/// <summary>
/// Confirms that there is a symbol in the similarity matrix for every
/// symbol in the sequence.
/// </summary>
/// <param name="sequence">Sequence to validate.</param>
/// <returns>true if sequence is valid.</returns>
public bool ValidateSequence(ISequence sequence)
{
foreach (ISequenceItem item in sequence)
{
if (!_encoding.Contains(item))
{
return(false);
}
}
return(true);
}
/// <summary>
/// Converts the ISequenceItem passed in as a parameter from one collection
/// of such items to another. This is useful in going from encoded items to
/// alphabet items for instance.
/// </summary>
public ISequenceItem Convert(ISequenceItem item)
{
if (direction == EncodingMapDirection.AlphabetToEncoding)
{
if (!alphabet.Contains(item))
{
throw new ArgumentException("The alphabet does not contain the item being mapped");
}
return(map[item]);
}
else if (direction == EncodingMapDirection.EncodingToAlphabet)
{
if (!encoding.Contains(item))
{
throw new ArgumentException("The encoding does not contain the item being mapped");
}
return(map[item]);
}
throw new Exception("Internal Error: Unrecognized encoding map direction");
}