public void response_SBSKnownDerivedAsSBase(SBase sb)
{
AllTests.test(sb.sb.Equals("SBSKnownDerived.sb"));
SBSKnownDerived sbskd = (SBSKnownDerived) sb;
AllTests.test(sbskd != null);
AllTests.test(sbskd.sbskd.Equals("SBSKnownDerived.sbskd"));
callback.called();
}
SBase getElementBySId(string id)
{
SBase ret = (SBase)libsbml.DowncastSBase(libsbmlPINVOKE.ListOfLocalParameters_getElementBySId(swigCPtr, id), false);
if (libsbmlPINVOKE.SWIGPendingException.Pending)
{
throw libsbmlPINVOKE.SWIGPendingException.Retrieve();
}
return(ret);
}
SBase getElementByMetaId(string metaid)
{
SBase ret = (SBase)libsbml.DowncastSBase(libsbmlPINVOKE.SBasePlugin_getElementByMetaId(swigCPtr, metaid), false);
if (libsbmlPINVOKE.SWIGPendingException.Pending)
{
throw libsbmlPINVOKE.SWIGPendingException.Retrieve();
}
return(ret);
}
SBase getElementBySId(string id)
{
SBase ret = (SBase)libsbml.DowncastSBase(libsbmlPINVOKE.UnitDefinition_getElementBySId(swigCPtr, id), false);
if (libsbmlPINVOKE.SWIGPendingException.Pending)
{
throw libsbmlPINVOKE.SWIGPendingException.Retrieve();
}
return(ret);
}
private static void printNotes(SBase sb)
{
string id = "";
if (sb.isSetId())
{
id = sb.getId();
}
printNotes(sb, id);
}
public void test_RDFAnnotation_C_parseCVTerms()
{
SBase obj = m.getCompartment(0);
XMLNode node = RDFAnnotationParser.parseCVTerms(obj);
assertTrue(node.getNumChildren() == 1);
XMLNode rdf = node.getChild(0);
assertTrue(("RDF" == rdf.getName()));
assertTrue(("rdf" == rdf.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == rdf.getURI()));
assertTrue(rdf.getNumChildren() == 1);
XMLNode desc = rdf.getChild(0);
assertTrue(("Description" == desc.getName()));
assertTrue(("rdf" == desc.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == desc.getURI()));
assertTrue(desc.getNumChildren() == 1);
XMLNode is1 = desc.getChild(0);
assertTrue(("is" == is1.getName()));
assertTrue(("bqbiol" == is1.getPrefix()));
assertTrue(is1.getNumChildren() == 1);
XMLNode Bag = is1.getChild(0);
assertTrue(("Bag" == Bag.getName()));
assertTrue(("rdf" == Bag.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == Bag.getURI()));
assertTrue(Bag.getNumChildren() == 4);
XMLNode li = Bag.getChild(0);
assertTrue(("li" == li.getName()));
assertTrue(("rdf" == li.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li.getURI()));
assertTrue(li.getNumChildren() == 0);
XMLNode li1 = Bag.getChild(1);
assertTrue(("li" == li1.getName()));
assertTrue(("rdf" == li1.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li1.getURI()));
assertTrue(li1.getNumChildren() == 0);
XMLNode li2 = Bag.getChild(2);
assertTrue(("li" == li2.getName()));
assertTrue(("rdf" == li2.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li2.getURI()));
assertTrue(li2.getNumChildren() == 0);
XMLNode li3 = Bag.getChild(3);
assertTrue(("li" == li3.getName()));
assertTrue(("rdf" == li3.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li3.getURI()));
assertTrue(li3.getNumChildren() == 0);
node = null;
}
private static void printAnnotation(SBase sb, string id)
{
if (!sb.isSetAnnotation())
{
return;
}
Console.Write("----- " + sb.getElementName() + " (" + id
+ ") annotation -----" + Environment.NewLine);
Console.Write(sb.getAnnotationString() + Environment.NewLine);
Console.Write(Environment.NewLine);
}
private static void printNotes(SBase sb, string id)
{
if (!sb.isSetNotes())
{
return;
}
Console.WriteLine("----- " + sb.getElementName() + " (" + id
+ ") notes -----");
Console.WriteLine(sb.getNotesString());
Console.WriteLine();
}
protected override void Read()
{
