public static void Main(String[] args)
{
if (args.Length == 0)
{
Console.WriteLine("Need one argument, copasi file");
Environment.Exit(1);
}
CDataModel dataModel = CRootContainer.addDatamodel();
if (!dataModel.loadModel(args[0]))
{
Console.WriteLine("Could not open file");
Console.WriteLine(CCopasiMessage.getAllMessageText());
Environment.Exit(1);
}
CModel model = dataModel.getModel();
ModelParameterSetVectorN sets = model.getModelParameterSets();
// if we don't have one, create one
if (sets.size() == 0)
{
CModelParameterSet newSet = new CModelParameterSet("Current State", model);
newSet.createFromModel();
printParameterSet(newSet);
sets.add(newSet);
}
// interrogate the exiting parameter sets
printExistingParametersets(model.getModelParameterSets());
}
public static void Main(String[] args)
{
// create a new datamodel
CDataModel dataModel = CRootContainer.addDatamodel();
if (args.Length != 1)
{
Console.WriteLine("Need one argument: SBML | CPS filename.");
Environment.Exit(1);
}
String filename = args[0];
try
{
String ext = System.IO.Path.GetExtension(filename);
if (ext.Trim().ToLowerInvariant().EndsWith("xml"))
{
// load the model without progress report
dataModel.importSBML(filename);
}
else
{
// load the model without progress report
dataModel.loadModel(filename);
}
}
catch
{
Console.WriteLine("Error while loading the model from file named \"" + filename + "\".");
Environment.Exit(1);
}
try
{
CModel model = dataModel.getModel();
int numAnnotations = model.getNumUnsupportedAnnotations();
Console.WriteLine("The model has: " + numAnnotations + " unsupported annotations.");
if (numAnnotations == 0)
{
Console.WriteLine("adding custom annotation");
// we don't have an annotation, so lets add one
if (!model.addUnsupportedAnnotation("http://myannotation.org", "<test xmlns='http://myannotation.org' value='blaaaahaaa'/>"))
{
Console.WriteLine("couldn't set annotation: ");
Console.WriteLine(CCopasiMessage.getAllMessageText());
}
}
Console.WriteLine("The name of the first is: " + model.getUnsupportedAnnotationName(0));
Console.WriteLine("The raw xml of the first is: " + model.getUnsupportedAnnotation(0));
}
catch (Exception ex)
{
Console.WriteLine("Error: " + ex.Message);
}
}
public static void Main(String[] args)
{
// create a new datamodel
CDataModel dataModel = CRootContainer.addDatamodel();
if (args.Length != 2)
{
Console.WriteLine("Need two arguments: filename and filter.");
Environment.Exit(1);
}
String filename = args[0];
try
{
String ext = System.IO.Path.GetExtension(filename);
if (ext.Trim().ToLowerInvariant() == "xml")
{
// load the model without progress report
dataModel.importSBML(filename);
}
else
{
// load the model without progress report
dataModel.loadModel(filename);
}
}
catch
{
Console.WriteLine("Error while loading the model from file named \"" + filename + "\".");
Environment.Exit(1);
}
try
{
// clear warnings / error messages
CCopasiMessage.clearDeque();
// convert
String translation = dataModel.exportMathModelToString(args[1]);
// if conversion failed print message
if (string.IsNullOrEmpty(translation))
{
Console.WriteLine("Translation failed: ");
Console.WriteLine(CCopasiMessage.getAllMessageText());
}
// print translation
Console.WriteLine(translation);
}
catch
{
Console.WriteLine("Error. Exporting the model to math failed.");
}
}
static void Main(string[] args)
{
Debug.Assert(CRootContainer.getRoot() != null);
// create a new datamodel
CDataModel dataModel = CRootContainer.addDatamodel();
Debug.Assert(CRootContainer.getDatamodelList().size() == 1);
// the only argument to the main routine should be the name of a CPS file
if (args.Length == 1)
{
string filename = args[0];
try
{
// load the model without progress report
dataModel.loadModel(filename);
}
catch
{
System.Console.Error.WriteLine("Error while loading the model from file named \"" + filename + "\".");
System.Environment.Exit(1);
}
CModel model = dataModel.getModel();
Debug.Assert(model != null);
System.Console.WriteLine("Model statistics for model \"" + model.getObjectName() + "\".");
// output number and names of all compartments
uint i, iMax = (uint)model.getCompartments().size();
System.Console.WriteLine("Number of Compartments: " + System.Convert.ToString(iMax));
System.Console.WriteLine("Compartments: ");
for (i = 0; i < iMax; ++i)
{
CCompartment compartment = model.getCompartment(i);
Debug.Assert(compartment != null);
System.Console.WriteLine("\t" + compartment.getObjectName());
}
// output number and names of all metabolites
iMax = (uint)model.getMetabolites().size();
System.Console.WriteLine("Number of Metabolites: " + System.Convert.ToString(iMax));
System.Console.WriteLine("Metabolites: ");
for (i = 0; i < iMax; ++i)
{
CMetab metab = model.getMetabolite(i);
Debug.Assert(metab != null);
System.Console.WriteLine("\t" + metab.getObjectName());
}
// output number and names of all reactions
iMax = (uint)model.getReactions().size();
System.Console.WriteLine("Number of Reactions: " + System.Convert.ToString(iMax));
System.Console.WriteLine("Reactions: ");
for (i = 0; i < iMax; ++i)
{
CReaction reaction = model.getReaction(i);
Debug.Assert(reaction != null);
System.Console.WriteLine("\t" + reaction.getObjectName());
}
}
else
{
System.Console.Error.WriteLine("Usage: example2 CPSFILE");
System.Environment.Exit(1);
}
}
