Jake Pennington comments

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                                            Jake Pennington

Getting following error when spike sorting tetrodes: The size of tensor a must match the size of tensor b at non-singleton dimension 0

The log files you attached say you're using int16, that's why I mentioned it. Make sure you're setting it as an argument to `run_kilosort`, it won't do anything if you're...

Kilosort used to raise one of these errors every run: Err2: ValueError: Found array with 0 sample(s) (shape=(0, 61)) while a minimum of 1 is required by TruncatedSVD.

Which version of Kilosort4 are you using? Can you please upload `kilosort4.log` from the results directory?

Kilosort used to raise one of these errors every run: Err2: ValueError: Found array with 0 sample(s) (shape=(0, 61)) while a minimum of 1 is required by TruncatedSVD.

@NadaRayann You're probably getting errors because your probe layout is not in the expected format. Values for 'xc' and 'yc' should be specified in microns. You probably need to swap...

Kilosort used to raise one of these errors every run: Err2: ValueError: Found array with 0 sample(s) (shape=(0, 61)) while a minimum of 1 is required by TruncatedSVD.

If you still run into problems after changing the probe layout, please upload a screenshot of what the KS4 GUI looks like after loading your data.

Kilosort used to raise one of these errors every run: Err2: ValueError: Found array with 0 sample(s) (shape=(0, 61)) while a minimum of 1 is required by TruncatedSVD.

@Sana-Alshboul Kilosort does not support 3D coordinates. However, with contacts spaced that far apart the geometry won't matter anyway. You can just list the contacts as if they were on...

Kilosort used to raise one of these errors every run: Err2: ValueError: Found array with 0 sample(s) (shape=(0, 61)) while a minimum of 1 is required by TruncatedSVD.

@danafarah Please upload a screenshot of what the KS4 GUI looks like after loading the data, and the new `kilosort4.log` from running it with the new probe configuration.

Kilosort used to raise one of these errors every run: Err2: ValueError: Found array with 0 sample(s) (shape=(0, 61)) while a minimum of 1 is required by TruncatedSVD.

Can you please upload a screenshot of what the KS4 GUI looks like after loading your data?

Kilosort used to raise one of these errors every run: Err2: ValueError: Found array with 0 sample(s) (shape=(0, 61)) while a minimum of 1 is required by TruncatedSVD.

The first thing you should try is clicking "Reset GUI" to set all parameters to their defaults, then only change the things that you have to for your data (like...

Kilosort used to raise one of these errors every run: Err2: ValueError: Found array with 0 sample(s) (shape=(0, 61)) while a minimum of 1 is required by TruncatedSVD.

I don't see anything indicating that the number of channels is incorrect. Clicking on "whitened" at the bottom-right of the heatmap will give you a better view of the data,...

Help: Example spike-sorting analysis with sample data

Can you please include the full traceback message for the error? It sounds like this is an issue with your kilosort installation. Also please specify if you're using the google...