OpenCRAVAT 3.0 BETA Feedback

[skanderson]

We are currently testing a new version of the back-end of the OpenCRAVAT web server. To increase overall performance, particularly when many users are accessing the server at the same time, we are switching from an aiohttp web server to a flask web server. This allows us to remove a lot of the async code from our codebase. Since the update touches so much of the code, we are testing the changes on run.opencravat.org before we commit the changes to our main branch.

❓ What does this mean for me?
Hopefully nothing! Your current username and password will still work and all current functionality should work exactly the same as before.

🙋 How can I help?
If you notice any strange behavior or broken functionality, please report it in this thread or as a bug in our GitHub Issues.

If you would like to test out the new build for yourself, feel free to pull the feat/flask-api branch of this repo and let us know how it goes!

[tkmamidi]

I'm not sure what's going on but one of the VCFs on the web server is running since 3 days. Here's the job id - 251021-183543. I only have 4M variants and 5 annotators listed. Please help!

[skanderson]

@tkmamidi Thanks for the report!

I checked on this job and it did complete with errors. It looks like there were errors in mapping and in gnomad4; you can review them in the log. I think this does highlight an issue with the new backend. It seems like certain types of errors break the status updates so it is getting stuck reporting an old status. I will look into it further.

[Sciencelestine]

I am trying to run multiple VCF files from one of my patients, but it is not working. The job ID is 251220-025515. I can see the log, but it seems that the process stopped. There are many errors, but it doesn't matter, I just need to download an Excel file for variant prioritization.
Could you please help me?