List of reposition() Examples

Examples of reposition()

com.slytechs.utils.memory.BufferBlock.reposition()
com.slytechs.utils.memory.PartialBuffer.reposition()
Repositions the ByteBuffer properties "position" and "limit" to the bounds specified by regional and length. The regional position is remapped to a local posiiton and the buffer properites are reset. @param regional regional position to set the ByteBuffer "position" property @param length the length of the requested region which is also used to calculate the ByteBuffer's limit property value
edu.cornell.med.icb.goby.alignments.AlignmentReader.reposition()
edu.cornell.med.icb.goby.alignments.AlignmentReaderImpl.reposition()
edu.cornell.med.icb.goby.counts.CountBinningAdapterI.reposition()
edu.cornell.med.icb.goby.counts.CountBinningAdaptor.reposition()
org.apache.derby.impl.jdbc.PositionedStoreStream.reposition()
Repositions the underlying store stream to the requested position.
Repositioning is required because there can be several uses of the store stream, which changes the position of it. If a class is dependent on the underlying stream not changing its position, it must call reposition with the position it expects before using the stream again. @throws IOException if reading from the store stream fails @throws StandardException if resetting the store in stream fails, orsome other exception happens in store @see #getPosition
org.enhydra.shark.xpdl.XMLCollection.reposition()

Examples of com.slytechs.utils.memory.BufferBlock.reposition()

  private PartialBuffer fetchFromChannelAndCache(long regional, int length,
      MemoryModel memoryModel) throws IOException {


    final BufferBlock partial = fetchFromChannel(regional, length, mode,
        memoryModel);
    partial.reposition(regional, length);


    cache.add(partial);
    globalCache.add(partial);


    return partial;

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Examples of com.slytechs.utils.memory.PartialBuffer.reposition()

    } else {
      fromCache = true;
    }


    try {
      p.reposition(regional, length);


    } catch (IndexOutOfBoundsException e) {
      throw new BufferFetchException("Can not reposition buffer", p,
          regional, length, fromCache, e);
    }

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Examples of com.slytechs.utils.memory.PartialBuffer.reposition()

      final int blockSize = pickBlockSize(regional, length);


      p = fetchFromChannelAndCache(regional, blockSize, model);
    }


    p.reposition(regional, length);


    return p;
  }


  private PartialBuffer fetchFromCache(final long start, final int size) {

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Examples of com.slytechs.utils.memory.PartialBuffer.reposition()

      p = fetchFromChannelAndCache(regional, minimum, model);


    } else {
      final int minimum = pickMinimumSize(regional, length, p);


      p.reposition(regional, minimum);
    }


    return p;
  }

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Examples of com.slytechs.utils.memory.PartialBuffer.reposition()

    PartialBuffer p = fetchFromCache(regional, length);
    if (p == null) {
      final int minimum = pickMinimumSize(regional, length);


      p = fetchFromChannelAndCache(regional, minimum, model);
      p.reposition(regional, minimum);


    } else {
      final int minimum = pickMinimumSize(regional, length, p);


      p.reposition(regional, minimum);

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Examples of com.slytechs.utils.memory.PartialBuffer.reposition()

      p.reposition(regional, minimum);


    } else {
      final int minimum = pickMinimumSize(regional, length, p);


      p.reposition(regional, minimum);
    }


    return p;
  }

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Examples of com.slytechs.utils.memory.PartialBuffer.reposition()

      partial = fetchPartialBuffer(headerReader, global, (int) length);
    } else {
      partial = min;
    }


    partial.reposition(regional, (int) length);


    return partial.getByteBuffer();


  }

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Examples of edu.cornell.med.icb.goby.alignments.AlignmentReader.reposition()


    // Test below is disabled, it depends on a resource we don't control
    @Ignore
    public void testOldGobyHybridUrl() throws IOException {
        AlignmentReader reader = new AlignmentReaderImpl("http://gobyweb.apps.campagnelab.org/data/H_T_D/MYHZZJH/MYHZZJH-hybrid-domain.header");
        reader.reposition(10, 1210);
        final Alignments.AlignmentEntry entry = reader.skipTo(10, 1210);
        org.junit.Assert.assertNotNull(entry);
    }


    private String basesToText(byte[] bases) {

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Examples of edu.cornell.med.icb.goby.alignments.AlignmentReaderImpl.reposition()


    // Test below is disabled, it depends on a resource we don't control
    @Ignore
    public void testOldGobyHybridUrl() throws IOException {
        AlignmentReader reader = new AlignmentReaderImpl("http://gobyweb.apps.campagnelab.org/data/H_T_D/MYHZZJH/MYHZZJH-hybrid-domain.header");
        reader.reposition(10, 1210);
        final Alignments.AlignmentEntry entry = reader.skipTo(10, 1210);
        org.junit.Assert.assertNotNull(entry);
    }


    private String basesToText(byte[] bases) {

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Examples of edu.cornell.med.icb.goby.counts.CountBinningAdapterI.reposition()

            updateNormalizationFactor();
            CountBinningAdapterI binAdaptor = new CountBinningAdaptor(reader, binSize);
            if (counts.hasIndex()) {
                // we can only reposition if the countsreader has an index. Otherwise, we trust the
               // caching counts  archive  to have created a new reader positioned at the start of the counts sequence.
                binAdaptor.reposition(startLocation);
            }
            binAdaptor.skipTo(startLocation);


            int position = binAdaptor.getPosition();
            ObjectArrayList<LocusScore> result = new ObjectArrayList<LocusScore>();

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