public SingleRestrictionLineReader(File input, TabixIndexReader tir, RegionRestriction region)
throws IOException {
if (region == null) {
throw new NullPointerException();
}
mSequence = region.getSequenceName();
mBeg = region.getStart();
mEnd = region.getEnd();
final BlockCompressedLineReader bclr =
new BlockCompressedLineReader(new BlockCompressedInputStream(input));
mBCPositionReader =
tir.getOptions().mFormat == TabixIndexer.TabixOptions.FORMAT_VCF
? new VcfPositionReader(bclr, tir.getOptions().mSkip)
: new GenericPositionReader(bclr, tir.getOptions());
mRange = tir.getFilePointers(region);
if (mRange != null) {
mBCPositionReader.seek(mRange.start(0));
}
}
