Added nf-test for mmseqs/databases

nf-core · Sep 5, 2024 · 9ca8c06 · 9ca8c06
1 parent e0efc50
commit 9ca8c06
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Showing 6 changed files with 147 additions and 38 deletions.
diff --git a/modules/nf-core/mmseqs/databases/tests/main.nf.test b/modules/nf-core/mmseqs/databases/tests/main.nf.test
@@ -0,0 +1,51 @@
+
+nextflow_process {
+
+    name "Test Process MMSEQS_DATABASES"
+    script "../main.nf"
+    process "MMSEQS_DATABASES"
+
+    tag "modules"
+    tag "modules_nfcore"
+    tag "mmseqs"
+    tag "mmseqs/databases"
+
+    test("test-mmseqs-databases") {
+
+        when {
+            process {
+                """
+                input[0] = "SILVA"
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+    }
+
+    test("test-mmseqs-databases-stub") {
+        options '-stub'
+        when {
+            process {
+                """
+                input[0] = "SILVA"
+
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+    }
+
+}
diff --git a/modules/nf-core/mmseqs/databases/tests/main.nf.test.snap b/modules/nf-core/mmseqs/databases/tests/main.nf.test.snap
@@ -0,0 +1,96 @@
+{
+    "test-mmseqs-databases": {
+        "content": [
+            {
+                "0": [
+                    [
+                        "database:md5,1c0ce0899156843604869205a1fdebf7",
+                        "database.dbtype:md5,c8ed20c23ba91f4577f84c940c86c7db",
+                        "database.index:md5,19128cfcc6d0fa5dd7451938e8e7481f",
+                        "database.lookup:md5,03cb3ae6b0580a858ddf5fd5eb1e4cab",
+                        "database.source:md5,acf29bfb5e2a3febe53a3349d778cacd",
+                        "database.version:md5,03643ccd1930642c55e3cfca40a7309f",
+                        "database_h:md5,8931d1d093e2332a134ec5f2b6c12ca4",
+                        "database_h.dbtype:md5,8895d3d8e9322aedbf45249dfb3ddb0a",
+                        "database_h.index:md5,976c04c17837a4ba64ec119588339f14",
+                        "database_mapping:md5,712219037a5f289aa210c0681e4dc82f",
+                        "database_taxonomy:md5,b3d9d456534c691fdd3e158887892bab"
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,b038db45e5934b8f0f743449bbac01b4"
+                ],
+                "database": [
+                    [
+                        "database:md5,1c0ce0899156843604869205a1fdebf7",
+                        "database.dbtype:md5,c8ed20c23ba91f4577f84c940c86c7db",
+                        "database.index:md5,19128cfcc6d0fa5dd7451938e8e7481f",
+                        "database.lookup:md5,03cb3ae6b0580a858ddf5fd5eb1e4cab",
+                        "database.source:md5,acf29bfb5e2a3febe53a3349d778cacd",
+                        "database.version:md5,03643ccd1930642c55e3cfca40a7309f",
+                        "database_h:md5,8931d1d093e2332a134ec5f2b6c12ca4",
+                        "database_h.dbtype:md5,8895d3d8e9322aedbf45249dfb3ddb0a",
+                        "database_h.index:md5,976c04c17837a4ba64ec119588339f14",
+                        "database_mapping:md5,712219037a5f289aa210c0681e4dc82f",
+                        "database_taxonomy:md5,b3d9d456534c691fdd3e158887892bab"
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,b038db45e5934b8f0f743449bbac01b4"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.9.0",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-09-05T17:00:12.286094"
+    },
+    "test-mmseqs-databases-stub": {
+        "content": [
+            {
+                "0": [
+                    [
+                        "database:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database.dbtype:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database.index:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database.lookup:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database.source:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database.version:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database_h:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database_h.dbtype:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database_h.index:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database_mapping:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database_taxonomy:md5,d41d8cd98f00b204e9800998ecf8427e"
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,49082428ec974e4ddb09a6ca2e9f21b3"
+                ],
+                "database": [
+                    [
+                        "database:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database.dbtype:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database.index:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database.lookup:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database.source:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database.version:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database_h:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database_h.dbtype:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database_h.index:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database_mapping:md5,d41d8cd98f00b204e9800998ecf8427e",
+                        "database_taxonomy:md5,d41d8cd98f00b204e9800998ecf8427e"
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,49082428ec974e4ddb09a6ca2e9f21b3"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.9.0",
+            "nextflow": "24.04.4"
+        },
+        "timestamp": "2024-09-05T17:00:20.527628"
+    }
+}
diff --git a/tests/config/pytest_modules.yml b/tests/config/pytest_modules.yml
@@ -518,9 +518,6 @@ mitohifi/mitohifi:
 mmseqs/cluster:
   - modules/nf-core/mmseqs/cluster/**
   - tests/modules/nf-core/mmseqs/cluster/**
-mmseqs/databases:
-  - modules/nf-core/mmseqs/databases/**
-  - tests/modules/nf-core/mmseqs/databases/**
 mmseqs/easysearch:
   - modules/nf-core/mmseqs/easysearch/**
   - tests/modules/nf-core/mmseqs/easysearch/**

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