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Empty snps track in local web #13

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mlarjim opened this issue Aug 9, 2024 · 2 comments
Open

Empty snps track in local web #13

mlarjim opened this issue Aug 9, 2024 · 2 comments
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@mlarjim
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mlarjim commented Aug 9, 2024

I would like to visualize the variants of the recombinant, donor and receptor, just as it is shown in the RIVET's web page.
However, whenever I run it locally in my computer and select one row in the table, the variants track is empty:
Screenshot from 2024-08-09 13-27-24

This is a functionality that I find very useful and I would be really grateful if you could help me.
I tried using as input the files provided in example/, with the same outcome.

There is no errors in my console when I run rivet-frontend.py

@mrkylesmith
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Hi, @mlarjim. Thanks for letting us know, I'm happy to help resolve this issue. Could you please try pulling the latest updates from main, and running RIVET locally with the example data again?

git pull
python3 rivet-frontend.py -r example/final_recombinants_example.txt -v example/trios_example.vcf -c config.yaml

If this works with the example data, please try your recombinant data again and let us know if the issue is resolved or persists. Thank you!

@mrkylesmith mrkylesmith self-assigned this Aug 12, 2024
@mlarjim
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mlarjim commented Aug 13, 2024

Excellent @mrkylesmith! It works fine with both example and my recombinant data.
Pulling the latest changes and installing again the packages in install/rivet_env.yml worked for me
Than you so much!

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