helper utility to test cwl-inputs-schema-gen

Author: mr-c

tests/jschema_validate.py

@@ -0,0 +1,67 @@
+#!/usr/bin/env python3
+
+from pathlib import Path
+from ruamel.yaml import YAML
+from jsonschema.validators import validate
+from cwl_utils.inputs_schema_gen import cwl_to_jsonschema
+from cwl_utils.parser import load_document_by_uri
+
+import os
+import sys
+import argparse
+
+
+def main() -> None:
+    parser = argparse.ArgumentParser(description="test cwl-inputs-schema-gen.")
+    parser.add_argument(
+        "--outdir",
+        type=str,
+        default=os.path.abspath("."),
+        help="Output directory. This is present only for cwltest's usage, and it is ignored.",
+    )
+    parser.add_argument(
+        "--quiet", action="store_true", help="Only print warnings and errors."
+    )
+    parser.add_argument("--version", action="store_true", help="Print version and exit")
+    parser.add_argument(
+        "workflow",
+        type=str,
+        nargs="?",
+        default=None,
+        metavar="cwl_document",
+        help="path or URL to a CWL Workflow, " "CommandLineTool, or ExpressionTool.",
+    )
+    parser.add_argument(
+        "job_order",
+        nargs=argparse.REMAINDER,
+        metavar="inputs_object",
+        help="path or URL to a YAML or JSON "
+        "formatted description of the required input values for the given "
+        "`cwl_document`.",
+    )
+
+    args = parser.parse_args(sys.argv[1:])
+
+    if args.version:
+        print(f"{sys.argv[1]} 0.0.1")
+        return
+
+    if len(args.job_order) < 1:
+        job_order = {}
+    else:
+        yaml = YAML()
+        job_order = yaml.load(Path(args.job_order[0]))
+
+    validate(
+        job_order,
+        cwl_to_jsonschema(load_document_by_uri(args.workflow)),
+    )
+
+    if not args.quiet:
+        print(
+            f"Validation of the JSON schema generated from {args.workflow} using {args.job_order[0]} suceeded."
+        )
+
+
+if __name__ == "__main__":
+    sys.exit(main())