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nf-core · Oct 16, 2024 · 7b3dd3a · 7b3dd3a
1 parent cc6bff6
commit 7b3dd3a
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Showing 4 changed files with 15 additions and 49 deletions.
diff --git a/assets/schema_annotation.json b/assets/schema_annotation.json
@@ -11,9 +11,7 @@
                 "type": "string",
                 "pattern": "^\\S+$",
                 "errorMessage": "Annotation file name must be provided and cannot contain spaces",
-                "meta": [
-                    "id"
-                ]
+                "meta": ["id"]
             },
             "file": {
                 "type": "string",
@@ -28,14 +26,9 @@
                 "maximum": 1,
                 "default": 0.9,
                 "errorMessage": "Minimum overlap must be a number between 0 and 1",
-                "meta": [
-                    "min_overlap"
-                ]
+                "meta": ["min_overlap"]
             }
         },
-        "required": [
-            "name",
-            "file"
-        ]
+        "required": ["name", "file"]
     }
-}
+}
diff --git a/assets/schema_input.json b/assets/schema_input.json
@@ -11,9 +11,7 @@
                 "type": "string",
                 "pattern": "^\\S+$",
                 "errorMessage": "Sample name must be provided and cannot contain spaces",
-                "meta": [
-                    "id"
-                ]
+                "meta": ["id"]
             },
             "fastq_1": {
                 "type": "string",
@@ -31,22 +29,12 @@
             },
             "strandedness": {
                 "type": "string",
-                "enum": [
-                    "unstranded",
-                    "forward",
-                    "reverse",
-                    "auto"
-                ],
+                "enum": ["unstranded", "forward", "reverse", "auto"],
                 "default": "auto",
                 "errorMessage": "Strandedness must be one of 'unstranded', 'forward', 'reverse' or 'auto'",
-                "meta": [
-                    "strandedness"
-                ]
+                "meta": ["strandedness"]
             }
         },
-        "required": [
-            "sample",
-            "fastq_1"
-        ]
+        "required": ["sample", "fastq_1"]
     }
-}
+}
diff --git a/assets/schema_phenotype.json b/assets/schema_phenotype.json
@@ -18,9 +18,6 @@
                 "errorMessage": "Condition name must be provided and cannot contain spaces"
             }
         },
-        "required": [
-            "sample",
-            "condition"
-        ]
+        "required": ["sample", "condition"]
     }
-}
+}
diff --git a/nextflow_schema.json b/nextflow_schema.json
@@ -10,10 +10,7 @@
             "type": "object",
             "fa_icon": "fas fa-terminal",
             "description": "Define where the pipeline should find input data and save output data.",
-            "required": [
-                "input",
-                "outdir"
-            ],
+            "required": ["input", "outdir"],
             "properties": {
                 "input": {
                     "type": "string",
@@ -62,9 +59,7 @@
             "type": "object",
             "fa_icon": "fas fa-circle-notch",
             "description": "Parameters for circrna discovery.",
-            "required": [
-                "tools"
-            ],
+            "required": ["tools"],
             "properties": {
                 "tools": {
                     "type": "string",
@@ -526,14 +521,7 @@
                     "description": "Method used to save pipeline results to output directory.",
                     "help_text": "The Nextflow `publishDir` option specifies which intermediate files should be saved to the output directory. This option tells the pipeline what method should be used to move these files. See [Nextflow docs](https://www.nextflow.io/docs/latest/process.html#publishdir) for details.",
                     "fa_icon": "fas fa-copy",
-                    "enum": [
-                        "symlink",
-                        "rellink",
-                        "link",
-                        "copy",
-                        "copyNoFollow",
-                        "move"
-                    ],
+                    "enum": ["symlink", "rellink", "link", "copy", "copyNoFollow", "move"],
                     "hidden": true
                 },
                 "email": {
@@ -661,4 +649,4 @@
             "$ref": "#/definitions/generic_options"
         }
     ]
-}
+}