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#include <LibBlasrConfig.h>
#ifdef USE_PBBAM
#ifndef PBIFILTER_ZMWGROUPQUERY_H
#define PBIFILTER_ZMWGROUPQUERY_H
#include <memory>
#include <pbbam/PbiFilter.h>
#include <pbbam/internal/QueryBase.h>
namespace PacBio {
namespace BAM {
/// This class operates on a name-sorted BAM file, with each iteration of the query
/// returning each contiguous block of records that share a name.
///
/// \note Iterate over zmws, return vector of subreads of a zmw each time.
///
class PBBAM_EXPORT PbiFilterZmwGroupQuery : public internal::IGroupQuery
{
public:
PbiFilterZmwGroupQuery(const DataSet& dataset);
PbiFilterZmwGroupQuery(const PbiFilter& filter, const DataSet& dataset);
~PbiFilterZmwGroupQuery(void);
public:
bool GetNext(std::vector<BamRecord>& records);
private:
struct PbiFilterZmwGroupQueryPrivate;
std::unique_ptr<PbiFilterZmwGroupQueryPrivate> d_;
};
} // namespace BAM
} // namespace PacBio
#endif // PBIFILTER_ZMWGROUPQUERY_H
#endif
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