public void setUp()
{
C = new Species(1,2);
if (C == null);
{
}
}
public void test_ListOf_clear()
{
ListOf lo = new ListOf(2,4);
SBase sp = new Species(2,4);
lo.append(sp);
lo.append(sp);
lo.append(sp);
lo.append(sp);
lo.append(sp);
assertTrue( lo.size() == 5 );
lo.clear(true);
assertTrue( lo.size() == 0 );
lo.append(sp);
lo.append(sp);
lo.append(sp);
lo.append(sp);
lo.appendAndOwn(sp);
assertTrue( lo.size() == 5 );
SBase elem;
elem = lo.get(0);
elem = null;
elem = lo.get(1);
elem = null;
elem = lo.get(2);
elem = null;
elem = lo.get(3);
elem = null;
elem = lo.get(4);
elem = null;
lo.clear(false);
assertTrue( lo.size() == 0 );
lo = null;
}
public void setUp()
{
S = new Species(3,1);
if (S == null);
{
}
}
public void test_Species_setCharge2()
{
Species c = new Species(2,2);
int i = c.setCharge(4);
assertTrue( i == libsbml.LIBSBML_UNEXPECTED_ATTRIBUTE );
assertEquals( false, c.isSetCharge() );
c = null;
}
public void test_ListOf_append()
{
Model m = new Model(2,4);
m.createCompartment();
ListOf loc = m.getListOfCompartments();
assertTrue( loc.size() == 1 );
SBase c = new Compartment(2,4);
int i = loc.append(c);
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertTrue( loc.size() == 2 );
SBase sp = new Species(2,4);
i = loc.append(sp);
assertTrue( i == libsbml.LIBSBML_INVALID_OBJECT );
assertTrue( loc.size() == 2 );
m = null;
sp = null;
}
public void test_Model_addSpecies3()
{
Model m = new Model(2,2);
Species s = new Species(1,2);
s.setId( "s");
s.setCompartment( "c");
s.setInitialAmount(2);
int i = m.addSpecies(s);
assertTrue( i == libsbml.LIBSBML_LEVEL_MISMATCH );
assertTrue( m.getNumSpecies() == 0 );
s = null;
m = null;
}
public void test_Model_addSpecies2()
{
Model m = new Model(2,2);
Species s = new Species(2,1);
s.setId( "s");
s.setCompartment( "c");
int i = m.addSpecies(s);
assertTrue( i == libsbml.LIBSBML_VERSION_MISMATCH );
assertTrue( m.getNumSpecies() == 0 );
s = null;
m = null;
}
/**
* Copy constructor; creates a copy of this Species object.
*
* @param orig the object to copy.
*
* @throws @if python ValueError @else SBMLConstructorException @endif
* Thrown if the argument @p orig is @c null.
*/
public Species(Species orig)
: this(libsbmlPINVOKE.new_Species__SWIG_2(Species.getCPtr(orig)), true)
{
if (libsbmlPINVOKE.SWIGPendingException.Pending) throw libsbmlPINVOKE.SWIGPendingException.Retrieve();
}
internal static HandleRef getCPtrAndDisown(Species obj)
{
HandleRef ptr = new HandleRef(null, IntPtr.Zero);
if (obj != null)
{
ptr = obj.swigCPtr;
obj.swigCMemOwn = false;
}
return ptr;
}
public void test_Species_setName2()
{
Species c = new Species(2,2);
int i = c.setName( "1cell");
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertEquals( true, c.isSetName() );
i = c.unsetName();
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertEquals( false, c.isSetName() );
c = null;
}
public void test_Species_parent_add()
{
Species ia = new Species(2,4);
ia.setId("s");
ia.setCompartment("c");
Model m = new Model(2,4);
m.addSpecies(ia);
ia = null;
ListOf lo = m.getListOfSpecies();
assertTrue( lo == m.getSpecies(0).getParentSBMLObject() );
assertTrue( m == lo.getParentSBMLObject() );
}
public void test_SBase_setModelHistory()
{
SBase sb = new Species(2,4);
ModelHistory mh = new ModelHistory();
int i = sb.setModelHistory(mh);
assertTrue( i == libsbml.LIBSBML_UNEXPECTED_ATTRIBUTE );
mh = null;
}
public void tearDown()
{
C = null;
}
public void test_Species_setHasOnlySubstanceUnits2()
{
Species c = new Species(2,2);
int i = c.setHasOnlySubstanceUnits(false);
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertTrue( c.getHasOnlySubstanceUnits() == false );
i = c.setHasOnlySubstanceUnits(true);
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertTrue( c.getHasOnlySubstanceUnits() == true );
