void GetDefaultTerminationSymbol(AlphabetsTypes option)
{
IAlphabet alphabetInstance = null;
byte outputDefaultTerminationSymbol = 0;
HashSet <byte> outputTerminationSymbol = new HashSet <byte>();
string outputTerminationString = "";
switch (option)
{
case AlphabetsTypes.Protein:
alphabetInstance = ProteinAlphabet.Instance;
break;
case AlphabetsTypes.Rna:
alphabetInstance = RnaAlphabet.Instance;
break;
case AlphabetsTypes.Dna:
alphabetInstance = DnaAlphabet.Instance;
break;
}
if (option.Equals(AlphabetsTypes.Protein))
{
Assert.AreEqual(true, alphabetInstance.TryGetDefaultTerminationSymbol(out outputDefaultTerminationSymbol));
Assert.AreEqual(true, alphabetInstance.TryGetTerminationSymbols(out outputTerminationSymbol));
outputTerminationString = new string(outputTerminationSymbol.Select(a => (char)a).ToArray());
Assert.AreEqual('*', (char)outputDefaultTerminationSymbol);
Assert.AreEqual("*", outputTerminationString);
}
else
{
Assert.AreEqual(false, alphabetInstance.TryGetDefaultTerminationSymbol(out outputDefaultTerminationSymbol));
Assert.AreEqual(false, alphabetInstance.TryGetTerminationSymbols(out outputTerminationSymbol));
}
ApplicationLog.WriteLine(string.Concat("Alphabets BVT: Validation of Get Default termination symbol for",
option, " completed successfully."));
}
/// <summary>
/// This returns true/false if the given symbol value is considered a termination
/// value in the alphabet.
/// </summary>
/// <param name="alphabet">Alphabet to test</param>
/// <param name="value">Value to check</param>
/// <returns>True if value is a termination symbol, false if terminations are not supported or value is not.</returns>
public static bool CheckIsTermination(this IAlphabet alphabet, byte value)
{
if (alphabet == null)
{
throw new ArgumentNullException("alphabet", "Alphabet must be supplied.");
}
// Not supported?
if (!alphabet.HasTerminations)
{
return(false);
}
// Get the termination set and return true/false on match.
HashSet <byte> symbols;
return(alphabet.TryGetTerminationSymbols(out symbols) &&
symbols.Contains(value));
}