Type t = this.GetType();
FieldInfo[] infos = t.GetFields();
SBase tmp = null;
for (int i = 0; i < infos.Length; i++)
{
FieldInfo fi = infos[i];
if (fi.FieldType == typeof(SInt))
{
tmp = new SInt();
SDefAttribute ca = GetAttr(fi);
if (ca != null)
{
(tmp as SInt).Def = ca.intv;
}
}
else if (fi.FieldType == typeof(SFloat))
{
tmp = new SFloat();
SDefAttribute ca = GetAttr(fi);
if (ca != null)
{
(tmp as SFloat).Def = ca.floatv;
}
}
else if (fi.FieldType == typeof(SString))
{
tmp = new SString();
SDefAttribute ca = GetAttr(fi);
if (ca != null)
{
(tmp as SString).Def = ca.stringv;
}
}
else if (IsBaseType(fi.FieldType, typeof(SBase)))
{
tmp = Activator.CreateInstance(fi.FieldType) as SBase;
}
else
{
Debug.LogError(string.Format("{0} no suppot!", fi.Name));
continue;
}
tmp.Init(sb, string.Format(ConnctFormat, key, fi.Name));
fi.SetValue(this, tmp);
}
}
public override void Delete()
{
Type t = this.GetType();
FieldInfo[] infos = t.GetFields();
for (int i = 0; i < infos.Length; i++)
{
FieldInfo fi = infos[i];
if (IsBaseType(fi.FieldType, typeof(SBase)))
{
SBase v = fi.GetValue(this) as SBase;
v.Delete();
}
}
}
public void test_GetMultipleObjects_getId()
{
SBMLReader reader = new SBMLReader();
SBMLDocument d;
string filename = "../../sbml/test/test-data/";
filename += "multiple-ids.xml";
d = reader.readSBML(filename);
if (d == null)
{
;
}
{
}
SBase obj = d.getElementBySId("no_id");
assertTrue(obj == null);
obj = d.getElementBySId("");
assertTrue(obj == null);
obj = d.getElementBySId("find_id");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_MODEL);
obj = d.getElementBySId("func1");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_FUNCTION_DEFINITION);
obj = d.getElementBySId("comp");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_COMPARTMENT);
obj = d.getElementBySId("b");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_SPECIES);
obj = d.getElementBySId("x");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_PARAMETER);
obj = d.getElementBySId("J0");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_REACTION);
obj = d.getElementBySId("E0");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_EVENT);
d = null;
}
/**
* Returns a list of all ids from the given list of elements
*/
public static List <string> getAllIds(SBaseList allElements)
{
var result = new List <string>();
if (allElements == null || allElements.getSize() == 0)
{
return(result);
}
for (uint i = 0; i < allElements.getSize(); ++i)
{
SBase current = allElements.get(i);
if (current.isSetId() && current.getTypeCode() != libsbml.SBML_LOCAL_PARAMETER)
{
result.Add(current.getId());
}
}
return(result);
}
/// <summary>
/// The function performing the filtering, here we just check
/// that we have a valid element, and that it has notes.
/// </summary>
/// <param name="element">the current element</param>
/// <returns><b>true</b> if element is to be included, <b>false</b> otherwise</returns>
public override bool filter(SBase element)
{
// return in case we don't have a valid element
if (element == null || !element.isSetNotes())
{
return(false);
}
// otherwise we have notes set and want to keep the element
if (!element.isSetId())
{
Console.WriteLine(" found : {0}", element.getId());
}
else
{
Console.WriteLine(" found element without id");
}
return(true);
}
static void Main()
{
#region Definations
IBase _SBase = new SBase();
ICommand _SCommand = new SCommand(_SBase);
ILocation _SLocation = new SLocation(_SCommand);
IRover _SRover = new SRover(_SCommand, _SBase, _SLocation);
IPlateau _SPlateau = new SPlateau();
#endregion
#region Test Input One
