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Error reading OpenEphys legacy format with neo

See original GitHub issue

Hi @samuelgarcia! Here is the issue for the reading of OpenEphys legacy format I told you in Lyon school. The problem come from neo library, the reading is not working if we have CH and ADC channels, but working if we have only one type of channel. The error I got:


  File "/datas/Théo/Spikesorting/Test1Spikeinterface.py", line 24, in <module>
    recording = se.read_openephys(folder_path)
  File "/datas/Théo/Spikesorting/venv/python/lib/python3.8/site-packages/spikeinterface/extractors/neoextractors/openephys.py", line 108, in read_openephys
    recording = OpenEphysLegacyRecordingExtractor(folder_path, **kwargs)
  File "/datas/Théo/Spikesorting/venv/python/lib/python3.8/site-packages/spikeinterface/extractors/neoextractors/openephys.py", line 38, in __init__
    NeoBaseRecordingExtractor.__init__(self, stream_id=stream_id, **neo_kwargs)
  File "/datas/Théo/Spikesorting/venv/python/lib/python3.8/site-packages/spikeinterface/extractors/neoextractors/neobaseextractor.py", line 26, in __init__
    _NeoBaseExtractor.__init__(self, **neo_kwargs)
  File "/datas/Théo/Spikesorting/venv/python/lib/python3.8/site-packages/spikeinterface/extractors/neoextractors/neobaseextractor.py", line 16, in __init__
    self.neo_reader.parse_header()
  File "/datas/Théo/Spikesorting/venv/python/lib/python3.8/site-packages/neo/rawio/baserawio.py", line 185, in parse_header
    self._parse_header()
  File "/datas/Théo/Spikesorting/venv/python/lib/python3.8/site-packages/neo/rawio/openephysrawio.py", line 176, in _parse_header
    stream_ids = stream_ids[order]
IndexError: index 32 is out of bounds for axis 0 with size 2

It seems that the CH and ADC channels name splitting is wrong. Thank you for help 😉

Issue Analytics

State:
Created 2 years ago
Comments:29 (16 by maintainers)

Top GitHub Comments

1reaction

samuelgarciacommented, Feb 9, 2022

Hi Chris, Cool to see you here. I really to fix this soon. I am procrastinating a bit on that particular point. The todo list is so big! I promise I will do it soon.

0reactions

alejoe91commented, Oct 28, 2022

@eejd can you open an issue in Neo?

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