LaurenzMuessig

That is to be expected from how KS3 works. See here for more info #429. Cheers

See #29 for more information on why that happens and what you can do as a workaround. Cheers

I agree with Dan. Would be great to get some more info on the algorithm that KS3 uses. Cheers

@benefron For me it only worked after resetting the gui state (--clear-state flag). Also, it didn't work if I ran it on a dataset that was sorted in Phy previously...

You can try and delete the .json file in C:\\Users\Laurenz\\.phy\\TemplateGUI. Also when you run it, does it generate 3 npy files named \_phy\_...

It generates 3 files for me: \_phy\_spikes\_subset.channels.npy \_phy\_spikes\_subset.spikes.npy \_phy\_spikes\_subset.waveforms.npy Otherwise I am doing the same as @coweowner. It only didn't work for me the first time, but either using the...

Enter Path to Data: Z:\current_curation\r1010_20211007T033349 12:29:51.994 [W] model:591 Unreferenced clusters found in templates (generally not a problem) 12:29:53.045 [W] model:613 Unreferenced clusters found in spike_clusters (generally not a problem) 12:29:53.621...

this is my terminal output

Hey Michael, You can also use [this function](https://github.com/cortex-lab/spikes/blob/master/analysis/templatePositionsAmplitudes.m) from the Spikes repo from the Cortex lab at UCL which will output, amongst other stuff, the depth of the template for...

Hi Michael. Note that the function calculates the centre of mass to assign the template depths, rather than just using the peak channel itself (which I think phy uses). Are...