/// <summary>
/// Returns the entity of type <typeparamref name="T" /> with the given path relatve to the
/// <paramref name="refEntity" />. If the entity could not be resolved, returns null
/// </summary>
public static T TryResolve <T>(this IObjectPath objectPath, IEntity refEntity) where T : class
{
bool isFound;
var result = TryResolve <T>(objectPath, refEntity, out isFound);
return(isFound ? result : null);
}
protected override void Context()
{
base.Context();
_objectPath = new ObjectPath("root2", "B");
_pathWithModelNameFirst = _objectPath.Clone <IObjectPath>();
_pathWithModelNameFirst.AddAtFront(_modelName);
}
private IObjectPath convertedPath(IObjectPath objectPath, IContainer rootContainer, bool addSimulationName)
{
if (!objectPath.Any())
{
return(objectPath);
}
//Path starts with the root element, this needs to be remove no matter what
if (string.Equals(objectPath.ElementAt(0), Constants.ROOT))
{
return(removeFirstEntryOf(objectPath));
}
if (rootContainer == null)
{
return(objectPath);
}
//now this is an simulation absolute path (the second entry in the path is either Organism, neighborhoods)
if (rootContainer.ContainerType == ContainerType.Simulation && !addSimulationName)
{
return(removeFirstEntryOf(objectPath));
}
//the path is either relative or should stay as is. Return
return(objectPath);
}
protected EditStartValuePathCommand(TBuildingBlock buildingBlock, TStartValue startValue, IObjectPath newContainerPath)
: base(buildingBlock)
{
_newContainerPath = newContainerPath;
_originalStartValue = startValue;
setCommandConstants();
}
public bool NegativeValuesAllowed(string modelName, IObjectPath containerPath, string moleculeName)
{
Start();
var container = _flatContainerRepo.ContainerFrom(containerPath.ToString());
return(negativeValuesAllowed(modelName, container.Id, moleculeName));
}
public bool IsPresent(string modelName, IObjectPath containerPath, string moleculeName)
{
Start();
var container = _flatContainerRepo.ContainerFrom(containerPath.ToString());
return(IsPresent(modelName, container.Id, moleculeName));
}
public AddStartValueToBuildingBlockCommand(IStartValuesBuildingBlock <T> startValuesBuildingBlock, T startValue)
: base(startValuesBuildingBlock)
{
_startValue = startValue;
CommandType = AppConstants.Commands.AddCommand;
Description = AppConstants.Commands.AddedStartValue(startValue, startValuesBuildingBlock.Name);
ObjectType = new ObjectTypeResolver().TypeFor <T>();
_objectPath = startValue.Path;
}
protected override void Context()
{
_applicationMoleculeBuilder = A.Fake <IApplicationMoleculeBuilder>();
_applicationMoleculeBuilder.Id = "ID";
_newPath = A.Fake <IObjectPath>();
_oldPath = A.Fake <IObjectPath>();
_applicationMoleculeBuilder.RelativeContainerPath = _oldPath;
sut = new EditRelativeContainerPathPropertyAtApplicationMoleculeBuilderCommand(_applicationMoleculeBuilder, _newPath, A.Fake <IBuildingBlock>());
}
protected override void Context()
{
sut = new ParameterResolver();
_moleculeBuildingBlock = new MoleculeBuildingBlock();
_spatialStructure = new SpatialStructure {
GlobalMoleculeDependentProperties = new Container()
};
_containerPath = new ObjectPath();
}
protected override void Because()
{
var compoundName = _simulation.CompoundNames.First();
var parameter = _simulation.Model.Root.EntityAt <IParameter>(compoundName, CoreConstantsForSpecs.Parameter.BLOOD_PLASMA_CONCENTRATION_RATIO);
parameter.Value = 10;
_parameterPath = _entityPathResolver.ObjectPathFor(parameter);
_psv = _buildConfigurationTask.CreateFor(_simulation, shouldValidate: true, createAgingDataInSimulation: false).ParameterStartValues;
}
private void updateObjectPath(IObjectPath path)
{
if (!path.First().Equals(_oldName))
{
return;
