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[BUG] flatten series crashes conversion when invalid data is in spreadsheet #280

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bendhouseart opened this issue Feb 28, 2024 · 0 comments
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@bendhouseart
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Describe the bug
pypet2bids crashes when bad input values are present in a blood spreadsheet.

To Reproduce
Include a nonsense/non-pythonic datatype in a spreadsheet column and read it in with the --metadata-path argument in dcm2niix4pet. e.g. #DIV/0!

Expected behaviour
Conversion completes and outputs a blood tsv, sidecar, etc with an empty value for the entity instead of raising the following error:

*pypet2bids/helper_funictions.py, line 117, in flatten_series
    raise Exception(f"Invalid Series: {series}")

Exception: Invalid Series: 0 NaN

Desktop (please complete the following information):

  • OS: [e.g. iOS]
  • Version (matlab/python)
@bendhouseart bendhouseart added the bug Something isn't working label Feb 28, 2024
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