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bids_convert produces Segmentation fault (core dumped) error #174

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RLYounk opened this issue Dec 6, 2024 · 0 comments
Open

bids_convert produces Segmentation fault (core dumped) error #174

RLYounk opened this issue Dec 6, 2024 · 0 comments

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@RLYounk
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RLYounk commented Dec 6, 2024

Describe the bug
brkraw bids_convert produces a Segmentation fault (core dumped) error and only creates the top-level files and not the subject folders or their contents

To Reproduce
Steps to reproduce the behavior:

  1. From a terminal, cd into study folder
  2. Run brkraw bids_helper <input dir> <output filename> -j
  3. Run brkraw bids_convert <input dir> <BIDS datasheet.xlsx> -j <JSON syntax template.json> -o <output dir>
  4. See Segmentation fault (core dumped) error
  5. See that only top-level files exist in the output directory

Expected behavior
The whole BIDS structure including the subject folders and their contents (.nii and .json) files should be produced. This same issue happens when using brkraw tonii_all <input dir> -b

Desktop (please complete the following information):

  • Ubuntu 24.04.1
  • brkraw v0.3.11
  • Bruker PV3.5, MRI
  • Python 3.9.0

Thank you!

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