spikeinterface

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Sorting error when using joblib

9

Hello, I'm trying to run muntsinsort4 in parallel on a new computer (ubuntu 20.04.4 LTS) and get the error at the bottom of this issue. I've reinstalled joblib but it...

mfvd

Resample recording

5

Is there a way to resample a recording in the latest API? Previously ```st.preprocessing.resample``` would do the job but is no longer available. Cheers

mfvd

Recorders with non voltage (non standard) channels and slicing channels

10

In #761 we move the warnings of non standard units to `get_traces`. We achieved this by introducing an extra attribute: https://github.com/SpikeInterface/spikeinterface/blob/486bc67d364745437ebf1ed90bfdef7fae255c1c/spikeinterface/core/baserecording.py#L109-L116 However, as far as I know this attribute (`self.has_non_standards_units`)...

h-mayorquin

Documentation claims that `CellExplorerSortingExtractor` is supported but it is not

3

https://spikeinterface.readthedocs.io/en/latest/supported_formats_and_sorters.html The link above claims that ``CellExplorerSortingExtractor` is supported but I can't find it on the code base.

h-mayorquin

kilosort3 on dandihub

5

I’m having trouble running kilosort3 singularity on dandi hub. ```python !pip install git+https://github.com/SpikeInterface/spikeinterface import spikeinterface.sorters as ss from spikeinterface.core.testing_tools import generate_recording recording = generate_recording( num_channels=32, sampling_frequency=30000., # in Hz durations=[120],...

bendichter

test class inheritance

1

https://github.com/SpikeInterface/spikeinterface/blob/ae679aff788a6dd4d8e7783e1f72ec7e550c1bf9/spikeinterface/extractors/tests/common_tests.py#L10 @samuelgarcia Why not have this class inherit from `unittest.TestCase`? Then you can avoid multiple inheritance in descendant classes.

bendichter

`export_to_phy` with large dataset

10

Hi, I'm trying to use the `export_to_phy` function on a rather large dataset (30 minutes neuropixels recording with 300+ units). When I try to use the function "normally", I get...

DradeAW

recording extractor t_start

4

Hello, I have recently discovered that my ephys recordings do not start at the same time (I use OpenEphys and record signals from headstage, digital and analog). They start with...

ClaraBesserer

the error when get the results of sorting

1

kilosort3 run time 353.29s Traceback (most recent call last): File "/home/software/python3/lib/python3.9/site-packages/IPython/core/interactiveshell.py", line 3361, in run_code exec(code_obj, self.user_global_ns, self.user_ns) File "", line 5, in sortingk = ss.run_sorter('kilosort3', rec_cmr, output_folder=foldername, File "/home/software/python3/lib/python3.9/site-packages/spikeinterface/sorters/runsorter.py",...

jkb521

This PR depends on Sam's one, with the peak pipeline. I need to finish some tests, but this is running !

yger