Package picard.illumina.parser.readers

Examples of picard.illumina.parser.readers.FilterFileReader

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    /** Wrap a filterFile reader in a closeable iterator and return it*/
    @Override
    protected CloseableIterator<PfData> makeTileIterator(final File iterator) {
        return new CloseableIterator<PfData>() {
            private FilterFileReader reader = new FilterFileReader(iterator);

            public void close() {
                reader = null;
            }

            public boolean hasNext() {
                return reader.hasNext();
            }

            public PfData next() {
                final boolean nextValue = reader.next();
                return new PfData() {
                    public boolean isPf() {
                        return nextValue;
                    }
                };
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public class MultiTileFilterParser extends MultiTileParser<PfData> {
    private final FilterFileReader reader;

    public MultiTileFilterParser(final TileIndex tileIndex, final List<Integer> requestedTiles, final File filterFile) {
        super(tileIndex, requestedTiles, Collections.singleton(IlluminaDataType.PF));
        reader = new FilterFileReader(filterFile);
    }
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Related Classes of picard.illumina.parser.readers.FilterFileReader

  • picard.illumina.parser.FilterParser
  • picard.illumina.parser.MultiTileFilterParser
  • java.nio.ByteBuffer
  • picard.PicardException
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