An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuristic optimization algorithms, and an adaptive Markov chain Monte Carlo (MCMC) sampling algorithm.
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SBML timeout not supported if PyBNF installed through PyPI #249
For enforcing the wall_time_sim for SBML models, we use a hack where the simulation is actually run in the separate script sbml-runner.py . If installing through PyPI, sbml-runner.py is not installed, so the wall_time_sim option fails
Additionally, the current error message generated for this case is not informative.
emitra17
commented
6 years ago
For enforcing the
wall_time_simfor SBML models, we use a hack where the simulation is actually run in the separate script sbml-runner.py . If installing through PyPI, sbml-runner.py is not installed, so thewall_time_simoption failsAdditionally, the current error message generated for this case is not informative.