Location: Metabolic Component Library @ 702b54b45018 / CellML-source / CellMLTools / src / cellmlexamples / CreateModelTest.java

Author:

Randall Britten <r.britten@auckland.ac.nz>

Date:

2013-04-17 15:30:14+12:00

Desc:

To "clone" an imported component, the top level import element needs to be duplicated, not just the component reference within an existing import. The rationale is that all connections within a top-level import are kept intact, as dictated by the encapsulation in the imported model.

Permanent Source URI:

https://staging.physiomeproject.org/w/matthiaskoenig/MetabolicComponentLibrary/rawfile/702b54b45018b04ef1bc074677379dc20d983234/CellML-source/CellMLTools/src/cellmlexamples/CreateModelTest.java

package cellmlexamples;
import tools.CellMLLoader;
import tools.CellMLReader;
import tools.CellMLWriter;
import cellml_api.CellMLComponent;
import cellml_api.CellMLVariable;
import cellml_api.Connection;
import cellml_api.MapComponents;
import cellml_api.MapVariables;
import cellml_api.Model;
import cellml_api.Unit;
import cellml_api.Units;
import cellml_api.VariableInterface;


public class CreateModelTest {
  
  CellMLLoader cLoader;
  public CreateModelTest(){
    cLoader = new CellMLLoader();
  }
  
  private void createCellMLModel(){
	 // Create Model
    Model m = CellMLReader.createModel(cLoader.getCellMLBootstrap(), "1.1");
    m.setName("TestModel");
    
    // Create 'second' unit
    Units units = m.createUnits();
    m.addElement(units);        
    units.setName("second");
    Unit unit = m.createUnit();
    units.addElement(unit);
    unit.setUnits("second");
    
    
    // Create a component & variable in component
    CellMLComponent comp1 = m.createComponent(); 
    m.addElement(comp1);
    comp1.setName("component1");        
    
    CellMLVariable var1 = m.createCellMLVariable();
    comp1.addElement(var1);
    var1.setName("variable1");
    var1.setUnitsElement(units);
    var1.setInitialValue("10");             
    var1.setPublicInterface(VariableInterface.INTERFACE_OUT); 
    
    // Create a second component & variable
    CellMLComponent comp2 = m.createComponent(); 
    m.addElement(comp2);
    comp2.setName("component2");          
    
    CellMLVariable var2 = m.createCellMLVariable();
    comp2.addElement(var2);
    var2.setName("variable2");
    var2.setUnitsElement(units);
    var2.setPublicInterface(VariableInterface.INTERFACE_IN);
    
    // Create connection & define the mapping
    Connection con = m.createConnection();
    m.addElement(con);
    
    MapComponents mapComp = con.getComponentMapping();      
    mapComp.setFirstComponent(comp1);
    mapComp.setSecondComponent(comp2);        
    MapVariables mapvar = m.createMapVariables();
    con.addElement(mapvar);
    mapvar.setFirstVariable(var1);
    mapvar.setSecondVariable(var2);
    
    // store the CellML file
    CellMLWriter.writeToFile(m, "./models/" + m.getName()+ ".cellml");
  }
  
  public static void main(String [] args ){
    CreateModelTest cmtest = new CreateModelTest();
    cmtest.createCellMLModel();
  }
}