c = null;
}
public void test_Species_setSubstanceUnits4()
{
Species c = new Species(2,2);
int i = c.setSubstanceUnits( "mole");
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertTrue(( "mole" == c.getSubstanceUnits() ));
assertEquals( true, c.isSetSubstanceUnits() );
i = c.setSubstanceUnits("");
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertEquals( false, c.isSetSubstanceUnits() );
c = null;
}
public void test_Species_setSubstanceUnits2()
{
Species c = new Species(2,2);
int i = c.setSubstanceUnits( "1cell");
assertTrue( i == libsbml.LIBSBML_INVALID_ATTRIBUTE_VALUE );
assertEquals( false, c.isSetSubstanceUnits() );
c = null;
}
public void test_Species_setSpeciesType4()
{
Species c = new Species(2,2);
int i = c.setSpeciesType( "cell");
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertEquals( true, c.isSetSpeciesType() );
assertTrue(( "cell" == c.getSpeciesType() ));
i = c.setSpeciesType("");
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertEquals( false, c.isSetSpeciesType() );
c = null;
}
public void test_Species_setSpeciesType2()
{
Species c = new Species(2,2);
int i = c.setSpeciesType( "1cell");
assertTrue( i == libsbml.LIBSBML_INVALID_ATTRIBUTE_VALUE );
assertEquals( false, c.isSetSpeciesType() );
i = c.unsetSpeciesType();
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertEquals( false, c.isSetSpeciesType() );
c = null;
}
public void test_Species_setSpatialSizeUnits4()
{
Species c = new Species(2,2);
int i = c.setSpatialSizeUnits("");
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertEquals( false, c.isSetSpatialSizeUnits() );
c = null;
}
public void test_Model_addSpecies5()
{
Model m = new Model(2,2);
Species s = new Species(2,2);
s.setId( "s");
s.setCompartment( "c");
Species s1 = new Species(2,2);
s1.setId( "s");
s1.setCompartment( "c");
int i = m.addSpecies(s);
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertTrue( m.getNumSpecies() == 1 );
i = m.addSpecies(s1);
assertTrue( i == libsbml.LIBSBML_DUPLICATE_OBJECT_ID );
assertTrue( m.getNumSpecies() == 1 );
s = null;
s1 = null;
m = null;
}
public void test_Species_ancestor_add()
{
Species ia = new Species(2,4);
Model m = new Model(2,4);
ia.setId("s");
ia.setCompartment("c");
m.addSpecies(ia);
ia = null;
ListOf lo = m.getListOfSpecies();
Species obj = m.getSpecies(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_SBMLConvert_convertToL1_Species_Concentration()
{
SBMLDocument d = new SBMLDocument(2,1);
Model m = d.createModel();
string sid = "C";
Compartment c = new Compartment(2,1);
Species s = new Species(2,1);
c.setId(sid);
c.setSize(1.2);
m.addCompartment(c);
s.setId( "s" );
s.setCompartment(sid);
s.setInitialConcentration(2.34);
m.addSpecies(s);
assertTrue( d.setLevelAndVersion(1,2,true) == true );
Species s1 = m.getSpecies(0);
assertTrue( s1 != null );
assertTrue(( "C" == s1.getCompartment() ));
assertTrue( m.getCompartment( "C").getSize() == 1.2 );
assertTrue( s1.getInitialConcentration() == 2.34 );
assertTrue( s1.isSetInitialConcentration() == true );
d = null;
}
public void test_SBase_setModelHistoryL3()
{
SBase sb = new Species(3,1);
sb.setMetaId("_s");
ModelHistory mh = new ModelHistory();
ModelCreator mc = new ModelCreator();
Date date = new Date(2005,12,30,12,15,45,1,2,0);
mc.setFamilyName( "Keating");
mc.setGivenName( "Sarah");
mc.setEmail( "*****@*****.**");
mc.setOrganisation( "UH");
mh.addCreator(mc);
mh.setCreatedDate(date);
mh.setModifiedDate(date);
int i = sb.setModelHistory(mh);
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertTrue( sb.isSetModelHistory() == true );
mh = sb.getModelHistory();
assertTrue( mh != null );
sb.unsetModelHistory();
mh = sb.getModelHistory();
