public void setUp()
{
M = new Model(2,4);
if (M == null);
{
}
}
public void setUp()
{
string filename = "../../annotation/test/test-data/annotationL3.xml";
d = libsbml.readSBML(filename);
m = d.getModel();
c = m.getCompartment(0);
}
public void test_CompartmentType_parent_create()
{
Model m = new Model(2,4);
CompartmentType ct = m.createCompartmentType();
ListOf lo = m.getListOfCompartmentTypes();
assertTrue( lo == m.getCompartmentType(0).getParentSBMLObject() );
assertTrue( lo == ct.getParentSBMLObject() );
assertTrue( m == lo.getParentSBMLObject() );
}
public void test_AssignmentRule_parent_create()
{
Model m = new Model(2,4);
AssignmentRule r = m.createAssignmentRule();
ListOf lo = m.getListOfRules();
assertTrue( lo == m.getRule(0).getParentSBMLObject() );
assertTrue( lo == r.getParentSBMLObject() );
assertTrue( m == lo.getParentSBMLObject() );
}
public void test_SBMLDocument_setLevelAndVersion()
{
SBMLDocument d = new SBMLDocument(2,2);
Model m1 = new Model(2,2);
d.setModel(m1);
assertTrue( d.setLevelAndVersion(2,3,false) == true );
assertTrue( d.setLevelAndVersion(2,1,false) == true );
assertTrue( d.setLevelAndVersion(1,2,false) == true );
assertTrue( d.setLevelAndVersion(1,1,false) == false );
d = null;
}
public void test_CompartmentType_parent_add()
{
CompartmentType ct = new CompartmentType(2,4);
Model m = new Model(2,4);
ct.setId("ct");
m.addCompartmentType(ct);
ct = null;
ListOf lo = m.getListOfCompartmentTypes();
assertTrue( lo == m.getCompartmentType(0).getParentSBMLObject() );
assertTrue( m == lo.getParentSBMLObject() );
}
public void test_Model_addCompartment2()
{
Model m = new Model(2,2);
Compartment c = new Compartment(2,1);
c.setId( "c");
int i = m.addCompartment(c);
assertTrue( i == libsbml.LIBSBML_VERSION_MISMATCH );
assertTrue( m.getNumCompartments() == 0 );
c = null;
m = null;
}
public void test_Model_addCompartment1()
{
Model m = new Model(2,2);
Compartment c = new Compartment(2,2);
int i = m.addCompartment(c);
assertTrue( i == libsbml.LIBSBML_INVALID_OBJECT );
c.setId( "c");
i = m.addCompartment(c);
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertTrue( m.getNumCompartments() == 1 );
c = null;
m = null;
}
public void test_CompartmentType_ancestor_add()
{
CompartmentType ct = new CompartmentType(2,4);
Model m = new Model(2,4);
ct.setId("ct");
m.addCompartmentType(ct);
ct = null;
ListOf lo = m.getListOfCompartmentTypes();
CompartmentType obj = m.getCompartmentType(0);
assertTrue( obj.getAncestorOfType(libsbml.SBML_MODEL) == m );
assertTrue( obj.getAncestorOfType(libsbml.SBML_LIST_OF) == lo );
assertTrue( obj.getAncestorOfType(libsbml.SBML_DOCUMENT) == null );
assertTrue( obj.getAncestorOfType(libsbml.SBML_EVENT) == null );
}
public void test_AssignmentRule_ancestor_create()
{
Model m = new Model(2,4);
AssignmentRule r = m.createAssignmentRule();
ListOf lo = m.getListOfRules();
assertTrue( r.getAncestorOfType(libsbml.SBML_MODEL) == m );
assertTrue( r.getAncestorOfType(libsbml.SBML_LIST_OF) == lo );
assertTrue( r.getAncestorOfType(libsbml.SBML_DOCUMENT) == null );
assertTrue( r.getAncestorOfType(libsbml.SBML_EVENT) == null );
Rule obj = m.getRule(0);
assertTrue( obj.getAncestorOfType(libsbml.SBML_MODEL) == m );
assertTrue( obj.getAncestorOfType(libsbml.SBML_LIST_OF) == lo );
assertTrue( obj.getAncestorOfType(libsbml.SBML_DOCUMENT) == null );
assertTrue( obj.getAncestorOfType(libsbml.SBML_EVENT) == null );
}
public void test_Model_createReactant()
{
Model m = new Model(2,2);
Reaction p = m.createReaction();
SpeciesReference sr = m.createReactant();
assertTrue( p.getNumReactants() == 1 );
