static void Main(string[] args)
{
SBMLNamespaces sbmlns = new SBMLNamespaces(3, 1, "multi", 1);
// create the document
SBMLDocument document = new SBMLDocument(sbmlns);
// set the required attribute to true
SBMLDocumentPlugin docPlug =
(SBMLDocumentPlugin)(document.getPlugin("multi"));
docPlug.setRequired(true);
// create the Model
Model model = document.createModel();
// create a compartment
Compartment c = model.createCompartment();
c.setId("membrane");
c.setConstant(true);
// set the multi attribute isType via the compartmentPlugin
MultiCompartmentPlugin compPlug =
(MultiCompartmentPlugin)(c.getPlugin("multi"));
compPlug.setIsType(true);
// create species
Species s = model.createSpecies();
s.setId("s1");
s.setCompartment("membrane");
s.setBoundaryCondition(false);
s.setHasOnlySubstanceUnits(false);
s.setConstant(false);
// create reaction
Reaction r = model.createReaction();
r.setId("r1");
r.setFast(false);
r.setReversible(false);
// createReactant
SpeciesReference sr = r.createReactant();
sr.setId("sr1");
sr.setSpecies("s1");
sr.setConstant(false);
KineticLaw kl = r.createKineticLaw();
ASTNode ci = new ASTNode(libsbml.AST_NAME);
ci.setName("s1");
MultiASTPlugin astPlugin = (MultiASTPlugin)(ci.getPlugin("multi"));
astPlugin.setSpeciesReference("r1");
ASTNode ci1 = new ASTNode(libsbml.AST_NAME);
MultiASTPlugin astPlugin1 = (MultiASTPlugin)(ci1.getPlugin("multi"));
astPlugin1.setRepresentationType("sum");
ci1.setName("s1");
ASTNode math = new ASTNode(libsbml.AST_TIMES);
math.addChild(ci);
math.addChild(ci1);
kl.setMath(math);
libsbml.writeSBML(document, "multi_example2.xml");
}
static void Main(string[] args)
{
SBMLNamespaces sbmlns = new SBMLNamespaces(3, 1, "multi", 1);
// create the document
SBMLDocument document = new SBMLDocument(sbmlns);
// set the required attribute to true
SBMLDocumentPlugin docPlug =
(SBMLDocumentPlugin)(document.getPlugin("multi"));
docPlug.setRequired(true);
// create the Model
Model model = document.createModel();
// create the compartments
Compartment c = model.createCompartment();
c.setId("membrane");
c.setConstant(true);
// set the multi attribute isType via the compartmentPlugin
MultiCompartmentPlugin compPlug =
(MultiCompartmentPlugin)(c.getPlugin("multi"));
compPlug.setIsType(true);
c = model.createCompartment();
c.setId("inter_membrane");
c.setConstant(true);
// set the multi attribute isType via the compartmentPlugin
compPlug =
(MultiCompartmentPlugin)(c.getPlugin("multi"));
compPlug.setIsType(true);
// create the compartmentReferences
CompartmentReference compRef = compPlug.createCompartmentReference();
compRef.setId("m1");
compRef.setCompartment("membrane");
compRef = compPlug.createCompartmentReference();
compRef.setId("m2");
compRef.setCompartment("membrane");
// create the speciesTypes
MultiModelPlugin modelPlug =
(MultiModelPlugin)(model.getPlugin("multi"));
MultiSpeciesType st = modelPlug.createMultiSpeciesType();
st.setId("stX");
st.setCompartment("ct");
st = modelPlug.createMultiSpeciesType();
st.setId("stXXcis");
st.setCompartment("ct");
// create speciesTypeInstances
SpeciesTypeInstance sti = st.createSpeciesTypeInstance();
sti.setId("stiX1");
sti.setSpeciesType("stX");
sti = st.createSpeciesTypeInstance();
sti.setId("stiX2");
sti.setSpeciesType("stX");
// create speciesTypeBond
InSpeciesTypeBond istb = st.createInSpeciesTypeBond();
