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hdf5_impl/hdf5SequenceIterator.h

    00001 /*
    00002  * Copyright (C) 2012 by Glenn Hickey (hickey@soe.ucsc.edu)
    00003  *
    00004  * Released under the MIT license, see LICENSE.txt
    00005  */
    00006
    00007 #ifndef _HDF5SEQUENCEITERATOR_H
    00008 #define _HDF5SEQUENCEITERATOR_H
    00009
    00010 #include <H5Cpp.h>
    00011 #include "halSequenceIterator.h"
    00012 #include "hdf5ExternalArray.h"
    00013 #include "hdf5Genome.h"
    00014 #include "hdf5Sequence.h"
    00015
    00016 namespace hal {
    00017
    00018 class HDF5BottomSegmentIterator;
    00019
    00020 class HDF5SequenceIterator : public SequenceIterator
    00021 {
    00022    friend class HDF5BottomSegmentIterator;
    00023 public:
    00024
    00025    HDF5SequenceIterator(HDF5Genome* genome, hal_index_t index);
    00026    ~HDF5SequenceIterator();
    00027
    00028    // SEQUENCE ITERATOR METHODS
    00029    SequenceIteratorPtr copy();
    00030    SequenceIteratorConstPtr copy() const;
    00031    void toNext() const;
    00032    void toPrev() const;
    00033    Sequence* getSequence();
    00034    const Sequence* getSequence() const;
    00035
    00036 protected:
    00037    HDF5Sequence _sequence;
    00038 };
    00039
    00040 }
    00041 #endif

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