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

Do SBML local parameters work? #14

Open
ayush9pandey opened this issue Jan 20, 2025 · 2 comments
Open

Do SBML local parameters work? #14

ayush9pandey opened this issue Jan 20, 2025 · 2 comments

Comments

@ayush9pandey
Copy link

I am trying to use ratesb_python with an SBML model that has local parameter definitions. My model generation tool (biocrnpyler) creates models with local parameters. Even for a simple model of degradation reactions, I am unable to verify the rate laws. So I wonder if local parameters is the issue? The SBML model that I am using is available here: https://github.com/ayush9pandey/ratesb_python_review/blob/main/test_model.xml

@RMeli
Copy link

RMeli commented Feb 2, 2025

@longxf21
Copy link
Collaborator

Hi Ayush. I couldn't replicate the issue. I ran the software with this model and got:
r0: Warning 1020: We recommend that these parameters start with 'k': r0_k_forward r1: Warning 1020: We recommend that these parameters start with 'k': r1_k_forward r2: Warning 1020: We recommend that these parameters start with 'k': r2_k_forward
Which looks fine to me.

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

No branches or pull requests

3 participants