Migrate scanpy/hashsolo to topics

modules/nf-core/scanpy/hashsolo/main.nf

@@ -14,7 +14,7 @@ process SCANPY_HASHSOLO {
     tuple val(meta), path("*_assignment_hashsolo.csv"), emit: assignment
     tuple val(meta), path("*_hashsolo.h5ad")          , emit: h5ad
     tuple val(meta), path("*_params_hashsolo.csv")    , emit: params
-    path "versions.yml"                               , emit: versions
+    path "versions.yml"                               , emit: versions, topic: versions
 
     when:
     task.ext.when == null || task.ext.when

modules/nf-core/scanpy/hashsolo/meta.yml

@@ -1,4 +1,3 @@
-# yaml-language-server: $schema=https://raw.githubusercontent.com/nf-core/modules/master/modules/meta-schema.json
 name: "SCANPY_HASHSOLO"
 description: Probabilistic demultiplexing of cell hashing data
 keywords:
@@ -14,7 +13,8 @@ tools:
       documentation: "https://scanpy.readthedocs.io/en/stable/generated/scanpy.external.pp.hashsolo.html"
       tool_dev_url: "https://github.com/scverse/scanpy"
       doi: "10.1186/s13059-017-1382-0"
-      licence: ["BSD-3"]
+      licence:
+        - "BSD-3"
       identifier: biotools:scanpy
 
 input:
@@ -83,6 +83,14 @@ output:
         pattern: "versions.yml"
         ontologies:
           - edam: http://edamontology.org/format_3750 # YAML
+topics:
+  versions:
+    - versions.yml:
+        type: file
+        description: File containing software versions
+        pattern: "versions.yml"
+        ontologies:
+          - edam: http://edamontology.org/format_3750 # YAML
 authors:
   - "@seohyonkim"
   - "@LuisHeinzlmeier"

modules/nf-core/scanpy/hashsolo/tests/main.nf.test

@@ -50,7 +50,7 @@ nextflow_process {
         then {
             assertAll(
                 { assert process.success },
-                { assert snapshot(process.out).match() }
+                { assert snapshot(sanitizeOutput(process.out, unstableKeys: ["assignment", "h5ad"])).match() }
             )
         }
     }
@@ -93,7 +93,7 @@ nextflow_process {
         then {
             assertAll(
                 { assert process.success },
-                { assert snapshot(process.out).match() }
+                { assert snapshot(sanitizeOutput(process.out, unstableKeys: ["assignment", "h5ad"])).match() }
             )
         }
     }
@@ -129,7 +129,7 @@ nextflow_process {
         then {
             assertAll(
                 { assert process.success },
-                { assert snapshot(process.out).match() }
+                { assert snapshot(sanitizeOutput(process.out)).match() }
             )
         }
     }
@@ -158,10 +158,8 @@ nextflow_process {
         then {
             assertAll(
                 { assert process.success },
-                { assert snapshot(
-                        process.out,
-                        process.out.versions.collect { path(it).yaml }
-                    ).match() }
+                { assert snapshot(sanitizeOutput(process.out, unstableKeys: ["assignment", "h5ad"])).match() },
+                { assert snapshot(process.out.versions.collect { path(it).yaml }).match("versions") }
             )
         }
 
@@ -196,10 +194,7 @@ nextflow_process {
         then {
             assertAll(
                 { assert process.success },
-                { assert snapshot(
-                        process.out,
-                        process.out.versions.collect { path(it).yaml }
-                    ).match() }
+                { assert snapshot(sanitizeOutput(process.out, unstableKeys: ["assignment", "h5ad"])).match() }
             )
         }
 
@@ -224,10 +219,7 @@ nextflow_process {
         then {
             assertAll(
                 { assert process.success },
-                { assert snapshot(
-                        process.out,
-                        process.out.versions.collect { path(it).yaml }
-                    ).match() }
+                { assert snapshot(sanitizeOutput(process.out)).match() }
             )
         }