quick fix for spikeglx probe

[h-mayorquin]

@alejoe91 and I were discussing today the loading of the probe geometry for spikeglx. These are the requested changes.

[samuelgarcia]

Hi Herberto.
Thanks for this. I do commtn in place

[h-mayorquin]

The meta file corresponding to the lf stream in the testing data does not have a snsShankMap and therefore the test fails.

How do you want to handle this?

[alejoe91]

The meta file corresponding to the lf stream in the testing data does not have a snsShankMap and therefore the test fails.

How do you want to handle this?

In that case what I would do (in spikeinterface) is to look for the corresponding AP file and load the probe from there. What do you think?

[h-mayorquin]

In that case what I would do (in spikeinterface) is to look for the corresponding AP file and load the probe from there. What do you think?

Yes, I think that makes sense. Is there any reason to expect those two files to be different. The few meta files that I have seen are mostly identical in all the properties. Maybe you know more about this.

[alejoe91]

Yeah the LF doesn't have the shank map! Which is used to construct channel locations (hence the error)

[alejoe91]

Yeah the LF doesn't have the shank map! Which is used to construct channel locations (hence the error)

@h-mayorquin do you have time to try to implement this? basically look for the ap file with the same stem as the lf file and load the probe from there (if lf in stream_id)

[h-mayorquin]

I implemented the requested changes. There seems to be a different error. This was working locally for me with the Sam tests in gin. I will take a look later but meanwhile maybe you have an idea on what this could be.

Where are the instructions to run the tests locally? You used a different data structure for the tests than the one in neo or nwb-conversion-tools and I think I lost the location of the tests directory, do you have an utilities to set up the testing suit?

[alejoe91]

@h-mayorquin we should skip the probe loading if the steam is nidq

[alejoe91]

@samuelgarcia removed the try - except. Shold be good to go now!