}
path.Remove(_oldName);
path.AddAtFront(_newName);
}
public IMoleculeBuilder Resolve(IObjectPath containerPath, string moleculeName, ISpatialStructure spatialStructure, IMoleculeBuildingBlock moleculeBuildingBlock)
{
if (!canResolveMolecule(moleculeBuildingBlock, moleculeName) || !canResolvePhysicalContainer(containerPath, spatialStructure))
{
return(null);
}
return(moleculeBuildingBlock[moleculeName]);
}
protected ChangeStartValueNameCommand(TBuildingBlock buildingBlock, IObjectPath path, string newValue)
: base(buildingBlock)
{
_newValue = newValue;
_originalStartValue = buildingBlock[path];
_oldValue = _originalStartValue.Name;
SetCommandParameters(newValue, _oldValue);
}
public UpdateParameterStartValueInBuildingBlockCommand(
IParameterStartValuesBuildingBlock parameterStartValuesBuildingBlock,
IObjectPath path,
double?value) : base(parameterStartValuesBuildingBlock)
{
CommandType = AppConstants.Commands.UpdateCommand;
ObjectType = ObjectTypes.ParameterStartValue;
_path = path;
_value = value;
}
public IObjectPath CreateModelPathFor(IObjectPath objectPath, IContainer rootContainer)
{
var keywordReplacer = new KeywordReplacerCollection();
addCommonModelReplacersTo(keywordReplacer, rootContainer);
var modelPath = objectPath.Clone <IObjectPath>();
keywordReplacer.ReplaceIn(modelPath);
return(modelPath);
}
private IObjectPath generateNewPath(IObjectPath containerPath)
{
var newPath = new ObjectPath();
foreach (var element in containerPath)
{
newPath.Add(element.Equals(_oldName) ? _newName : element);
}
return(newPath);
}
protected override void Context()
{
base.Context();
_dimension = A.Fake <IDimension>();
_parameterPath = new ObjectPath(new[] { "Container", "Parameter" });
_startValue = 1.2;
_parameterStartValue = new ParameterStartValue {
Path = _parameterPath, StartValue = _startValue, Dimension = _dimension, Formula = null
};
A.CallTo(() => _dimension.BaseUnitValueToUnitValue(_dimension.DefaultUnit, _startValue)).Returns(_startValue);
}
protected override void Context()
{
base.Context();
_context = A.Fake <IMoBiContext>();
_buildingBlock = new MoleculeStartValuesBuildingBlock();
_moleculeStartValue = new MoleculeStartValue();
_path = new ObjectPath("A", "B");
_moleculeStartValue.ContainerPath = _path;
_moleculeStartValue.Name = "Name";
_buildingBlock.Add(_moleculeStartValue);
}
public EditRelativeContainerPathPropertyAtApplicationMoleculeBuilderCommand(IApplicationMoleculeBuilder applicationMoleculeBuilder, IObjectPath newPath, IBuildingBlock buildingBlock)
: base(buildingBlock)
{
_applicationMoleculeBuilder = applicationMoleculeBuilder;
_applicationMoleculeBuilderId = _applicationMoleculeBuilder.Id;
_newPath = newPath;
_oldPath = applicationMoleculeBuilder.RelativeContainerPath;
ObjectType = ObjectTypes.ApplicationMoleculeBuilder;
CommandType = AppConstants.Commands.EditCommand;
Description = AppConstants.Commands.EditDescription(ObjectType, AppConstants.Captions.RelativeContainerPath, _oldPath.PathAsString, newPath.PathAsString, applicationMoleculeBuilder.Name);
}
public EditPathAtUsablePathCommand(IFormula formula, IObjectPath newObjectPath, IFormulaUsablePath formulaPathToUpdate, IBuildingBlock buildingBlock) : base(buildingBlock)
{
_newObjectPath = newObjectPath;
_formulaId = formula.Id;
_formulaPathToUpdate = formulaPathToUpdate;
//we need a clone here to save the old path before updating it
_oldObjectPath = _formulaPathToUpdate.Clone <IFormulaUsablePath>();
_alias = _formulaPathToUpdate.Alias;
Description = AppConstants.Commands.EditFormulaUsablePath(_oldObjectPath.PathAsString, newObjectPath.PathAsString, _alias, formula.Name, buildingBlock.Name);
ObjectType = ObjectTypes.FormulaUsablePath;
