Jeremy Muhlich

Components can now be renamed, but removal is still a problem. Work continues...

I have a branch with energy modeling in progress at Pull Request #553 that you could try out. It should support all energy features that BNG supports. The documentation for...

SyntaxError is raised when some *Python* code has a syntax error, which leads me to believe your problem lies elsewhere. Could you paste the entire stack trace, and ideally a...

I take back what I said about the SyntaxError being unlikely, as I did notice sympy triggering that exception in certain cases due to its use of eval! Either way,...

PySB doesn't support explicit time in mathematical expressions yet, but the team just discussed it and we devloped an implementation plan. I've added an issue to track this at #534....

This might be addressed by ac3dcf22a448e207526737864dd0e8d5f956ab9d but will require some formal testing to verify.

This probably still needs more tests but I wanted to get this out there to get the review process started.

The BNG path is at least _runtime_ configurable but we forgot to document that -- set the environment variable BNGPATH (this is also used by bionetgen itself). Would you still...

Oh by the way, I've been considering bundling at least the perl code from BNG for a more all-in-one experience for pip users (see #96). How would that impact you?...

I put pygraphviz in `tests_require` so we won't have test failures from this, but the bigger issue still stands.