Examples with ASTNode org.sbml.jsbml.ASTNode used on opensource projects

Example 21 with ASTNode

use of org.sbml.jsbml.ASTNode in project vcell by virtualcell.

the class MathModel_SBMLExporter method addSbmlEvent.

protected static void addSbmlEvent(Model sbmlModel, Event vcellMathEvent) {
    org.sbml.jsbml.Event sbmlEvent = sbmlModel.createEvent();
    sbmlEvent.setId(vcellMathEvent.getName());
    // create trigger
    Trigger trigger = sbmlEvent.createTrigger();
    Expression triggerExpr = vcellMathEvent.getTriggerExpression();
    // 
    // if trigger expression is not already in "boolean" form, then new expression is (exp != 0.0) ...nonzero is true.
    // 
    ASTNode triggerMath = getFormulaFromExpression(triggerExpr, MathType.BOOLEAN);
    trigger.setMath(triggerMath);
    // create delay
    cbit.vcell.math.Event.Delay vcellMathDelay = vcellMathEvent.getDelay();
    if (vcellMathDelay != null && vcellMathDelay.getDurationExpression() != null && !vcellMathDelay.getDurationExpression().isZero()) {
        Delay delay = sbmlEvent.createDelay();
        Expression delayExpr = vcellMathDelay.getDurationExpression();
        ASTNode delayMath = getFormulaFromExpression(delayExpr, MathType.REAL);
        delay.setMath(delayMath);
        sbmlEvent.setUseValuesFromTriggerTime(vcellMathDelay.useValuesFromTriggerTime());
    }
    // create eventAssignments
    Iterator<EventAssignment> vcEventAssignments = vcellMathEvent.getEventAssignments();
    while (vcEventAssignments.hasNext()) {
        EventAssignment vcEventAssignment = vcEventAssignments.next();
        org.sbml.jsbml.EventAssignment sbmlEA = sbmlEvent.createEventAssignment();
        Variable target = vcEventAssignment.getVariable();
        sbmlEA.setVariable(target.getName());
        Expression eventAssgnExpr = new Expression(vcEventAssignment.getAssignmentExpression());
        ASTNode eaMath = getFormulaFromExpression(eventAssgnExpr, MathType.REAL);
        sbmlEA.setMath(eaMath);
    }
}