CommandType = AppConstants.Commands.EditCommand;
}
public IParameter GetPossibleParameterFromProject(IObjectPath parameterPath)
{
foreach (var topContainer in Context.CurrentProject.SpatialStructureCollection.SelectMany(spatialStructure => spatialStructure.TopContainers))
{
var parameter = parameterPath.TryResolve <IParameter>(topContainer, out _);
if (parameter != null)
{
return(parameter);
}
}
return(null);
}
public override bool CanResolveParameters()
{
var root = _formulaUsable?.RootContainer;
if (root == null)
{
return(false);
}
_useablePath = _pathFactory.CreateObjectPathFrom(root.Name, _formulaUsable.Name, AppConstants.Parameters.MOLECULAR_WEIGHT);
return(_useablePath.TryResolve <IFormulaUsable>(root) != null);
}
private IParameterStartValue trySetValue(IObjectPath objectPath, double value)
{
var parameterStartValue = _defaultStartValues[objectPath];
if (parameterStartValue == null)
{
throw new Exception($"Parameter not found : {objectPath}");
}
parameterStartValue.StartValue = value;
return(parameterStartValue);
}
protected override void Context()
{
base.Context();
_dimension = A.Fake <IDimension>();
_parameterPath = new ObjectPath(new[] { "Container", "Parameter" });
_parameterStartValue = new ParameterStartValue {
Path = _parameterPath, StartValue = 0.0, Dimension = _dimension
};
_formula = A.Fake <ExplicitFormula>();
_parameterStartValue.Formula = _formula;
_formulaString = "Hello Again";
_formula.FormulaString = _formulaString;
}
protected override void Context()
{
_formula = new ExplicitFormula("A+B").WithId("id");
_buildingBlock = A.Fake <IBuildingBlock>();
_context = A.Fake <IMoBiContext>();
_newObjectPath = new FormulaUsablePath("NEW", "PATH").WithAlias("C1");
_oldObjectPath = new FormulaUsablePath("OLD", "PATH").WithAlias("C1");
sut = new EditPathAtUsablePathCommand(_formula, _newObjectPath, _oldObjectPath, _buildingBlock);
_formula.AddObjectPath(_oldObjectPath);
A.CallTo(() => _context.Get <IFormula>(_formula.Id)).Returns(_formula);
_buildingBlockVersionUpdater = A.Fake <IBuildingBlockVersionUpdater>();
A.CallTo(() => _context.Resolve <IBuildingBlockVersionUpdater>()).Returns(_buildingBlockVersionUpdater);
}
private bool canResolveMoleculeContainerPath(IObjectPath containerPath)
{
if (!containerPath.Any())
{
return(false);
}
var templatePath = containerPath.Clone <IObjectPath>();
templatePath.RemoveAt(getMoleculeNameIndex(containerPath));
return(resolveContainerPathInSpatialStructure(templatePath) != null);
}
protected override void ExecuteWith(IMoBiContext context)
{
var entityPathResolver = context.Resolve <IEntityPathResolver>();
_objectPath = entityPathResolver.ObjectPathFor(_quantity);
if (_startValuesBuildingBlock[_objectPath] != null)
{
return;
}
_startValuesBuildingBlock.Add(CreateNewStartValue(context));
}
private void trySetFormula(IObjectPath objectPath, IFormula formula)
{
var parameterStartValue = _defaultStartValues[objectPath];
if (parameterStartValue != null)
{
parameterStartValue.Formula = formula;
}
else
{
throw new Exception(string.Format("Parameter not found : {0}", objectPath));
}
}
private IParameter resolveMoleculeParameterInSpatialStructure(IObjectPath containerPath, string name)
{
if (!containerPath.Any() || !canResolveMoleculeContainerPath(containerPath))
{
return(null);
}
var templatePath = containerPath.Clone <IObjectPath>();
templatePath.RemoveAt(getMoleculeNameIndex(containerPath));
templatePath.Add(Constants.MOLECULE_PROPERTIES);
return(resolveParameterInSpatialStructure(templatePath, name));
}
private bool isRelativePath(IObjectPath objectPath)
{
if (!objectPath.Any())
return false;
if (objectPath[0] == ObjectPath.PARENT_CONTAINER)
return true;
if (objectPath.Count == 1)
return true;
return false;
}