Validator error - Dataset

[lopierra]

Hi @madanucd - I am attempting to use the validator on some Dataset metadata and got the following error:

Validating dataset data from file: ..\..\INCLUDE\Study & Dataset\dataset_draft_2024-10-09.csv
Traceback (most recent call last):
  File "C:\Users\lopi\OneDrive - The University of Colorado Denver\Documents\INCLUDE_LinkML\include-linkml\venv\Scripts\\validate-data", line 6, in <module>
    sys.exit(main())
             ^^^^^^
  File "C:\Users\lopi\OneDrive - The University of Colorado Denver\Documents\INCLUDE_LinkML\include-linkml\src\data_validation\cli.py", line 36, in main
    validation_function(args.input_file, args.output)
  File "C:\Users\lopi\OneDrive - The University of Colorado Denver\Documents\INCLUDE_LinkML\include-linkml\src\data_validation\validation.py", line 40, in validate_dataset
    return validate_data(file_path, string_columns, validate_dataset_entry, output_path)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "C:\Users\lopi\OneDrive - The University of Colorado Denver\Documents\INCLUDE_LinkML\include-linkml\src\data_validation\validation_utils.py", line 68, in validate_data
    clean_dataframe_strings(df, string_columns)
  File "C:\Users\lopi\OneDrive - The University of Colorado Denver\Documents\INCLUDE_LinkML\include-linkml\src\data_validation\validation_utils.py", line 17, in clean_dataframe_strings
    df[string_columns] = df[string_columns].map(clean_string)
                         ~~^^^^^^^^^^^^^^^^
  File "C:\Users\lopi\OneDrive - The University of Colorado Denver\Documents\INCLUDE_LinkML\include-linkml\venv\Lib\site-packages\pandas\core\frame.py", line 4108, in __getitem__
    indexer = self.columns._get_indexer_strict(key, "columns")[1]
              ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "C:\Users\lopi\OneDrive - The University of Colorado Denver\Documents\INCLUDE_LinkML\include-linkml\venv\Lib\site-packages\pandas\core\indexes\base.py", line 6200, in _get_indexer_strict
    self._raise_if_missing(keyarr, indexer, axis_name)
  File "C:\Users\lopi\OneDrive - The University of Colorado Denver\Documents\INCLUDE_LinkML\include-linkml\venv\Lib\site-packages\pandas\core\indexes\base.py", line 6252, in _raise_if_missing
    raise KeyError(f"{not_found} not in index")
KeyError: "['data access'] not in index"