protected override void Context()
{
sut = new TableFormulaWithOffset();
_dimensionLength = new Dimension(new BaseDimensionRepresentation {
LengthExponent = 1
}, "Length", "m");
_dimensionLength.AddUnit("cm", 0.01, 0);
_dimensionpH = new Dimension(new BaseDimensionRepresentation(), "pH", "");
_tableFormula = new TableFormula().WithName(_tableObjectAlias);
_tableFormula.AddPoint(1, 10);
_tableFormula.AddPoint(2, 20);
_tableFormula.AddPoint(3, 30);
_tableObject = new Parameter().WithName(_tableObjectAlias);
_tableObject.Formula = _tableFormula;
_offsetObject = new Parameter().WithName(_offsetObjectAlias).WithValue(5);
_dependentObject = new MoleculeAmount {
_tableObject, _offsetObject
};
var tableObjectPath = new FormulaUsablePath(_tableObjectAlias).WithAlias(_tableObjectAlias);
sut.AddTableObjectPath(tableObjectPath);
var offsetObjectPath = new FormulaUsablePath(_offsetObjectAlias).WithAlias(_offsetObjectAlias);
sut.AddOffsetObjectPath(offsetObjectPath);
}
protected override void Context()
{
sut = new TableFormulaWithXArgument();
_dimensionLength = new Dimension(new BaseDimensionRepresentation {
LengthExponent = 1
}, "Length", "m");
_dimensionLength.AddUnit("cm", 0.01, 0);
_dimensionpH = new Dimension(new BaseDimensionRepresentation(), "pH", "");
_tableFormula = new TableFormula().WithName(_tableObjectAlias);
_tableFormula.AddPoint(1, 10);
_tableFormula.AddPoint(2, 20);
_tableFormula.AddPoint(3, 30);
_tableObject = new Parameter().WithName(_tableObjectAlias);
_tableObject.Formula = _tableFormula;
_xArgumentObject = new Parameter().WithName(_xArgumentObjectAlias).WithValue(5);
_parameter = new Parameter().WithFormula(sut);
_container = new Container {
_tableObject, _xArgumentObject, _parameter
};
var tableObjectPath = new FormulaUsablePath(ObjectPath.PARENT_CONTAINER, _tableObjectAlias).WithAlias(_tableObjectAlias);
sut.AddTableObjectPath(tableObjectPath);
var xArgumentObjectPath = new FormulaUsablePath(ObjectPath.PARENT_CONTAINER, _xArgumentObjectAlias).WithAlias(_xArgumentObjectAlias);
sut.AddXArgumentObjectPath(xArgumentObjectPath);
}
public IFormulaUsablePath CreateFormulaUsablePathFrom(IEnumerable <string> entries)
{
var newFormulaUseablePath = new FormulaUsablePath();
entries.Each(newFormulaUseablePath.Add);
newFormulaUseablePath.Alias = createAliasFrom(entries.Last());
return(newFormulaUseablePath);
}
public IFormulaUsablePath CreateAbsoluteFormulaUsablePath(IFormulaUsable entity)
{
var newFormulaUseablePath = new FormulaUsablePath();
addPathEntry(entity, newFormulaUseablePath);
newFormulaUseablePath.Alias = createAliasFrom(entity.Name);
newFormulaUseablePath.Dimension = entity.Dimension;
return(newFormulaUseablePath);
}
public IFormulaUsablePath CreateRelativeFormulaUsablePath(IEntity usingObject, IFormulaUsable usedObject)
{
var newFormulaUseablePath = new FormulaUsablePath();
addRelativePathEntries(usingObject, usedObject, newFormulaUseablePath);
newFormulaUseablePath.Alias = createAliasFrom(usedObject.Name);
newFormulaUseablePath.Dimension = usedObject.Dimension;
return(newFormulaUseablePath);
}
protected override void Context()
{
base.Context();
_rootContainer = new Container().WithName("ROOT");
_moleculeContainer = new Container().WithName("CYP").WithContainerType(ContainerType.Molecule);
_parameter = DomainHelperForSpecs.ConstantParameterWithValue(4).WithName("P").WithParentContainer(_moleculeContainer);
_parameter.Formula = new ExplicitFormula();
_objectPath = new FormulaUsablePath("SIM", ObjectPathKeywords.MOLECULE, "test");
_parameter.Formula.AddObjectPath(_objectPath);
}
protected override void Context()
{
base.Context();
_objPathMolecule = new FormulaUsablePath(new[] { ObjectPathKeywords.MOLECULE });
_moleculeName = "REPLACED";
_moleculeContainer = new Container().WithName(_modelName);
var moleculeParameter = new Parameter().WithFormula(A.Fake <IFormula>());
_moleculeContainer.Add(moleculeParameter);
A.CallTo(() => moleculeParameter.Formula.ObjectPaths).Returns(new[] { _objPathFirstNeighbor, _objPathMolecule, _objPathOrganism });
}
public bool Equals(FormulaUsablePath other)
{
if (ReferenceEquals(null, other))
{
return(false);
}
if (ReferenceEquals(this, other))
{
return(true);
}
return(base.Equals(other) && string.Equals(Alias, other.Alias) && Equals(Dimension, other.Dimension));
}
public override Task <IFormulaUsablePath> MapToModel(SnapshotFormulaUsablePath snapshot)
{
IFormulaUsablePath formulaUsablePath;
if (snapshot.Alias == Constants.TIME)
{
formulaUsablePath = new TimePath();
}
else
{
formulaUsablePath = new OSPSuite.Core.Domain.FormulaUsablePath(snapshot.Path.ToPathArray())
{
Alias = snapshot.Alias,
Dimension = _dimensionRepository.DimensionByName(snapshot.Dimension),
};
}
return(Task.FromResult(formulaUsablePath));
}
protected override void Context()
{
base.Context();
_buildConfiguration = A.Fake <IBuildConfiguration>();
_processBuilder = new ReactionBuilder();
_processBuilder.CreateProcessRateParameter = true;
_kinetic = new ExplicitFormula("(A+B)*fu/BW");
_formulaUsablePathA = new FormulaUsablePath(new[] { ObjectPath.PARENT_CONTAINER, "A" }).WithAlias("A");
_kinetic.AddObjectPath(_formulaUsablePathA);
_formulaUsablePathB = new FormulaUsablePath(new[] { "B" }).WithAlias("B");
_kinetic.AddObjectPath(_formulaUsablePathB);
_formulaUsablePathFU = new FormulaUsablePath(new[] { ObjectPathKeywords.MOLECULE, "fu" }).WithAlias("fu");
_kinetic.AddObjectPath(_formulaUsablePathFU);
_formulaUsablePathBW = new FormulaUsablePath(new[] { "Organism", "BW" }).WithAlias("BW");
_kinetic.AddObjectPath(_formulaUsablePathBW);
_processBuilder.CreateProcessRateParameter = true;
_processBuilder.ProcessRateParameterPersistable = true;
A.CallTo(() => _formulaMapper.MapFrom(_kinetic, _buildConfiguration)).Returns(_kinetic);
_processBuilder.Name = "Reaction";
_processBuilder.Formula = _kinetic;
_processRateParameter = new Parameter();
A.CallTo(() => _objectBaseFactory.Create <IParameter>()).Returns(_processRateParameter);
}
