
+            process {
+                """
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+    }
+
+}

modules/nf-core/krona/ktupdatetaxonomy/tests/main.nf.test.snap

@@ -0,0 +1,48 @@
+{
+    "test-krona-ktupdatetaxonomy": {
+        "content": [
+            {
+                "0": [
+                    "taxonomy.tab:md5,6d8ea6b7ff721f735412a670805de501"
+                ],
+                "1": [
+                    "versions.yml:md5,a0e095fdd3ba80fcc62188c4c1f38ff7"
+                ],
+                "db": [
+                    "taxonomy.tab:md5,6d8ea6b7ff721f735412a670805de501"
+                ],
+                "versions": [
+                    "versions.yml:md5,a0e095fdd3ba80fcc62188c4c1f38ff7"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.9.0",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-09-05T20:28:34.176093"
+    },
+    "test-krona-ktupdatetaxonomy-stub": {
+        "content": [
+            {
+                "0": [
+                    "taxonomy.tab:md5,d41d8cd98f00b204e9800998ecf8427e"
+                ],
+                "1": [
+                    "versions.yml:md5,a0e095fdd3ba80fcc62188c4c1f38ff7"
+                ],
+                "db": [
+                    "taxonomy.tab:md5,d41d8cd98f00b204e9800998ecf8427e"
+                ],
+                "versions": [
+                    "versions.yml:md5,a0e095fdd3ba80fcc62188c4c1f38ff7"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.9.0",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-09-05T20:15:46.959212"
+    }
+}

tests/config/pytest_modules.yml

@@ -392,9 +392,6 @@ krona/ktimporttaxonomy:
 krona/ktimporttext:
   - modules/nf-core/krona/ktimporttext/**
   - tests/modules/nf-core/krona/ktimporttext/**
-krona/ktupdatetaxonomy:
-  - modules/nf-core/krona/ktupdatetaxonomy/**
-  - tests/modules/nf-core/krona/ktupdatetaxonomy/**
 leehom:
   - modules/nf-core/leehom/**
   - tests/modules/nf-core/leehom/**