Add nf-test to minimap2 index (nf-core#5189)

* Add nf-test to minimap2 index * correct tags * remove pytest * remove quotation marks
rki-mf1 · Mar 19, 2024 · 176c11c · 176c11c
1 parent 624e8cd
commit 176c11c
Show file tree

Hide file tree

Showing 7 changed files with 102 additions and 28 deletions.
diff --git a/modules/nf-core/minimap2/index/tests/main.nf.test b/modules/nf-core/minimap2/index/tests/main.nf.test
@@ -0,0 +1,32 @@
+nextflow_process {
+
+    name "Test Process MINIMAP2_INDEX"
+    script "../main.nf"
+    process "MINIMAP2_INDEX"
+
+    tag "modules"
+    tag "modules_nfcore"
+    tag "minimap2"
+    tag "minimap2/index"
+
+    test("minimap2 index") {
+
+        when {
+            process {
+                """
+                input[0] = [
+                    [ id:'test' ],
+                    file(params.modules_testdata_base_path + 'genomics/sarscov2/genome/genome.fasta', checkIfExists: true)
+                ]
+                """
+            }
+        }
+
+        then {
+            assert process.success
+            assert snapshot(process.out).match()
+        }
+
+    }
+
+}
diff --git a/modules/nf-core/minimap2/index/tests/main.nf.test.snap b/modules/nf-core/minimap2/index/tests/main.nf.test.snap
diff --git a/modules/nf-core/minimap2/index/tests/tags.yml b/modules/nf-core/minimap2/index/tests/tags.yml
@@ -0,0 +1,2 @@
+minimap2/index:
+  - modules/nf-core/minimap2/index/**
diff --git a/tests/config/pytest_modules.yml b/tests/config/pytest_modules.yml
@@ -1361,9 +1361,6 @@ minia:
 miniasm:
   - modules/nf-core/miniasm/**
   - tests/modules/nf-core/miniasm/**
-minimap2/index:
-  - modules/nf-core/minimap2/index/**
-  - tests/modules/nf-core/minimap2/index/**
 miniprot/align:
   - modules/miniprot/align/**
   - tests/modules/miniprot/align/**

diff --git a/tests/modules/nf-core/minimap2/index/main.nf b/tests/modules/nf-core/minimap2/index/main.nf
diff --git a/tests/modules/nf-core/minimap2/index/nextflow.config b/tests/modules/nf-core/minimap2/index/nextflow.config
diff --git a/tests/modules/nf-core/minimap2/index/test.yml b/tests/modules/nf-core/minimap2/index/test.yml
Original file line number	Diff line number	Diff line change
		@@ -0,0 +1,2 @@
		minimap2/index:
		- modules/nf-core/minimap2/index/**