pickle.load() AttributeError: 'module' object has no attribute 'Gene'

[ghost]

Hi,

I ran your tool following the guidelines but when I try to run the Ribocode.py bit, I am getting this error: Traceback (most recent call last): File "", line 1, in AttributeError: 'module' object has no attribute 'Gene'

It seems to stem from pickle.load()

Let me know if you have any suggestions.

Best

[zhengtaoxiao]

Hi, Currently, the RiboCode only support the ensemble gtf file, for example, ftp://ftp.sanger.ac.uk/pub/gencode/Gencode_human/release_19/gencode.v19.annotation.gtf.gz

It looks like the line of "gene" feature is missing in your gtf file.

[ghost]

Hi,

The GTF file was the one you recommend in your tutorial, the Ensemble one.

[zhengtaoxiao]

Hi, Can you post the complete error message here ？

[ghost]

Hi,

I just removed the package and reinstalled with pip this time and it then worked flawlessly, not sure why though, exactly the same files were used.

Thanks!

[zhengtaoxiao]

RiboCode use pickle to store and load data. The version of variables and classes are pickled. If you update the RiboCode package, the pickle file should be regenerated.