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Performing Simulations

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Performing Simulations at the Command Line Performing Simulations in the SimBiology Desktop

Performing Simulations at the Command Line

The function sbiosimulate allows you to perform simulations at the command line.

At the command line, you can create a configuration set (configset object) that contains information about:

• The type of solver to use, associated tolerances, and maximum step size for deterministic (ODE) solvers

• The simulation stop time

• The options to use in sensitivity analysis

You can add many configuration sets to a model, each containing a different combination of simulation settings. To use a configuration set during a simulation you can either set the object's Active property to true, or specify the object as an argument to sbiosimulate.

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Performing Simulations in the SimBiology Desktop

The SimBiology integrated desktop environment provides convenient access to the configuration settings for simulations.

To access your configuration settings:

• In the Simulation pane, on the Simulation Settings tab, next to Configuration Settings, click Go to.

• Alternately, in the Project Explorer, select Configuration Settings.

  

The Configuration Settings pane appears, where you can set, change, and save simulation parameters, configure data logging, and compile options.

Where to Find Configuration Settings Controls

Use the following controls on the Configuration Settings pane:

• Use the Settings tab to set the simulation solver and timing options for the currently selected model, and compile options for unit checking.

• Use the Data Logging tab to choose which species to log and how often.

Where to Find Simulation Controls

To set up and run your simulation, use the following controls on any model task pane:

• Use the Simulation Settings tab to select your configuration settings, or use the default. After you set up custom configuration sets, you can select them by name from the Configuration Settings list.

  Note   Use the Run button in the Simulation Toolbar to run the simulation with your currently selected configuration settings.

  If you are using Variants or Doses, you can view them and apply them to tasks on the Simulation Settings tab.

• Use the Export tab to export simulation data to the MATLAB Workspace and/or to file every time you run a simulation.

• Use the Plots tab to configure what plots to generate when you run a simulation.

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Simulation

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