Skip to content

Issues: RuleWorld/bionetgen

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.

Sign up for GitHub

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

65 Open 143 Closed
65 Open 143 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Time-dependent rate laws?
#275 opened May 17, 2024 by hodgensc
1
TotalRate keyword is ignored in generating .net, SBML, and other outputs
#270 opened Dec 21, 2023 by jrfaeder
@jrfaeder
SSA performance bug regarding order of reactions
#265 opened Jun 28, 2023 by leon9812
4
Bundled CVODE contains CMake script with C99 compatibility issue
#262 opened Dec 11, 2022 by fweimer-rh
1
Disallow multiple bonds per component
#260 opened Aug 5, 2022 by ASinanSaglam
visualize regulatory graphs should automatically combine forward and reverse rule nodes enhancement
#259 opened Jul 15, 2022 by jrfaeder
Missing compartment topology connections in VCell bngl output
#246 opened Apr 14, 2022 by jrfaeder
1
BioNetGen 2.8.0 appears to change the case requirements for states
#245 opened Feb 27, 2022 by jonrkarr
1
BUG: Using "<" in PatternQuantifier results in invalid XML
#234 opened Sep 21, 2021 by cjarmstrong97
Handling of reversible reaction across compartments enhancement Priority-Medium
#232 opened Jul 22, 2021 by dweindl
6
Automate releasing to BioSimulators enhancement Priority-High
#230 opened Jun 8, 2021 by jonrkarr
Current implementation of builtin time() function in BNGL gives inaccurate results
#222 opened May 26, 2020 by jrfaeder
2
Some output functions can't handle spaces in pathnames
#220 opened Dec 6, 2019 by jrfaeder
Circular function definitions create infinite loop
#217 opened Oct 18, 2019 by jrfaeder
Copy parameter comments from BNGL to NET
#216 opened Aug 1, 2019 by tebuck
Rule with high product-side symmetry causes BNG to hang while reading in model Usability
#214 opened Jun 10, 2019 by lh64
User-defined functions cannot be accessed in Mex-file.
#212 opened Apr 3, 2019 by jrfaeder
1
Integrator tolerance
#208 opened Nov 5, 2018 by jrfaeder
Perform multiple stochastic runs and generate statistics enhancement
#193 opened Dec 22, 2017 by jrfaeder
1
Support for Sundials 3* / 4* / 5* enhancement
#190 opened Nov 9, 2017 by sagitter
2
add examples validations for undocumented bng features
#175 opened Jul 4, 2016 by jjtapia
Support Arrhenius rate laws in RateLaw::toXML
#173 opened May 15, 2016 by lh64
Contents of the BioNetGen/Models2 directory
#170 opened Apr 19, 2016 by rhclark
1
Models with extremely high symmetry in the molecule definition bog down BioNetGen
#165 opened Mar 2, 2016 by jjtapia
BioNetGen model executable in Python (similar to Mex) enhancement
#164 opened Feb 26, 2016 by johnsekar
ProTip! What’s not been updated in a month: updated:<2024-11-04.