Examples of SeekableHTTPStream

htsjdk.samtools.seekablestream.SeekableHTTPStream
net.sf.samtools.util.SeekableHTTPStream
@author jrobinso

Examples of htsjdk.samtools.seekablestream.SeekableHTTPStream

        unBufferedStream.seek(startPosition);
        int bytesRead = unBufferedStream.read(buffer1, 0, length);
        assertEquals(length, bytesRead);


        byte[] buffer2 = new byte[length];
        SeekableStream bufferedStream = new IGVSeekableBufferedStream(new SeekableHTTPStream(new URL(BAM_URL_STRING)));
        bufferedStream.seek(startPosition);
        bytesRead = bufferedStream.read(buffer2, 0, length);
        assertEquals(length, bytesRead);


        assertArraysEqual(buffer1, buffer2);

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Examples of htsjdk.samtools.seekablestream.SeekableHTTPStream

        long startPosition = fileLength - remainder;
        int length = 1000;




        byte[] buffer = new byte[length];
        SeekableStream bufferedStream = new IGVSeekableBufferedStream(new SeekableHTTPStream(new URL(BAM_URL_STRING)));
        bufferedStream.seek(startPosition);
        int bytesRead = bufferedStream.read(buffer, 0, length);
        assertEquals(remainder, bytesRead);


        // Subsequent reads should return -1

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Examples of net.sf.samtools.util.SeekableHTTPStream

     * @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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