/// <summary>
/// Create sparse sequence and insert all sequence items of alphabet.
/// </summary>
/// <param name="alphabet"></param>
/// <param name="insertPosition"></param>
/// <returns></returns>
private static SparseSequence CreateSparseSequence(IAlphabet alphabet, int insertPosition)
{
// Create sequence item list
var sequenceList = alphabet.ToList();
// Store sequence item in sparse sequence object using list of sequence items
var sparseSeq = new SparseSequence(alphabet, insertPosition, sequenceList);
return(sparseSeq);
}
public void ValidateDnaSparseSequenceProperties()
{
IAlphabet alphabet = Alphabets.DNA;
// Create sparse sequence object
const int insertPosition = 0;
// Create sequence item list
IList <byte> sequenceList = alphabet.ToList();
// Store sequence item in sparse sequence object using list of sequence items
var sparseSequence = new SparseSequence(alphabet, insertPosition, sequenceList);
//Validate all properties
Assert.AreEqual(alphabet.Count + insertPosition, sparseSequence.Count);
Assert.AreEqual(alphabet, sparseSequence.Alphabet);
Assert.IsTrue(string.IsNullOrEmpty(sparseSequence.ID));
Assert.IsNotNull(sparseSequence.Metadata);
Assert.IsNotNull(sparseSequence.Statistics);
Assert.IsNotNull(sparseSequence.GetKnownSequenceItems());
ApplicationLog.WriteLine("SparseSequence BVT: Validation of all properties of sparse sequence instance is completed");
}
/// <summary>
/// Create sparse sequence and insert all sequence items of alphabet.
/// </summary>
/// <param name="alphabet"></param>
/// <param name="insertPosition"></param>
/// <returns></returns>
private static SparseSequence CreateSparseSequence(IAlphabet alphabet, int insertPosition)
{
// Create sequence item list
var sequenceList = alphabet.ToList();
// Store sequence item in sparse sequence object using list of sequence items
var sparseSeq = new SparseSequence(alphabet, insertPosition, sequenceList);
return sparseSeq;
}