SpikeInterface
Containers do not appear to include Wine64, zugbruecke for PL2 files
I might not fully understand how everything works, but would a Docker container (and presumably a Singularity container) for one of the spike sorters (say, spikeinterface/kilosort4-base) need to include Wine64 and zugbruecke in order to work with PL2 files? Out of curiosity I tried running the run_sorter method for kilosort4 with docker_image=True and got an error message that indicated the absence of Wine. Thanks!
@cheydrick
yes it would. the docker containers (singularity I don't know) are going to be linux-esque. So if you wanted to use docker for plexon2 stuff you would need to include wine in the extras. @alejoe91 knows way more about the docker stuff than me so he could give you specifics for commands.
Right @zm711
It would be very tricky to install it on the fly, so I suggest that if you have a .pl2 file and want to run it in a container, the best way would be to convert it to binary.
@alejoe91 Is it unfeasible to include wine64 and pickle in the Docker container from the get-go? This would the negate the need for installing on the fly and also avoid conversion to BIN.
The containers tend to have minimal installations of the sorters dependencies only, so that they are easier to maintain and upgrade.
What you could do is build a docker image FROM a spikeinterface container and add the additional wine dependencies and distribute tham as something like: spikeinterface-pl2/kilosort4-base, etc.
When running a sorter, then you can specify the exact image to use as a container!