halapi hierarchichalalignmentformatapi

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inc/topSegment.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 _TOPSEGMENT_H
    00008 #define _TOPSEGMENT_H
    00009
    00010 #include "genomeSegment.h"
    00011
    00012 namespace hal {
    00013
    00017 class TopSegment: public GenomeSegment
    00018 {
    00019 public:
    00021         segidx_t getParentIndex() const;
    00023         bool getReverseComp() const;
    00025         segidx_t getRepeatIndex() const;
    00026
    00027 protected:
    00028         segidx_t _parentSegIdx;
    00029         bool _parentSegReverse;
    00030         segidx_t _repeatSegIdx;
    00031 };
    00032
    00033 }
    00034 #endif

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