-
Notifications
You must be signed in to change notification settings - Fork 27
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
AttributeError: 'NoneType' object has no attribute 'groups' #99
Comments
Hi Jing, Sorry you're running into issues. Looks like the program is having issues with ID attributes. Can you send me the 2 gff3 files and reference fasta file so I can see what's going on (or links to them if they're large)? monica.poelchau@usda.gov |
Hi @lijing28101 - the problem you see is occurring because our merge program is making some (possibly unreasonable) assumptions about the way the ID attribute is formatted. We'll try to work on our end to get rid of that assumption. In the meantime, however, there is a fix - you can use the ancillary script in this repo (lib/gff3_ID_generator.py) to reformat your IDs, then run the merge program again using the output gff3 file(s). Hopefully that will resolve your immediate problem. I'd suggest running it as follows, using the -idpre and -diglen arguments:
|
Hi,
I installed gff3toolkit by pip install, using python 3.5.
My code is
It's failed when identify types of replacement based on replace tag.
Please help me to solve the probelm.
Thanks,
Jing
The text was updated successfully, but these errors were encountered: