/// <summary>
/// Converts a SBML UnitDefinition into a MoBi Unit.
/// </summary>
public IDimension ConvertUnit(UnitDefinition unitDefinition)
{
var sbmlUnit = unitDefinition.getId();
var dimension = _moBiDimensionFactory.TryGetDimensionCaseInsensitive(sbmlUnit);
if (dimension != Constants.Dimension.NO_DIMENSION)
{
_sbmlInformation.MobiDimension[sbmlUnit] = dimension;
return dimension;
}
var newFactor = 1.0;
var unitsList = new List<Unit>();
var brList = new List<BaseDimensionRepresentation>();
for (long i = 0; i < unitDefinition.getNumUnits(); i++)
{
var mobiUnit = SBMLBaseUnitToMoBi(unitDefinition.getUnit(i));
if (mobiUnit == null) continue;
var unitDimension = _moBiDimensionFactory.DimensionForUnit(mobiUnit.Name);
var unitBr = unitDimension.BaseRepresentation;
unitBr = SetExponents(unitDefinition, unitBr, i);
brList.Add(unitBr);
if (Math.Abs(newFactor) < 0.0001)
{
newFactor = unitDefinition.getUnit(i).getMultiplier() * Math.Pow(10, unitDefinition.getUnit(i).getScale()) * Math.Pow(mobiUnit.Factor, unitDefinition.getUnit(i).getExponent());
}
else
{
newFactor = newFactor * unitDefinition.getUnit(i).getMultiplier() * Math.Pow(10, unitDefinition.getUnit(i).getScale()) * Math.Pow(mobiUnit.Factor, unitDefinition.getUnit(i).getExponent());
}
unitsList.Add(mobiUnit);
}
var baseDimensionRepresentation = CreateBaseDimRepresentationExponents(brList);
IDimension newDim = new Dimension(baseDimensionRepresentation, String.Format("SBML_{0}",unitDefinition.getId()), String.Format("SBML_{0}_BaseUnit",unitDefinition.getId()));
var newBaseUnit = newDim.BaseUnit;
newBaseUnit.Visible = false;
var newUnit = new Unit(unitDefinition.getId(), newFactor, 0);
newDim.AddUnit(newUnit);
newDim.DefaultUnit = newUnit;
_sbmlInformation.MobiDimension[sbmlUnit] = newDim;
if (_moBiDimensionFactory.Dimensions.All(dim => dim.Name != newDim.Name))
_moBiDimensionFactory.AddDimension(newDim);
return newDim;
}
public void test_UnitDefinition_copyConstructor()
{
UnitDefinition o1 = new UnitDefinition(2, 4);
o1.setId("c");
assertTrue(o1.getId() == "c");
UnitDefinition o2 = new UnitDefinition(o1);
assertTrue(o2.getId() == "c");
assertTrue(o2.getParentSBMLObject() == o1.getParentSBMLObject());
o2 = null;
o1 = null;
}
public void test_UnitDefinition_setId1()
{
int i = UD.setId("mmls");
assertTrue(i == libsbml.LIBSBML_OPERATION_SUCCESS);
assertTrue(("mmls" == UD.getId()));
assertEquals(true, UD.isSetId());
i = UD.setId("");
assertTrue(i == libsbml.LIBSBML_OPERATION_SUCCESS);
assertEquals(false, UD.isSetId());
i = UD.setId("123");
assertTrue(i == libsbml.LIBSBML_INVALID_ATTRIBUTE_VALUE);
assertEquals(false, UD.isSetId());
}
public void test_UnitDefinition_assignmentOperator()
{
UnitDefinition o1 = new UnitDefinition(2, 4);
o1.setId("c");
assertTrue(o1.getId() == "c");
UnitDefinition o2 = new UnitDefinition(2, 4);
o2 = o1;
assertTrue(o2.getId() == "c");
assertTrue(o2.getParentSBMLObject() == o1.getParentSBMLObject());
o2 = null;
o1 = null;
}
public void test_UnitDefinition_createWithName()
{
UnitDefinition ud = new UnitDefinition(2, 4);
ud.setName("mmol_per_liter_per_sec");
assertTrue(ud.getTypeCode() == libsbml.SBML_UNIT_DEFINITION);
assertTrue(ud.getMetaId() == "");
assertTrue(ud.getNotes() == null);
assertTrue(ud.getAnnotation() == null);
assertTrue(ud.getId() == "");
assertTrue(("mmol_per_liter_per_sec" == ud.getName()));
assertEquals(true, ud.isSetName());
assertTrue(ud.getNumUnits() == 0);
ud = null;
}
public void test_SBMLConvert_convertToL3_defaultUnits()
{
SBMLDocument d = new SBMLDocument(1, 2);
Model m = d.createModel();
string sid = "C";
Compartment c = m.createCompartment();
c.setId(sid);
c.setSize(1.2);
c.setUnits("volume");
assertTrue(m.getNumUnitDefinitions() == 0);
assertTrue(d.setLevelAndVersion(3, 1, true) == true);
assertTrue(m.getNumUnitDefinitions() == 2);
UnitDefinition ud = m.getUnitDefinition(0);
assertTrue(ud != null);
assertTrue(("volume" == ud.getId()));
assertTrue(ud.getNumUnits() == 1);
Unit u = ud.getUnit(0);
assertTrue(u.getKind() == libsbml.UNIT_KIND_LITRE);
assertTrue(u.getExponent() == 1);
assertTrue(u.getMultiplier() == 1);
assertTrue(u.getScale() == 0);
ud = m.getUnitDefinition(1);
assertTrue(ud != null);
assertTrue(("area" == ud.getId()));
assertTrue(ud.getNumUnits() == 1);
u = ud.getUnit(0);
assertTrue(u.getKind() == libsbml.UNIT_KIND_METRE);
assertTrue(u.getExponent() == 2);
assertTrue(u.getMultiplier() == 1);
assertTrue(u.getScale() == 0);
assertTrue(("second" == m.getTimeUnits()));
d = null;
}
public void test_Model_getUnitDefinition()
{
UnitDefinition ud1 = new UnitDefinition(2, 4);
UnitDefinition ud2 = new UnitDefinition(2, 4);
ud1.setId("mmls");
ud2.setId("volume");
ud1.createUnit();
ud2.createUnit();
M.addUnitDefinition(ud1);
M.addUnitDefinition(ud2);
assertTrue(M.getNumUnitDefinitions() == 2);
ud1 = M.getUnitDefinition(0);
ud2 = M.getUnitDefinition(1);
assertTrue(("mmls" == ud1.getId()));
assertTrue(("volume" == ud2.getId()));
}
public void test_UnitDefinition_create()
{
assertTrue(UD.getTypeCode() == libsbml.SBML_UNIT_DEFINITION);
assertTrue(UD.getMetaId() == "");
assertTrue(UD.getNotes() == null);
assertTrue(UD.getAnnotation() == null);
assertTrue(UD.getId() == "");
assertTrue(UD.getName() == "");
assertEquals(false, UD.isSetId());
assertEquals(false, UD.isSetName());
assertTrue(UD.getNumUnits() == 0);
}
