public BufferedPositions Purge()
{
var copyOfBuffer = BufferedPositions;
BufferedPositions = BufferedPositions.CreateEmptyBufferedPositions();
return(copyOfBuffer);
}
} // used to find overlap genes for now
public PositionBuffer(ICodonInfoProvider codonInfoProvider, IIntervalForest <IGene> geneIntervalForest)
{
CodonInfoProvider = codonInfoProvider;
GeneIntervalForest = geneIntervalForest;
CurrentChromosome = new EmptyChromosome(string.Empty);
BufferedPositions = BufferedPositions.CreateEmptyBufferedPositions();
}
public BufferedPositions AddPosition(ISimplePosition simplePosition)
{
bool recomposable = IsRecomposable(simplePosition);
bool isPositionWithinRange = !simplePosition.Chromosome.IsEmpty() && PositionWithinRange(simplePosition);
if (isPositionWithinRange)
{
BufferedPositions.SimplePositions.Add(simplePosition);
BufferedPositions.Recomposable.Add(recomposable);
if (recomposable)
{
UpdateFunctionBlockRanges(simplePosition);
}
return(BufferedPositions.CreateEmptyBufferedPositions());
}
var copyOfBuffer = BufferedPositions;
ResetBuffer(simplePosition, recomposable);
return(copyOfBuffer);
}