istb.setBindingSite1("stiX1");
istb.setBindingSite2("stiX2");
// another speciesType
st = modelPlug.createMultiSpeciesType();
st.setId("stXXtrans");
st.setCompartment("cct");
// create speciesTypeInstances
sti = st.createSpeciesTypeInstance();
sti.setId("stiX1");
sti.setSpeciesType("stX");
sti.setCompartmentReference("cr1");
sti = st.createSpeciesTypeInstance();
sti.setId("stiX2");
sti.setSpeciesType("stX");
sti.setCompartmentReference("cr2");
// create speciesTypeBond
istb = st.createInSpeciesTypeBond();
istb.setBindingSite1("stiX1");
istb.setBindingSite2("stiX2");
libsbml.writeSBML(document, "multi_example1.xml");
}
static void Main(string[] args)
{
SBMLNamespaces sbmlns = new SBMLNamespaces(3, 1, "multi", 1);
// create the document
SBMLDocument document = new SBMLDocument(sbmlns);
// set the required attribute to true
SBMLDocumentPlugin docPlug =
(SBMLDocumentPlugin)(document.getPlugin("multi"));
docPlug.setRequired(true);
// create the Model
Model model = document.createModel();
// create the compartments
Compartment c = model.createCompartment();
c.setId("membrane");
c.setConstant(true);
// set the multi attribute isType via the compartmentPlugin
MultiCompartmentPlugin compPlug =
(MultiCompartmentPlugin)(c.getPlugin("multi"));
compPlug.setIsType(true);
// create the speciesTypes
MultiModelPlugin modelPlug =
(MultiModelPlugin)(model.getPlugin("multi"));
MultiSpeciesType st = modelPlug.createMultiSpeciesType();
st.setId("stX");
st.setCompartment("membrane");
// create species
Species s = model.createSpecies();
s.setId("s1");
s.setCompartment("membrane");
s.setBoundaryCondition(false);
s.setHasOnlySubstanceUnits(false);
s.setConstant(false);
// set the multi attribute speciesType via the compartmentPlugin
MultiSpeciesPlugin spPlug =
(MultiSpeciesPlugin)(s.getPlugin("multi"));
spPlug.setSpeciesType("stX");
// create species feature
SpeciesFeature sf = spPlug.createSpeciesFeature();
sf.setSpeciesFeatureType("a");
sf.setOccur(1);
sf.setComponent("b");
SpeciesFeatureValue sfv = sf.createSpeciesFeatureValue();
sfv.setValue("c");
// create a subListOfSpeciesFeatures
SubListOfSpeciesFeatures subloSF = spPlug.createSubListOfSpeciesFeatures();
subloSF.setRelation(libsbml.Relation_fromString("and"));
// add speciesFeatures to the subList
SpeciesFeature sf1 = new SpeciesFeature(3, 1, 1);
sf1.setSpeciesFeatureType("a1");
sf1.setOccur(1);
sf1.setComponent("b1");
SpeciesFeatureValue sfv1 = sf1.createSpeciesFeatureValue();
sfv1.setValue("c1");
subloSF.appendAndOwn(sf1);
sf1 = new SpeciesFeature(3, 1, 1);
sf1.setSpeciesFeatureType("a2");
sf1.setOccur(1);
sf1.setComponent("b2");
sfv1 = sf1.createSpeciesFeatureValue();
sfv1.setValue("c2");
subloSF.appendAndOwn(sf1);
// create a second subListOfSpeciesfeatures
subloSF = spPlug.createSubListOfSpeciesFeatures();
subloSF.setRelation(libsbml.Relation_fromString("or"));
sf1 = new SpeciesFeature(3, 1, 1);
sf1.setSpeciesFeatureType("a3");
sf1.setOccur(1);
sf1.setComponent("b3");
sfv1 = sf1.createSpeciesFeatureValue();
sfv1.setValue("c3");
subloSF.appendAndOwn(sf1);
sf1 = new SpeciesFeature(3, 1, 1);
sf1.setSpeciesFeatureType("a4");
sf1.setOccur(1);
sf1.setComponent("b4");
sfv1 = sf1.createSpeciesFeatureValue();
sfv1.setValue("c4");
subloSF.appendAndOwn(sf1);
libsbml.writeSBML(document, "multi_example3.xml");
}