ecephys_spike_sorting

ecephys_spike_sorting copied to clipboard

raise InvalidGitRepositoryError

2

I have activated environment, change path in json but it still have error below in cmd window: anyone knows why? python C:\Users\**(myname)\Desktop\mykilo\ecephys_spike_sorting-master\ecephys_spike_sorting\scripts\batch_processing.py ecephys spike sorting: kilosort helper module Traceback (most...

a12468

documentation request

3

Hey, great tool you've made. it is though, very hard to install. -can you please mark in the DOCS, all the paths that must be changed in the code to...

WeissShahaf

Concatenating multiple runs

4

Hi, We had an issue with concatenating recordings from different triggers with data acquired with SpikeGLX from a NP1.0 probe. We followed the inline comments in 'sglx_multi_run_pipeline.py' using the fork...

harshk95

Marshmallow Validation Error

5

Hello, we are attempting to run the scripts from the `extract_from_npx` module. When running the following command: `python -W ignore -m ecephys_spike_sorting.modules.extract_from_npx --input_json

lihao881230

Error running mean_waveforms module from curated kilosort output

10

Hi, I was trying to use the mean_waveforms module and I get the following error towards the end of the analysis. peak_channels[cluster_idx], IndexError: index 539 is out of bounds for...

edwardyan95

Mean waveforms: Value error

1

Hello, I have been trying to calculate mean waveforms on my data. I used all three: Kilosort2, Kilosort 2.5 and Kilosort 3 outputs and I always get the same error:...

Kasia-Bz

Error calculating d_prime

1

I'm running into the following error when I run the quality_metrics module (using the master branch) on a dataset I collected: `d_prime = lda_metrics(all_pcs, all_labels, cluster_id)` (from line 278 in...

ldclaar

pip install fails on Windows

1

The call to `pip install -q -U pip` in the tox.ini file is failing on my Windows machine: `ERROR: InvocationError for command 'C:\\Users\\svc_neuropix\\Documents\\GitHub\\ecephys_spike_sorting\\.tox\\py36-test\\Scripts\\pip.EXE install -q -U pip' (exited with code...

jsiegle

Unit tests = testing individual functions Integration tests = testing full modules (with test data as input)

jsiegle

Docs build is broken

4

sphinx.apidoc was moved to sphinx.ext.apidoc and a reroute was added to cover. This reroute [strips out the first element passed to it](https://github.com/sphinx-doc/sphinx/blob/master/sphinx/apidoc.py#L30), which breaks our docs build.

NileGraddis