Package org.sbml.jsbml

Examples of org.sbml.jsbml.Trigger

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    Parameter p = model.createParameter("p1");
    p.setValue(1d);
    Event e = model.createEvent("e1");
    Priority prior = e.createPriority();
    prior.setMath(new ASTNode(1));
    Trigger t = e.createTrigger();
    t.setFormula("time == 1");
    EventAssignment ea = e.createEventAssignment(p, ASTNode
        .parseFormula("3"));
    e.addEventAssignment(ea);
    System.out.println((new SBMLWriter()).writeSBMLToString(doc));
  }
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    Model model = doc.createModel("event_model");
    Compartment c = model.createCompartment("compartment");
    model.createSpecies("s1", c);
    model.createSpecies("s2", c);
    Event ev = model.createEvent();
    Trigger trigger = ev.createTrigger(false, true, ASTNode.parseFormula("3 >= 2"));
    trigger.setMath(ASTNode.geq(new ASTNode(ASTNode.Type.NAME_TIME),
        new ASTNode(10)));
    ev.createPriority(ASTNode.parseFormula("25"));
    ev.createDelay(ASTNode.parseFormula("2"));
    ev.createEventAssignment("s1", ASTNode.parseFormula("s2"));
    System.out.println("==================================");
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   */

  @Test public void test_Event_full() throws ParseException
  {
    ASTNode math1 = ASTNode.parseFormula("0");
    Trigger trigger = new  Trigger(2,4);
    ASTNode math = ASTNode.parseFormula("0");
    Event e = new  Event(2,4);
    EventAssignment ea = new  EventAssignment(2,4);
    ea.setVariable( "k");
    ea.setMath(math);
    trigger.setMath(math1);
    e.setTrigger(trigger);
    e.setId( "e1");
    e.setName( "Set k2 to zero when P1 <= t");
    e.addEventAssignment(ea);
    assertTrue( e.getEventAssignmentCount() == 1 );
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  }

  @Test public void test_Event_setTrigger() throws ParseException
  {
    ASTNode math1 =  ASTNode.parseFormula("0");
    Trigger trigger = new  Trigger(2,4);
    trigger.setMath(math1);
    E.setTrigger(trigger);
    assertTrue(E.getTrigger() != null);
    assertEquals( true, E.isSetTrigger() );
    if (E.getTrigger() == trigger);
    {
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      assertTrue(false);
    }

    Event e1 = new Event(2, 4);
    Event e2 = new Event(2, 4);
    Trigger t = new Trigger(2, 4);
    e1.setTrigger(t);
    e2.setTrigger(t); // TODO: Document the difference: Setting the same trigger object there in jsbml !!!
    e1.createEventAssignment("k1", math);
    e2.createEventAssignment("k2", math);
    M.addEvent(e1);
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  @Test
  public void test_Model_getEventById() {
    Event e1 = new Event(2, 4);
    Event e2 = new Event(2, 4);
    Trigger t = new Trigger(2, 4);
    e1.setTrigger(t);
    e2.setTrigger(t);
    e1.createEventAssignment();
    e2.createEventAssignment();
    e1.setId("e1");
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      try {
        math1 = ASTNode.parseFormula("0");
      } catch (ParseException e) {
        assertTrue(false);
      }
      Trigger trigger = new  Trigger(2,4);
      trigger.setMath(math1);
      E.setTrigger(trigger);
      assertTrue(E.getTrigger() != null);
      assertEquals( true, E.isSetTrigger() );
      if (E.getTrigger() == trigger);
      {
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            ListOf<EventAssignment> listOfEventAssignments = (ListOf<EventAssignment>) newContextObject;
            event.setListOfEventAssignments(listOfEventAssignments);

            return listOfEventAssignments;
          } else if (elementName.equals("trigger")) {
            Trigger trigger = (Trigger) newContextObject;
            event.setTrigger(trigger);

            return trigger;
          } else if (elementName.equals("delay")) {
            Delay delay = (Delay) newContextObject;
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    k1.addCVTerm(new CVTerm(CVTerm.Qualifier.BQB_IS, "test"));
   
    Event event = model.createEvent("test_event");
   
    Trigger trigger = event.createTrigger();
//    trigger.setMath(ASTNode.geq(new ASTNode(ASTNode.Type.NAME_TIME),
//        new ASTNode(10)));
    trigger.setMath(ASTNode.parseFormula("time >= 10"));
   
    EventAssignment assignment1 = event.createEventAssignment();
    assignment1.setVariable(k1);
    assignment1.setMath(new ASTNode(34));
   
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*/
 
  @Test public void test_Event_full() throws ParseException
  {
    ASTNode math1 = ASTNode.parseFormula("0");
    Trigger trigger = new  Trigger(2,4);
    ASTNode math = ASTNode.parseFormula("0");
    Event e = new  Event(2,4);
    EventAssignment ea = new  EventAssignment(2,4);
    ea.setVariable( "k");
    ea.setMath(math);
    trigger.setMath(math1);
    e.setTrigger(trigger);
    e.setId( "e1");
    e.setName( "Set k2 to zero when P1 <= t");
    e.addEventAssignment(ea);
    assertTrue( e.getNumEventAssignments() == 1 );
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Related Classes of org.sbml.jsbml.Trigger

  • org.sbml.jsbml.test.EventTest
  • org.sbml.jsbml.test.PriorityTest
  • org.sbml.jsbml.test.sbml.TestEvent
  • org.sbml.jsbml.test.sbml.TestIncompatibilities
  • org.sbml.jsbml.test.sbml.TestModel
  • org.sbml.jsbml.test.Test
  • org.sbml.jsbml.test.ToyModelTest
  • org.sbml.jsbml.xml.parsers.SBMLCoreParser
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