Examples of org.broadinstitute.gatk.engine.refdata.utils.FlashBackIterator

org.broadinstitute.gatk.engine.refdata.utils.FlashBackIterator

@author aaron Class FlashBackIterator better than acid washed jeans...more like a Delorean that flies through time This iterator buffers a certain amount of ROD data to 'flash back' to. This is needed for using ROD's in read traversals, because between shards we sometimes (actually often) need to go back to before the current iterators location and get RODs that overlap the current read.

    public LocationAwareSeekableRODIterator createNewResource() {
        if(numIterators() > 0)
            throw new ReviewedGATKException("BUG: Tried to create multiple iterators over streaming ROD interface");
        RMDTrack track = builder.createInstanceOfTrack(fileDescriptor);
        LocationAwareSeekableRODIterator iter = new SeekableRODIterator(track.getHeader(),track.getSequenceDictionary(),referenceSequenceDictionary,genomeLocParser,track.getIterator());
        return (flashbackData) ? new FlashBackIterator(iter) : iter;
    }

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