[pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

reproschema/redcap2reproschema.py

@@ -475,15 +475,18 @@ def redcap2reproschema(
         protocol_visibility_obj,
     )
 
+
 def main():
-    parser = argparse.ArgumentParser(description="Convert REDCap data dictionary to Reproschema format.")
+    parser = argparse.ArgumentParser(
+        description="Convert REDCap data dictionary to Reproschema format."
+    )
     parser.add_argument("csv_file", help="Path to the REDCap data dictionary CSV file.")
     parser.add_argument("yaml_file", help="Path to the Reproschema protocol YAML file.")
     args = parser.parse_args()
 
     # Read the YAML configuration
     with open(args.yaml_file, "r") as f:
-            protocol = yaml.safe_load(f)
+        protocol = yaml.safe_load(f)
 
     protocol_name = protocol.get("protocol_name")
     protocol_display_name = protocol.get("protocol_display_name")
@@ -492,7 +495,7 @@ def main():
     if not protocol_name:
         raise ValueError("Protocol name not specified in the YAML file.")
 
-    protocol_name = protocol_name.replace(' ', '_')  # Replacing spaces with underscores
+    protocol_name = protocol_name.replace(" ", "_")  # Replacing spaces with underscores
 
     # Check if the directory already exists
     if not os.path.exists(protocol_name):
@@ -510,5 +513,6 @@ def main():
         protocol_description,
     )
 
+
 if __name__ == "__main__":
-    main()
+    main()

reproschema/tests/test_redcap2reproschema.py

@@ -7,12 +7,9 @@
 # Assuming your test files are located in a 'tests' directory
 CSV_FILE_NAME = "redcap_dict.csv"
 YAML_FILE_NAME = "redcap2rs.yaml"
-CSV_TEST_FILE = os.path.join(
-    os.path.dirname(__file__), "test_data", CSV_FILE_NAME
-)
-YAML_TEST_FILE = os.path.join(
-    os.path.dirname(__file__), "test_data", YAML_FILE_NAME
-)
+CSV_TEST_FILE = os.path.join(os.path.dirname(__file__), "test_data", CSV_FILE_NAME)
+YAML_TEST_FILE = os.path.join(os.path.dirname(__file__), "test_data", YAML_FILE_NAME)
+
 
 def test_redcap2reproschema_success():
     runner = CliRunner()
@@ -23,6 +20,8 @@ def test_redcap2reproschema_success():
         shutil.copy(YAML_TEST_FILE, YAML_FILE_NAME)
 
         # Run the command within the isolated filesystem
-        result = runner.invoke(main, ['redcap2reproschema', CSV_FILE_NAME, YAML_FILE_NAME])
+        result = runner.invoke(
+            main, ["redcap2reproschema", CSV_FILE_NAME, YAML_FILE_NAME]
+        )
         print(result.output)
-        assert result.exit_code == 0
+        assert result.exit_code == 0

templates/redcap2rs.yaml

@@ -11,4 +11,4 @@ protocol_display_name: "Your protocol display name"
 
 # Protocol Description:
 # Provide a brief description of your protocol.
-protocol_description: "Description for your protocol"  # Example: "This protocol is for ..."
+protocol_description: "Description for your protocol"  # Example: "This protocol is for ..."