public void test_SBMLConvert_convertToL3_localParameters()
{
SBMLDocument d = new SBMLDocument(1, 2);
Model m = d.createModel();
Compartment c = m.createCompartment();
c.setId("c");
Species s = m.createSpecies();
s.setId("s");
s.setCompartment("c");
Reaction r = m.createReaction();
SpeciesReference sr = r.createReactant();
sr.setSpecies("s");
KineticLaw kl = r.createKineticLaw();
kl.setFormula("s*k");
Parameter p = kl.createParameter();
p.setId("k");
assertTrue(kl.getNumLocalParameters() == 0);
assertTrue(d.setLevelAndVersion(3, 1, false) == true);
m = d.getModel();
r = m.getReaction(0);
kl = r.getKineticLaw();
assertTrue(kl.getNumLocalParameters() == 1);
LocalParameter lp = kl.getLocalParameter(0);
d = null;
}
public void LocalParameter001()
{
// Arrange
var expected = JObject.Parse(@"
{
""params"": {
""myLocalParameter"": ""id:\""ITEM01\""""
}
}");
var container = new JObject();
var parameter = new LocalParameter <TestDocument>();
var solrOptions = new SolrExpressOptions();
var solrConnection = new FakeSolrConnection <TestDocument>();
var expressionBuilder = new ExpressionBuilder <TestDocument>(solrOptions, solrConnection);
expressionBuilder.LoadDocument();
var searchQuery = new SearchQuery <TestDocument>(expressionBuilder);
parameter.Name = "myLocalParameter";
parameter.Query = searchQuery.Field(q => q.Id).EqualsTo("ITEM01");
// Act
((ISearchItemExecution <JObject>)parameter).Execute();
((ISearchItemExecution <JObject>)parameter).AddResultInContainer(container);
// Assert
Assert.Equal(expected.ToString(), container.ToString());
}
public void test_L3_LocalParameter_createWithNS()
{
XMLNamespaces xmlns = new XMLNamespaces();
xmlns.add("http://www.sbml.org", "testsbml");
SBMLNamespaces sbmlns = new SBMLNamespaces(3, 1);
sbmlns.addNamespaces(xmlns);
LocalParameter p = new LocalParameter(sbmlns);
assertTrue(p.getTypeCode() == libsbml.SBML_LOCAL_PARAMETER);
assertTrue(p.getMetaId() == "");
assertTrue(p.getNotes() == null);
assertTrue(p.getAnnotation() == null);
assertTrue(p.getLevel() == 3);
assertTrue(p.getVersion() == 1);
assertTrue(p.getNamespaces() != null);
assertTrue(p.getNamespaces().getLength() == 2);
assertTrue(p.getId() == "");
assertTrue(p.getName() == "");
assertTrue(p.getUnits() == "");
assertEquals(true, double.IsNaN(p.getValue()));
assertEquals(false, p.isSetId());
assertEquals(false, p.isSetName());
assertEquals(false, p.isSetValue());
assertEquals(false, p.isSetUnits());
p = null;
}
public void test_L3_LocalParameter_hasRequiredAttributes()
{
LocalParameter p = new LocalParameter(3, 1);
assertEquals(false, p.hasRequiredAttributes());
p.setId("id");
assertEquals(true, p.hasRequiredAttributes());
p = null;
}
public void setUp()
{
P = new LocalParameter(3, 1);
if (P == null)
{
;
}
{
}
}
/// <summary>
/// Gets the MoBi Dimension of a SBML Local Parameter.
/// </summary>
/// <returns> The Dimension, if it was found, or null. </returns>
private IDimension GetDimension(LocalParameter localParameter)
{
if (!localParameter.isSetUnits())
{
return(_dimensionFactory.Dimension(Constants.Dimension.DIMENSIONLESS));
}
if (_sbmlInformation.MobiDimension.ContainsKey(localParameter.getUnits()))
{
return(_sbmlInformation.MobiDimension[localParameter.getUnits()]);
}
return(null);
}
public void test_WriteL3SBML_KineticLaw_ListOfParameters()
{
string expected = "<kineticLaw>\n" +
" <listOfLocalParameters>\n" +
" <localParameter id=\"n\" value=\"1.2\"/>\n" +
" </listOfLocalParameters>\n" +
"</kineticLaw>";
KineticLaw kl = D.createModel().createReaction().createKineticLaw();
LocalParameter p = kl.createLocalParameter();
p.setId("n");
p.setValue(1.2);
assertEquals(true, equals(expected, kl.toSBML()));
}
public void LocalParameter002()
{
// Arrange
var container = new List <string>();
var parameter = new LocalParameter <TestDocument>();
parameter.Name = "myLocalParameter";
parameter.Value = "some value";
// Act
((ISearchItemExecution <List <string> >)parameter).Execute();
((ISearchItemExecution <List <string> >)parameter).AddResultInContainer(container);
// Assert
Assert.Single(container);
Assert.Equal("myLocalParameter=some value", container[0]);
}
private LocalParameter[] ParseText(OracleCommand command, string commandText, out bool isQuery)
