NeuralEnsemble
EDF blocks access when io is opened.
This is coming from here in Spikeinterface:
https://github.com/SpikeInterface/spikeinterface/issues/1228
Here, basically this format can't only be opened once per file-system.
from pathlib import Path
from spikeinterface.extractors import EDFRecordingExtractor
from spikeinterface.core.base import _load_extractor_from_dict
file_path = Path("/home/heberto/neuroconv_testing_data/ephy_testing_data/edf/edf+C.edf")
recorder = EDFRecordingExtractor(file_path=file_path)
recorder_dict = recorder.to_dict()
recorder_from_dict = _load_extractor_from_dict(recorder_dict)
File "/home/heberto/miniconda3/envs/spikeinterface_env/lib/python3.10/site-packages/neo/rawio/edfrawio.py", line 70, in _parse_header
self.edf_reader = EdfReader(self.filename)
File "pyedflib/_extensions/_pyedflib.pyx", line 146, in pyedflib._extensions._pyedflib.CyEdfReader.__init__
File "pyedflib/_extensions/_pyedflib.pyx", line 209, in pyedflib._extensions._pyedflib.CyEdfReader.open
File "pyedflib/_extensions/_pyedflib.pyx", line 181, in pyedflib._extensions._pyedflib.CyEdfReader.check_open_ok
OSError: /home/heberto/neuroconv_testing_data/ephy_testing_data/edf/edf+C.edf: file has already been opened
Wasn't this a long term issue. I have no clue how to fix. Since you have some data from somewhere are you okay trying to make a fix?
Yeah, unfortunately, the fix would be to redo the IO entirely as we use a library for this one and is blocking. I don't think it would be too hard but I would be more weary about testing it.
Mmm now that I think about it, we could use MNE. That should be easier.
@zm711 can you re-open this? I don't think this is fully solved fully yet and the IO is just restricted to get_analogsignal... but it is still blocked.
The solution will be to either use mne or roll this into our own memmaps.