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ZuchnerLab / Maverick

A Mendelian approach to variant effect prediction built in keras
MIT License
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How to solve this error #10

Closed bugu1999 closed 2 weeks ago

bugu1999 commented 2 months ago

Hello, after following the installation steps and deploying, I encountered the following error when running the example. Could you please advise on how to resolve it? FileNotFoundError: [Errno 2] No such file or directory: 'gencodeBasicFullLengthTranscriptsConversionTable.txt' cat: Maverick/example/example.groomed.txt: No such file or directory No scorable variants found

mdanzi commented 1 month ago

Hello, terribly sorry for my slow reply here! Did that error occur during the 'groomAnnovarOutput.py' step? That 'gencodeBasicFullLengthTranscriptsConversionTable.txt' file is from the 'Maverick_resources.tar.gz' file and I believe it is the first component of that resource tarball to get used in the pipeline, so I'm guessing you did not successfully download and unpack the 'Maverick_resources.tar.gz' file. Another user reported that the file was not available (https://github.com/ZuchnerLab/Maverick/issues/9) around the same time you posted this, so I'm betting that was the issue.

Could you try re-downloading and unpacking that file and then try again and let me know if that fixes it?

mdanzi commented 2 weeks ago

Closing this due to inactivity. Please feel free to re-open if it is still a problem!