{
OracleParameterCollection parameters = command.Parameters;
ArrayList list = new ArrayList();
Regex sqlTokenParser = GetSqlTokenParser();
isQuery = false;
bool flag = false;
for (Match match = sqlTokenParser.Match(commandText); Match.Empty != match; match = match.NextMatch())
{
if (!match.Groups[_commentGroup].Success)
{
if ((match.Groups[_identifierGroup].Success || match.Groups[_stringGroup].Success) || match.Groups[_otherGroup].Success)
{
flag = true;
}
else if (match.Groups[_queryGroup].Success)
{
if (!flag)
{
isQuery = true;
}
}
else if (match.Groups[_parameterMarkerGroup].Success)
{
string parameterName = match.Groups[_parameterMarkerGroup].Value.Substring(1);
this._usedParameterNames[parameterName] = null;
int index = parameters.IndexOf(parameterName);
if (0 > index)
{
string str2 = ":" + parameterName;
index = parameters.IndexOf(str2);
}
if (0 <= index)
{
list.Add(new LocalParameter(index, match.Index, match.Length));
}
}
}
}
LocalParameter[] array = new LocalParameter[list.Count];
list.CopyTo(array, 0);
return(array);
}
public void test_L3_KineticLaw_addParameter2()
{
KineticLaw kl = new KineticLaw(3, 1);
LocalParameter lp = new LocalParameter(3, 1);
LocalParameter lp1 = new LocalParameter(3, 1);
int i = kl.addLocalParameter(lp);
assertTrue(i == libsbml.LIBSBML_INVALID_OBJECT);
lp.setId("p");
lp1.setId("p1");
i = kl.addLocalParameter(lp);
assertTrue(i == libsbml.LIBSBML_OPERATION_SUCCESS);
assertTrue(kl.getNumParameters() == 1);
assertTrue(kl.getNumLocalParameters() == 1);
i = kl.addParameter(lp1);
assertTrue(i == libsbml.LIBSBML_OPERATION_SUCCESS);
assertTrue(kl.getNumParameters() == 2);
assertTrue(kl.getNumLocalParameters() == 2);
lp = null;
kl = null;
}
public void LocalParameter002()
{
// Arrange
var expected = JObject.Parse(@"
{
""params"":{
""myLocalParameter"": ""some value""
}
}");
var container = new JObject();
var parameter = new LocalParameter <TestDocument>();
parameter.Name = "myLocalParameter";
parameter.Value = "some value";
// Act
((ISearchItemExecution <JObject>)parameter).Execute();
((ISearchItemExecution <JObject>)parameter).AddResultInContainer(container);
// Assert
Assert.Equal(expected.ToString(), container.ToString());
}
public void LocalParameter001()
{
// Arrange
var container = new List <string>();
var parameter = new LocalParameter <TestDocument>();
var solrOptions = new SolrExpressOptions();
var solrConnection = new FakeSolrConnection <TestDocument>();
var expressionBuilder = new ExpressionBuilder <TestDocument>(solrOptions, solrConnection);
expressionBuilder.LoadDocument();
var searchQuery = new SearchQuery <TestDocument>(expressionBuilder);
parameter.Name = "myLocalParameter";
parameter.Query = searchQuery.Field(q => q.Id).EqualsTo("ITEM01");
// Act
((ISearchItemExecution <List <string> >)parameter).Execute();
((ISearchItemExecution <List <string> >)parameter).AddResultInContainer(container);
// Assert
Assert.Single(container);
Assert.Equal("myLocalParameter=id:\"ITEM01\"", container[0]);
}
private LocalParameter[] ParseText(OracleCommand command, string commandText, out bool isQuery)
{
OracleParameterCollection parameters = command.Parameters;
ArrayList list = new ArrayList();
Regex sqlTokenParser = GetSqlTokenParser();
isQuery = false;
bool flag = false;
for (Match match = sqlTokenParser.Match(commandText); Match.Empty != match; match = match.NextMatch())
{
if (!match.Groups[_commentGroup].Success)
{
if ((match.Groups[_identifierGroup].Success || match.Groups[_stringGroup].Success) || match.Groups[_otherGroup].Success)
{
flag = true;
}
else if (match.Groups[_queryGroup].Success)
{
if (!flag)
{
isQuery = true;
}
}
else if (match.Groups[_parameterMarkerGroup].Success)
{
string parameterName = match.Groups[_parameterMarkerGroup].Value.Substring(1);
this._usedParameterNames[parameterName] = null;
int index = parameters.IndexOf(parameterName);
if (0 > index)
{
string str2 = ":" + parameterName;
index = parameters.IndexOf(str2);
}
if (0 <= index)
{
list.Add(new LocalParameter(index, match.Index, match.Length));
}
}
}
}
LocalParameter[] array = new LocalParameter[list.Count];
list.CopyTo(array, 0);
return array;
}
public void tearDown()
{
P = null;
}
