/// <summary>
/// Initializes a new instance of the <see cref="AccordanceIntervalsManager"/> class.
/// </summary>
/// <param name="firstChain">
/// The first chain.
/// </param>
/// <param name="secondChain">
/// The second chain.
/// </param>
public AccordanceIntervalsManager(CongenericChain firstChain, CongenericChain secondChain)
{
this.firstChain = firstChain;
this.secondChain = secondChain;
Length = firstChain.GetLength();
FirstOccurrencesCount = firstChain.OccurrencesCount;
SecondOccurrencesCount = secondChain.OccurrencesCount;
FillAccordanceIntervals();
}
/// <summary>
/// Initializes a new instance of the <see cref="BinaryIntervalsManager"/> class.
/// </summary>
/// <param name="firstChain">
/// The first chain.
/// </param>
/// <param name="secondChain">
/// The second chain.
/// </param>
public BinaryIntervalsManager(CongenericChain firstChain, CongenericChain secondChain)
{
FirstElement = firstChain.Element;
SecondElement = secondChain.Element;
FirstChain = firstChain;
SecondChain = secondChain;
Length = firstChain.GetLength();
PairsCount = FillPairsCount();
relationIntervals = new int[PairsCount];
FillIntervals();
}
/// <summary>
/// Calculation method.
/// </summary>
/// <param name="chain">
/// Source sequence.
/// </param>
/// <param name="link">
/// Link of intervals in chain.
/// </param>
/// <returns>
/// Variations count as <see cref="double"/>.
/// </returns>
public double Calculate(CongenericChain chain, Link link)
{
int count = 1;
for (int i = 0; i < chain.GetLength(); i++)
{
var j = chain[i] as ValuePhantom;
if (j != null)
{
count *= ((ValuePhantom)chain[i]).Cardinality;
}
}
return count;
}
/// <summary>
/// Initializes a new instance of the <see cref="CongenericIntervalsManager"/> class.
/// </summary>
/// <param name="chain">
/// The chain.
/// </param>
public CongenericIntervalsManager(CongenericChain chain)
{
var positions = chain.Positions;
int count = positions.Length;
// if sequence is empty
if (count == 0)
{
throw new ArgumentException("Sequence should not be empty", "chain");
}
intervals = new int[count - 1];
FillIntervals(positions, chain.GetLength());
}
/// <summary>
/// Calculation method.
/// </summary>
/// <param name="chain">
/// Source sequence.
/// </param>
/// <param name="link">
/// Redundant parameter, not used in calculations.
/// </param>
/// <returns>
/// Cut length vocabulary entropy as <see cref="double"/>.
/// </returns>
public double Calculate(CongenericChain chain, Link link)
{
return Math.Log(chain.GetLength() - cutLength.Calculate(chain, link) + 1, 2);
}
/// <summary>
/// Calculation method.
/// </summary>
/// <param name="chain">
/// Source sequence.
/// </param>
/// <param name="link">
/// Redundant parameter, not used in calculations.
/// </param>
/// <returns>
/// Chain length as <see cref="double"/>.
/// </returns>
public double Calculate(CongenericChain chain, Link link)
{
return chain.GetLength();
}
