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cortex-lab / phy

phy: interactive visualization and manual spike sorting of large-scale ephys data
BSD 3-Clause "New" or "Revised" License
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SegFault error when trying to launch Phy2 GUI on MobaXterm #1227

Closed manuelvasconcelos closed 8 months ago

manuelvasconcelos commented 8 months ago

Hello!

I have just installed a fresh version of phy2. I have used phy many times in the past but it has been a couple of months and I see now there is a phy2, which I just installed following the docs, making sure to also delete the status.json files as I previously had phy1 installed.

Here is the issue:

When trying to run the GUI on some data (which previously ran with no issue) I encountered a SegFault error and have tried --debug, --clear-state, --clear-cache as well as manually deleting the .json files. I have attached a text file with my conda environment as well as debug from phy.

phySegFaultError.txt

Please let me know if there's any other information that would help troubleshooting.

Thanks.

zm711 commented 8 months ago

@manuelvasconcelos, You have phy from pypi. But the latest bug fixes have only been applied to the GitHub version (ie you need to install from git instead of from pypi).

It might be easiest to just try:

conda env create -f environment.yml

from the repo since that auto-installs the dev version of phy. Otherwise you should follow the instructions on the readme to install with

pip install git+https://github.com/cortex-lab/phy.git

after generating your env.

manuelvasconcelos commented 8 months ago

@zm711 Thanks for the response.

Creating the environment with conda env create -f environment.yml solved the issue! It took much longer to resolve the environment but the wait was worth it.

As a note, conda list still lists phy and phylib as from the pypi channel, but nonetheless this resolved the segfault error.

Thank you!