assertTrue( (sr).getLevel() == 2 );
assertTrue( (sr).getVersion() == 2 );
m = null;
}
public void test_Model_createKineticLawParameters()
{
Model m = new Model(2,2);
Reaction r = m.createReaction();
KineticLaw kl = m.createKineticLaw();
Parameter p = m.createKineticLawParameter();
assertTrue( r.isSetKineticLaw() == true );
assertTrue( kl.getNumParameters() == 1 );
assertTrue( (p).getLevel() == 2 );
assertTrue( (p).getVersion() == 2 );
m = null;
}
public void test_Model_createParameter()
{
Model m = new Model(2,2);
Parameter p = m.createParameter();
assertTrue( m.getNumParameters() == 1 );
assertTrue( (p).getLevel() == 2 );
assertTrue( (p).getVersion() == 2 );
m = null;
}
public void test_Model_createInitialAssignment()
{
Model m = new Model(2,2);
InitialAssignment p = m.createInitialAssignment();
assertTrue( m.getNumInitialAssignments() == 1 );
assertTrue( (p).getLevel() == 2 );
assertTrue( (p).getVersion() == 2 );
m = null;
}
public void test_Model_createKineticLaw()
{
Model m = new Model(2,2);
Reaction p = m.createReaction();
KineticLaw kl = m.createKineticLaw();
assertTrue( p.isSetKineticLaw() == true );
assertTrue( (kl).getLevel() == 2 );
assertTrue( (kl).getVersion() == 2 );
m = null;
}
public void test_Model_createConstraint()
{
Model m = new Model(2,2);
Constraint p = m.createConstraint();
assertTrue( m.getNumConstraints() == 1 );
assertTrue( (p).getLevel() == 2 );
assertTrue( (p).getVersion() == 2 );
m = null;
}
public void test_Model_createEventAssignment()
{
Model m = new Model(2,2);
Event p = m.createEvent();
EventAssignment ea = m.createEventAssignment();
assertTrue( p.getNumEventAssignments() == 1 );
assertTrue( (ea).getLevel() == 2 );
assertTrue( (ea).getVersion() == 2 );
m = null;
}
public void test_Model_addSpeciesType2()
{
Model m = new Model(2,2);
SpeciesType st = new SpeciesType(2,3);
st.setId( "st");
int i = m.addSpeciesType(st);
assertTrue( i == libsbml.LIBSBML_VERSION_MISMATCH );
assertTrue( m.getNumSpeciesTypes() == 0 );
st = null;
m = null;
}
public void test_Model_createCompartmentType()
{
Model m = new Model(2,2);
CompartmentType p = m.createCompartmentType();
assertTrue( m.getNumCompartmentTypes() == 1 );
assertTrue( (p).getLevel() == 2 );
assertTrue( (p).getVersion() == 2 );
m = null;
}
public void test_SBase_setNotes()
{
SBase c = new Model(1,2);
XMLToken token;
XMLNode node;
token = new XMLToken("This is a test note");
node = new XMLNode(token);
c.setNotes(node);
assertTrue( c.isSetNotes() == true );
if (c.getNotes() == node);
{
}
XMLNode t1 = c.getNotes();
assertTrue( t1.getNumChildren() == 1 );
assertTrue(( "This is a test note" == t1.getChild(0).getCharacters() ));
c.setNotes(c.getNotes());
t1 = c.getNotes();
assertTrue( t1.getNumChildren() == 1 );
string chars = t1.getChild(0).getCharacters();
assertTrue(( "This is a test note" == chars ));
c.setNotes((XMLNode)null);
assertTrue( c.isSetNotes() == false );
if (c.getNotes() != null);
{
}
c.setNotes(node);
assertTrue( c.isSetNotes() == true );
token = new XMLToken("(CR) ¨ ¨ ¨ (NOT CR) &#; &#x; �a8; ¨ ¨");
node = new XMLNode(token);
c.setNotes(node);
t1 = c.getNotes();
assertTrue( t1.getNumChildren() == 1 );
string s = t1.getChild(0).toXMLString();
string expected = "(CR) ¨ ¨ ¨ (NOT CR) &#; &#x; &#00a8; &#0168 &#x00a8";
assertTrue(( expected == s ));
token = new XMLToken("& ' > < \" & ' > < "");
node = new XMLNode(token);
c.setNotes(node);
t1 = c.getNotes();
assertTrue( t1.getNumChildren() == 1 );
string s2 = t1.getChild(0).toXMLString();
string expected2 = "& ' > < " & ' > < "";
assertTrue(( expected2 == s2 ));
token = null;
