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FIX: Live graphing in ODECSolver using wrong decoder #755

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merged 4 commits into from
Apr 13, 2022
Merged

FIX: Live graphing in ODECSolver using wrong decoder #755

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75aadff
Live graphing fixes for ODE/Hybrid
jtcooper10 Mar 24, 2022
ca62c7d
Merge branch 'develop' into fix/odec-live-graphing-decoder
jtcooper10 Apr 13, 2022
628fdf7
Explicitly set `current_time` in ODECSolver
jtcooper10 Apr 13, 2022
6d1b926
Remove accidentally included files
jtcooper10 Apr 13, 2022
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4 changes: 2 additions & 2 deletions gillespy2/solvers/cpp/ode_c_solver.py
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Original file line number Diff line number Diff line change
Expand Up @@ -17,7 +17,7 @@
"""
import numpy as np

from gillespy2.solvers.cpp.c_decoder import BasicSimDecoder
from gillespy2.solvers.cpp.c_decoder import IterativeSimDecoder
from gillespy2.solvers.utilities import solverutils as cutils
from gillespy2.core import GillesPySolver, Model
from gillespy2.core.gillespyError import *
Expand Down Expand Up @@ -95,7 +95,7 @@ def run(self=None, model: Model = None, t: int = 20, number_of_trajectories: int
display_args = None

args = self._make_args(args)
decoder = BasicSimDecoder.create_default(number_of_trajectories, number_timesteps, len(self.model.listOfSpecies))
decoder = IterativeSimDecoder.create_default(number_of_trajectories, number_timesteps, len(self.model.listOfSpecies))

sim_exec = self._build(self.model, self.target, self.variable, False)
sim_status = self._run(sim_exec, args, decoder, timeout, display_args)
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1 change: 1 addition & 0 deletions gillespy2/solvers/cpp/tau_hybrid_c_solver.py
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@@ -1,3 +1,4 @@
import numpy as np
import gillespy2
from gillespy2.solvers.cpp.c_decoder import IterativeSimDecoder
from gillespy2.solvers.utilities import solverutils as cutils
Expand Down