// constructor
public ClinVarXmlReader(FileInfo clinVarXmlFileInfo, ISequenceProvider sequenceProvider)
{
_sequenceProvider = sequenceProvider;
_aligner = new VariantAligner(_sequenceProvider.Sequence);
_clinVarXmlFileInfo = clinVarXmlFileInfo;
_refChromDict = sequenceProvider.RefNameToChromosome;
}
// constructor
public ClinVarXmlReader(FileInfo clinVarXmlFileInfo, CompressedSequenceReader reader,
ICompressedSequence compressedSequence)
{
_dataFileManager = new DataFileManager(reader, compressedSequence);
_compressedSequence = compressedSequence;
_aligner = new VariantAligner(compressedSequence);
_clinVarXmlFileInfo = clinVarXmlFileInfo;
}