Josh Siegle

@jenniferColonell any advice on this?

Hi @Kasia-Bz , for the first error, it looks like the number of data channels indicated in the `create_input_json.py` file is incorrect. `22608838945` is evenly divisible by `385`, so I'm...

Thanks, this is all helpful to know! Can you share a dataset that's causing these errors? That will make it much easier to troubleshoot.

This is an issue with `argschema` v2+...by default, it doesn't allow you to include input fields that aren't explicitly listed in the schema. The solution is to either edit your...

Which modules have been difficult to get up and running? There is currently a single file, [create_input_json.py](https://github.com/AllenInstitute/ecephys_spike_sorting/blob/master/ecephys_spike_sorting/scripts/create_input_json.py), that is used to specify all of the custom file paths, but there...

It should be noted that these paths will depend on the specifics of your Python installation, and definitely won't work for everyone. If you installed the pipenv package following the...

So, the spike sorting code is dependent on 3 pieces of "external" software: [NpxExtractor](http://stash.corp.alleninstitute.org/users/joshs/repos/npxextractor/browse), a binary that converts raw data files into arrays of int16s, [SpikeBandMedianSubtraction](http://stash.corp.alleninstitute.org/users/joshs/repos/spikebandmediansubtraction/browse), another binary that removes...

I just made them public. The matlab engine comes with the Matlab install, but you have to run setup.py install to use it. The version for R2017a is only compatible...

I think the second option makes the most sense. If there's only one unit on a segment of the probe, LDA and other PCA-based metrics are not defined. I would...

This error can result if you did not downloaded the Kilosort code using `git` (e.g., you downloaded the repository as a .zip file). To fix it, just change [this line](https://github.com/AllenInstitute/ecephys_spike_sorting/blob/7e567a6fc3fd2fc0eedef750b83b8b8a0d469544/ecephys_spike_sorting/common/utils.py#L402)...