node = null;
}
public void test_Model_createUnitDefinition()
{
Model m = new Model(2,2);
UnitDefinition p = m.createUnitDefinition();
assertTrue( m.getNumUnitDefinitions() == 1 );
assertTrue( (p).getLevel() == 2 );
assertTrue( (p).getVersion() == 2 );
m = null;
}
public void test_Model_createRule()
{
Model m = new Model(2,2);
Rule p = m.createAssignmentRule();
assertTrue( m.getNumRules() == 1 );
assertTrue( (p).getLevel() == 2 );
assertTrue( (p).getVersion() == 2 );
m = null;
}
public void test_Model_addSpeciesType4()
{
Model m = new Model(2,2);
SpeciesType st = new SpeciesType(2,2);
st.setId( "st");
SpeciesType st1 = new SpeciesType(2,2);
st1.setId( "st");
int i = m.addSpeciesType(st);
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertTrue( m.getNumSpeciesTypes() == 1 );
i = m.addSpeciesType(st1);
assertTrue( i == libsbml.LIBSBML_DUPLICATE_OBJECT_ID );
assertTrue( m.getNumSpeciesTypes() == 1 );
st = null;
st1 = null;
m = null;
}
public void test_Model_addSpeciesType3()
{
Model m = new Model(2,2);
SpeciesType st = null;
int i = m.addSpeciesType(st);
assertTrue( i == libsbml.LIBSBML_OPERATION_FAILED );
assertTrue( m.getNumSpeciesTypes() == 0 );
m = null;
}
public void test_Model_createSpeciesType()
{
Model m = new Model(2,2);
SpeciesType p = m.createSpeciesType();
assertTrue( m.getNumSpeciesTypes() == 1 );
assertTrue( (p).getLevel() == 2 );
assertTrue( (p).getVersion() == 2 );
m = null;
}
public void test_Model_addUnitDefinition3()
{
Model m = new Model(2,2);
UnitDefinition ud = new UnitDefinition(1,2);
ud.createUnit();
ud.setId( "ud");
int i = m.addUnitDefinition(ud);
assertTrue( i == libsbml.LIBSBML_LEVEL_MISMATCH );
assertTrue( m.getNumUnitDefinitions() == 0 );
ud = null;
m = null;
}
public void setUp()
{
string filename = "../../annotation/test/test-data/annotation2.xml";
d2 = libsbml.readSBML(filename);
m2 = d2.getModel();
}
public void test_Model_addUnitDefinition4()
{
Model m = new Model(2,2);
UnitDefinition ud = null;
int i = m.addUnitDefinition(ud);
assertTrue( i == libsbml.LIBSBML_OPERATION_FAILED );
assertTrue( m.getNumUnitDefinitions() == 0 );
m = null;
}
public void test_SBase_setNotesString()
{
SBase c = new Model(1,2);
string notes = "This is a test note";
string taggednotes = "<notes>This is a test note</notes>";
c.setNotes(notes);
assertTrue( c.isSetNotes() == true );
if (( taggednotes != c.getNotesString() ));
{
}
XMLNode t1 = c.getNotes();
assertTrue( t1.getNumChildren() == 1 );
XMLNode t2 = t1.getChild(0);
assertTrue(( "This is a test note" == t2.getCharacters() ));
c.setNotes(c.getNotesString());
t1 = c.getNotes();
assertTrue( t1.getNumChildren() == 1 );
string chars = c.getNotesString();
assertTrue(( taggednotes == chars ));
c.setNotes( "");
assertTrue( c.isSetNotes() == false );
if (c.getNotesString() != null);
{
}
c.setNotes(taggednotes);
assertTrue( c.isSetNotes() == true );
if (( taggednotes != c.getNotesString() ));
{
}
t1 = c.getNotes();
assertTrue( t1.getNumChildren() == 1 );
t2 = t1.getChild(0);
assertTrue(( "This is a test note" == t2.getCharacters() ));
}
public void test_Model_addUnitDefinition5()
{
Model m = new Model(2,2);
UnitDefinition ud = new UnitDefinition(2,2);
ud.setId( "ud");
ud.createUnit();
UnitDefinition ud1 = new UnitDefinition(2,2);
ud1.setId( "ud");
ud1.createUnit();
int i = m.addUnitDefinition(ud);
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertTrue( m.getNumUnitDefinitions() == 1 );
i = m.addUnitDefinition(ud1);
assertTrue( i == libsbml.LIBSBML_DUPLICATE_OBJECT_ID );
assertTrue( m.getNumUnitDefinitions() == 1 );
ud = null;
ud1 = null;
m = null;
}
