/// <summary>
/// Allows the sequence to function like an array, getting and setting
/// the sequence item at the particular index specified. Note that the
/// index value starts its count at 0.
/// </summary>
public ISequenceItem this[int index]
{
get
{
ISequenceItem item = Source[GetSourceIndex(index)];
// SparseSequence will return null if there is no sequence item present in the specified position.
if (item == null)
{
return(null);
}
if (Complemented)
{
if (Alphabet == Alphabets.DNA)
{
return(Complementation.GetDnaComplement((Nucleotide)item));
}
else
{
return(Complementation.GetRnaComplement((Nucleotide)item));
}
}
else
{
return(item);
}
}
set
{
string message = Properties.Resource.NotSupportedInBasicDerivedSequence;
Trace.Report(message);
throw new NotSupportedException(message);
}
}
/// <summary>
/// Gets or Sets the byte value of the sequence item at the given index
/// </summary>
/// <param name="index">Index of the item to retrieve</param>
/// <returns>Byte value at the given index</returns>
byte IList <byte> .this[int index]
{
get
{
if (Complemented)
{
if (UseEncoding)
{
return(Encoding.GetComplement((Source as IList <byte>)[GetSourceIndex(index)]));
}
else if (Alphabet == Alphabets.DNA)
{
return(Complementation.GetDnaComplement(Alphabet.LookupByValue((Source as IList <byte>)[GetSourceIndex(index)]) as Nucleotide).Value);
}
else if (Alphabet == Alphabets.RNA)
{
return(Complementation.GetRnaComplement(Alphabet.LookupByValue((Source as IList <byte>)[GetSourceIndex(index)]) as Nucleotide).Value);
}
}
return((Source as IList <byte>)[GetSourceIndex(index)]);
}
set
{
throw new NotSupportedException(Properties.Resource.NotSupportedInBasicDerivedSequence);
}
}
/// <summary>
/// Allows the sequence to function like an array, getting and setting
/// the sequence item at the particular index specified. Note that the
/// index value starts its count at 0.
/// </summary>
public ISequenceItem this[int index]
{
get
{
if (index < 0 || index >= Count)
{
throw new ArgumentOutOfRangeException(
Properties.Resource.ParameterNameIndex,
Properties.Resource.ParameterMustLessThanCount);
}
int sourceLength = Source.Count;
int trueIndex = index;
int start = RangeStart;
// If RangeStart is negative then treat it as zero.
if (start < 0)
{
start = 0;
}
// Get the true index (index of the source sequence).
if (Reversed)
{
trueIndex = (start + Count - 1) - index;
}
else
{
trueIndex += start;
}
ISequenceItem item = Source[trueIndex];
// SparseSequence will return null if there is no sequence item present in the specified position.
if (item == null)
{
return(null);
}
if (Complemented)
{
if (Alphabet == Alphabets.DNA)
{
return(Complementation.GetDnaComplement((Nucleotide)item));
}
else
{
return(Complementation.GetRnaComplement((Nucleotide)item));
}
}
else
{
return(item);
}
}
set
{
string message = "Modifying a source sequence through a derived sequence is not supported.";
Trace.Report(message);
throw new NotSupportedException(message);
}
}