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36 Open 76 Closed
36 Open 76 Closed
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Issues list

Test RunResults using a model with a dFBA submodel, and check on dfba_reaction_fluxes
#115 opened Dec 26, 2020 by artgoldberg
refactor rate law and enabled reaction calculations in DynamicSubmodel so eval_dynamic_rate_laws can use them
#114 opened Dec 26, 2020 by artgoldberg
Remove use of typing module in message_types.py when earliest supported Python version >= 3.9
#112 opened Oct 28, 2020 by artgoldberg
Handle ambient species, which are used in reactions but have "infinite" supply enhancement
#111 opened Sep 24, 2020 by artgoldberg
Support simulation of large models in modest amounts of RAM enhancement
#110 opened Sep 21, 2020 by artgoldberg
WC Sim container for BioSimulators enhancement
#109 opened Sep 18, 2020 by artgoldberg
@artgoldberg
Report invalid positive reaction rates in ODE submodels enhancement
#108 opened Sep 11, 2020 by artgoldberg
@artgoldberg
Dynamically reduce the time steps of dFBA submodels enhancement
#107 opened Sep 11, 2020 by artgoldberg
@artgoldberg
Improve performance of WC expression evaluation
#102 opened Sep 2, 2020 by artgoldberg
@artgoldberg
Optimization for reaction network dependency analysis enhancement
#101 opened Jul 16, 2020 by artgoldberg
@artgoldberg
Investigate possible problem with SsaTestCase 00003 bug
#100 opened Jul 3, 2020 by artgoldberg
@artgoldberg
Properly handle RandomStates enhancement
#99 opened Jul 1, 2020 by artgoldberg
@artgoldberg
RunResults visualization enhancement
#98 opened Jul 1, 2020 by artgoldberg
@artgoldberg
Make NRM a simulation method in the onto, instead of a framework enhancement
#97 opened Jun 17, 2020 by artgoldberg
@artgoldberg
1
Run-time error checking of caching enhancement
#95 opened May 22, 2020 by artgoldberg
@artgoldberg
To improve performance suspend default run-time error checking more broadly
#94 opened May 19, 2020 by artgoldberg
@artgoldberg
Add logging in propensity calculations and a method that takes a model and evaluates its performance at time 0
#93 opened May 11, 2020 by artgoldberg
@artgoldberg
1
Add options to 'wc-sim sim' CLI interface enhancement
#92 opened May 8, 2020 by artgoldberg
@artgoldberg
test SSA & NRM with many more runs
#91 opened May 4, 2020 by artgoldberg
@artgoldberg
Generalize validation with SBML test suite enhancement
#90 opened Apr 17, 2020 by artgoldberg
@artgoldberg
Decide what to do about propensities < 0 bug
#89 opened Apr 17, 2020 by artgoldberg Q2 2020
@artgoldberg
compare performance of SSA and NRM
#87 opened Apr 15, 2020 by artgoldberg
@artgoldberg
Improve NRM submodel enhancement
#86 opened Apr 15, 2020 by artgoldberg
@artgoldberg
1
Clean up wc_sim/message_types.py
#84 opened Apr 11, 2020 by artgoldberg
Enhance RunResults enhancement
#83 opened Apr 9, 2020 by artgoldberg
@artgoldberg
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