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mortazavilab / cerberus

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pyranges version compatibility with GENCODE gtf #4

Closed BCFZzw closed 1 year ago

BCFZzw commented 1 year ago

Hello, thank you for pushing this software out! I am really interested and trying it out at the moment. I do find that when processing GENCODE human v43 primary annotation GTF file, pyranges==0.0.124 will throw an error "Cannot convert non-finite values (NA or inf) to integer", and it is fixed in pyranges==0.0.125 as suggested in this thread. I updated mine and now it works fine. I do see in your setup.py requirement that pyranges is minimally required at 0.0.71, maybe changing it to a higher version would be ideal?

fairliereese commented 1 year ago

Thanks for the note! I've updated the pyranges version required. Please feel free to let me know if you get any other weird / unexpected behavior.