Skip to content
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

Submitting molecule doesn't work with forgi 1.1.0 while running locally #40

Open
youri-c opened this issue Mar 21, 2018 · 3 comments
Open
Labels

Comments

@youri-c
Copy link

youri-c commented Mar 21, 2018

HelIo !
I succeeded to run Forna locally with the latest release of the Forgi library (1.1.0), but while trying to submit the default RNA sequence, I am facing an error that seems to be due to incompatibility between both (see attached picture).
fornaerror

@youri-c youri-c changed the title Not working with forgi 1.1.0 while running locally Submitting molecule doesn't work with forgi 1.1.0 while running locally Apr 12, 2018
@youri-c
Copy link
Author

youri-c commented Apr 12, 2018

I finally managed to solve it, by modifying the fasta_to_position() function in the forna.py class.
I have suppressed the line "bg=fgb.BulgeGraph()" and changed the line "fgb.from_fasta_text(fasta_text, False)" to "bg = fgb.from_fasta_text(fasta_text)".

@pkerpedjiev
Copy link
Collaborator

Oh great! If you want to submit a PR, that would be greatly appreciated!

@youri-c
Copy link
Author

youri-c commented Apr 13, 2018

I'm definitely ok with pushing these modifications ! Yet, this requires you to give me the permission for this.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
Projects
None yet
Development

No branches or pull requests

3 participants