Examples of net.sf.samtools.util.SeekableBufferedStream

net.sf.samtools.util.SeekableBufferedStream
A wrapper class to provide buffered read access to a SeekableStream. Just wrapping such a stream with a BufferedInputStream will not work as it does not support seeking. In this implementation a seek call is delegated to the wrapped stream, and the buffer reset.

     * @param url         BAM.
     * @param indexFile   Location of index file, or null if indexed access not required.
     * @param eagerDecode eagerDecode if true, decode SAM record entirely when reading it.
     */
    public SAMFileReader(final URL url, final File indexFile, final boolean eagerDecode) {
        init(new SeekableBufferedStream(new SeekableHTTPStream(url)),
                indexFile, eagerDecode, defaultValidationStringency);
    }

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Related Classes of net.sf.samtools.util.SeekableBufferedStream

net.sf.samtools.SAMFileReader

java.io.BufferedInputStream

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