Plateau plateau = _SPlateau.createPlateau(5, 5);
Dictionary <Rover, bool> firstRover = _SRover.setRoverLocation(plateau, 1, 2, enumMainDirections.N);
if (firstRover.FirstOrDefault().Value)
{
Dictionary <Rover, bool> firstRoverResponse = _SRover.updateRoverLocation(plateau, firstRover.FirstOrDefault().Key, "LMLMLMLMM");
_SLocation.roverResultLocation(firstRoverResponse);
}
else
{
_SCommand.printInvalidLocationOrDirection();
}
#endregion
#region Test Input Two
Dictionary <Rover, bool> secondRover = _SRover.setRoverLocation(plateau, 3, 3, enumMainDirections.E);
if (firstRover.FirstOrDefault().Value)
{
Dictionary <Rover, bool> secondRoverResponse = _SRover.updateRoverLocation(plateau, secondRover.FirstOrDefault().Key, "MMRMMRMRRM");
_SLocation.roverResultLocation(secondRoverResponse);
}
else
{
_SCommand.printInvalidLocationOrDirection();
}
#endregion
Console.ReadLine();
}
public void test_GetMultipleObjects_noUnits()
{
SBMLReader reader = new SBMLReader();
SBMLDocument d;
string filename = "../../sbml/test/test-data/";
filename += "multiple-ids.xml";
d = reader.readSBML(filename);
if (d == null)
{
;
}
{
}
SBase obj = d.getElementBySId("volume");
assertTrue(obj == null);
obj = d.getElementByMetaId("meta30");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_UNIT_DEFINITION);
d = null;
}
public void test_GetMultipleObjects_noAssignments()
{
SBMLReader reader = new SBMLReader();
SBMLDocument d;
string filename = "../../sbml/test/test-data/";
filename += "assignments-invalid.xml";
d = reader.readSBML(filename);
if (d.getModel() == null)
{
;
}
{
}
SBase obj = d.getElementBySId("ia");
assertTrue(obj == null);
obj = d.getElementByMetaId("ia_meta");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_INITIAL_ASSIGNMENT);
obj = d.getElementBySId("ar");
assertTrue(obj == null);
obj = d.getElementByMetaId("ar_meta");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_ASSIGNMENT_RULE);
obj = d.getElementBySId("rr");
assertTrue(obj == null);
obj = d.getElementByMetaId("rr_meta");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_RATE_RULE);
obj = d.getElementBySId("ea");
assertTrue(obj == null);
obj = d.getElementByMetaId("ea_meta");
assertTrue(obj != null);
assertTrue(obj.getTypeCode() == libsbml.SBML_EVENT_ASSIGNMENT);
d = null;
}
int append(SBase item)
{
int ret = libsbmlPINVOKE.ListOf_append(swigCPtr, SBase.getCPtr(item));
return(ret);
}
int appendAndOwn(SBase disownedItem)
{
int ret = libsbmlPINVOKE.ListOf_appendAndOwn(swigCPtr, SBase.getCPtrAndDisown(disownedItem));
return(ret);
}
bool isValidTypeForList(SBase item)
{
bool ret = libsbmlPINVOKE.SBasePlugin_isValidTypeForList(swigCPtr, SBase.getCPtrAndDisown(item));
return(ret);
}
bool filter(SBase element)
{
bool ret = (SwigDerivedClassHasMethod("filter", swigMethodTypes0) ? libsbmlPINVOKE.ElementFilter_filterSwigExplicitElementFilter(swigCPtr, SBase.getCPtr(element)) : libsbmlPINVOKE.ElementFilter_filter(swigCPtr, SBase.getCPtr(element)));
return(ret);
}
void connectToParent(SBase sbase)
{
libsbmlPINVOKE.SBasePlugin_connectToParent(swigCPtr, SBase.getCPtr(sbase));
}
SBase getParentSBMLObject()
{
SBase ret = (SBase)libsbml.DowncastSBase(libsbmlPINVOKE.SBasePlugin_getParentSBMLObject__SWIG_0(swigCPtr), false);
return(ret);
}
SBase get(long n)
{
SBase ret = (SBase)libsbml.DowncastSBase(libsbmlPINVOKE.ListOf_get__SWIG_0(swigCPtr, n), false);
return(ret);
}
public override SBase SBaseAsSBase(Ice.Current current)
{
SBase sb = new SBase();
sb.sb = "SBase.sb";
return sb;
}
int insert(int location, SBase item)
{
