public IEnumerable <string> AllInducedMoleculeNames(IndividualMolecule molecule)
{
var processesInducedByProtein = AllEnabledProcesses().Where(ps => string.Equals(ps.MoleculeName, molecule.Name));
var allInducedMolecules = new List <string> {
molecule.Name
};
allInducedMolecules.AddRange(processesInducedByProtein.Select(ps => ps.ProductName(ProductNameTemplate)));
return(allInducedMolecules);
}
public virtual void RemoveMolecule(IndividualMolecule molecule)
{
RemoveChild(molecule);
}
public virtual void AddMolecule(IndividualMolecule molecule)
{
Add(molecule);
}
public ExpressionProfile ExpressionProfileFor(IndividualMolecule molecule) => AllExpressionProfiles().Find(x => string.Equals(x.MoleculeName, molecule.Name));
/// <summary> /// Returns all possible molecule containers of the individual in which <paramref name="molecule" /> will be defined. /// This also returns global container under the global molecule named after <paramref name="molecule" /> /// </summary> public IReadOnlyList <T> AllMoleculeContainersFor <T>(IndividualMolecule molecule) where T : MoleculeExpressionContainer => GetAllChildren <T>(x => x.IsNamed(molecule.Name) || x.ParentContainer.IsNamed(molecule.Name));
/// <summary> /// Returns all possible molecule containers of the individual in which <paramref name="molecule" /> will be defined. /// This also returns global container under the global molecule named after <paramref name="molecule" /> /// </summary> public virtual IReadOnlyList <MoleculeExpressionContainer> AllMoleculeContainersFor(IndividualMolecule molecule) => AllMoleculeContainersFor <MoleculeExpressionContainer>(molecule);
/// <summary> /// Returns all possible molecule parameters defined for <paramref name="molecule" /> in the individual. /// This also returns the global molecule parameters /// </summary> public virtual IReadOnlyList <IParameter> AllMoleculeParametersFor(IndividualMolecule molecule) => GetAllChildren <IContainer>(x => x.IsNamed(molecule.Name)).SelectMany(x => x.AllParameters()).ToList();
/// <summary> /// Returns all possible (physical) containers of the organism in which <paramref name="molecule" /> will be defined or /// an empty array if the organism is not defined /// </summary> public virtual IReadOnlyList <IContainer> AllPhysicalContainersWithMoleculeFor(IndividualMolecule molecule) => Organism?.GetAllChildren <IContainer>(x => x.IsNamed(molecule.Name)).Select(x => x.ParentContainer).ToArray() ?? Array.Empty <IContainer>();
/// <summary>
/// returns the name of all molecules that will be created due to the active processes defined for a given protein
/// </summary>
public virtual IEnumerable <string> AllInducedMoleculeNames(IndividualMolecule molecule)
{
return(AllProcessSelectionGroups.SelectMany(x => x.AllInducedMoleculeNames(molecule)).Distinct());
}