assertTrue( sb.isSetModelHistory() == false );
assertTrue( mh == null );
mh = null;
}
public void test_Species()
{
Species s = new Species(2,4);
assertEquals( true, s.hasRequiredElements() );
s = null;
}
public void test_SBMLConvert_convertToL1_Species_Amount()
{
SBMLDocument d = new SBMLDocument(2,4);
Model m = d.createModel();
string sid = "C";
Compartment c = new Compartment(2,4);
Species s = new Species(2,4);
c.setId(sid);
m.addCompartment(c);
s.setCompartment(sid);
s.setInitialAmount(2.34);
m.addSpecies(s);
assertTrue( d.setLevelAndVersion(1,2,true) == true );
assertTrue( s.getInitialAmount() == 2.34 );
d = null;
}
public void test_Species_setInitialConcentration2()
{
Species c = new Species(2,2);
int i = c.setInitialConcentration(4);
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertTrue( c.getInitialConcentration() == 4 );
assertEquals( true, c.isSetInitialConcentration() );
i = c.unsetInitialConcentration();
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertEquals( false, c.isSetInitialConcentration() );
c = null;
}
/**
* Adds a copy of the given Species object to this Model.
*
* @param s the Species object to add
*
*
* @return integer value indicating success/failure of the
* function. @if clike The value is drawn from the
* enumeration #OperationReturnValues_t. @endif The possible values
* returned by this function are:
* @li @link libsbml#LIBSBML_OPERATION_SUCCESS LIBSBML_OPERATION_SUCCESS@endlink
* @li @link libsbml#LIBSBML_LEVEL_MISMATCH LIBSBML_LEVEL_MISMATCH@endlink
* @li @link libsbml#LIBSBML_VERSION_MISMATCH LIBSBML_VERSION_MISMATCH@endlink
* @li @link libsbml#LIBSBML_DUPLICATE_OBJECT_ID LIBSBML_DUPLICATE_OBJECT_ID@endlink
* @li @link libsbml#LIBSBML_INVALID_OBJECT LIBSBML_INVALID_OBJECT@endlink
* @li @link libsbml#LIBSBML_OPERATION_FAILED LIBSBML_OPERATION_FAILED@endlink
*
*
* @note This method should be used with some caution. The fact that this
* method @em copies the object passed to it means that the caller will be
* left holding a physically different object instance than the one contained
* inside this object. Changes made to the original object instance (such as
* resetting attribute values) will <em>not affect the instance in this
* object</em>. In addition, the caller should make sure to free the
* original object if it is no longer being used, or else a memory leak will
* result. Please see other methods on this class (particularly a
* corresponding method whose name begins with the word <code>create</code>)
* for alternatives that do not lead to these issues.
*
*
*
* @see createSpecies()
*/
public int addSpecies(Species s)
{
int ret = libsbmlPINVOKE.Model_addSpecies(swigCPtr, Species.getCPtr(s));
return ret;
}
public void test_Species_setCharge3()
{
Species c = new Species(2,1);
int i = c.unsetCharge();
assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS );
assertEquals( false, c.isSetCharge() );
c = null;
}
public void test_Species_constructor()
{
SBase s;
try
{
s = new Species(1,1);
s = new Species(1,2);
s = new Species(2,1);
s = new Species(2,2);
s = new Species(2,3);
s = new Species(2,4);
s = new Species(3,1);
s = new Species(SN11);
s = new Species(SN12);
s = new Species(SN21);
s = new Species(SN22);
s = new Species(SN23);
s = new Species(SN24);
s = new Species(SN31);
}
catch (SBMLConstructorException e)
{
s = null;
}
assertTrue(s != null);
string msg = "";
try
{
s = new Species(9,9);
}
catch (SBMLConstructorException e)
{
msg = e.Message;
}
assertTrue(msg == ErrMsg);
msg = "";
try
{
s = new Species(SN99);
}
catch (SBMLConstructorException e)
{
msg = e.Message;
}
assertTrue(msg == ErrMsg);
}
internal static HandleRef getCPtr(Species obj)
{
return (obj == null) ? new HandleRef(null, IntPtr.Zero) : obj.swigCPtr;
}