int ret = libsbmlPINVOKE.ListOf_insert(swigCPtr, location, SBase.getCPtr(item));
return(ret);
}
public void response_SBSUnknownDerivedAsSBase(SBase sb)
{
AllTests.test(sb.sb.Equals("SBSUnknownDerived.sb"));
callback.called();
}
public override void SBaseAsSBase_async(AMD_TestIntf_SBaseAsSBase cb, Ice.Current current)
{
SBase sb = new SBase();
sb.sb = "SBase.sb";
cb.ice_response(sb);
}
SBase getElementBySId(string id)
{
SBase ret = (SBase)libsbml.DowncastSBase(libsbmlPINVOKE.ListOfRules_getElementBySId(swigCPtr, id), false);
return(ret);
}
public void response_SBSUnknownDerivedAsSBaseCompact(SBase sb)
{
AllTests.test(false);
}
int insertAndOwn(int location, SBase disownedItem)
{
int ret = libsbmlPINVOKE.ListOf_insertAndOwn(swigCPtr, location, SBase.getCPtrAndDisown(disownedItem));
return(ret);
}
SBase getParentSBMLObject()
{
SBase ret = (SBase)libsbml.DowncastSBase(libsbmlPINVOKE.ASTBase_getParentSBMLObject(swigCPtr), false);
return(ret);
}
SBase remove(long n)
{
SBase ret = (SBase)libsbml.DowncastSBase(libsbmlPINVOKE.ListOf_remove(swigCPtr, n), true);
return(ret);
}
public override Ice.Object SBaseAsObject(Ice.Current current)
{
SBase sb = new SBase();
sb.sb = "SBase.sb";
return sb;
}
SBase getElementByMetaId(string metaid)
{
SBase ret = (SBase)libsbml.DowncastSBase(libsbmlPINVOKE.KineticLaw_getElementByMetaId(swigCPtr, metaid), false);
return(ret);
}
static void testListOfRemove(ListOf lof, SBase s)
{
string ename = s.getElementName();
lof.append(s);
SBase c = lof.get(0);
if (c is CompartmentType)
{
CompartmentType x = (lof as ListOfCompartmentTypes).remove(0); c = x;
}
else if (c is Compartment)
{
Compartment x = (lof as ListOfCompartments).remove(0); c = x;
}
else if (c is Constraint)
{
Constraint x = (lof as ListOfConstraints).remove(0); c = x;
}
else if (c is EventAssignment)
{
EventAssignment x = (lof as ListOfEventAssignments).remove(0); c = x;
}
else if (c is Event)
{
Event x = (lof as ListOfEvents).remove(0); c = x;
}
else if (c is FunctionDefinition)
{
FunctionDefinition x = (lof as ListOfFunctionDefinitions).remove(0); c = x;
}
else if (c is InitialAssignment)
{
InitialAssignment x = (lof as ListOfInitialAssignments).remove(0); c = x;
}
else if (c is Parameter)
{
Parameter x = (lof as ListOfParameters).remove(0); c = x;
}
else if (c is Reaction)
{
Reaction x = (lof as ListOfReactions).remove(0); c = x;
}
else if (c is Rule)
{
Rule x = (lof as ListOfRules).remove(0); c = x;
}
else if (c is Species)
{
Species x = (lof as ListOfSpecies).remove(0); c = x;
}
else if (c is SpeciesReference)
{
SimpleSpeciesReference x = (lof as ListOfSpeciesReferences).remove(0); c = x;
}
else if (c is SpeciesType)
{
SpeciesType x = (lof as ListOfSpeciesTypes).remove(0); c = x;
}
else if (c is UnitDefinition)
{
UnitDefinition x = (lof as ListOfUnitDefinitions).remove(0); c = x;
}
else if (c is Unit)
{
Unit x = (lof as ListOfUnits).remove(0); c = x;
}
else
{
ERR("[testListOfRemove] Error: (" + ename + ") : ListOfXXX::remove() failed.");
return;
}
if (c == null)
{
ERR("[testListOfRemove] Error: (" + ename + ") : ListOfXXX::remove() failed.");
return;
}
string enameGet = c.getElementName();
if (ename == enameGet)
{
//Console.Out.WriteLine("[testListOfRemove] OK: (" + ename + ") remove(" + enameGet + ") : type match.");
OK();
}
else
{
ERR("[testListOfRemove] Error: (" + ename + ") remove(" + enameGet + ") : type mismatch.");
}
}
public void prepend(SBase item)
{
libsbmlPINVOKE.SBaseList_prepend(swigCPtr, SBase.getCPtr(item));
}
public void response_SBaseAsSBase(SBase sb)
{
AllTests.test(sb.sb.Equals("SBase.sb"));
callback.called();
}
