/usr/include/ngs/itf/FragmentItf.hpp is in libngs-sdk-dev 1.3.0-2.
This file is owned by root:root, with mode 0o644.
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*
* PUBLIC DOMAIN NOTICE
* National Center for Biotechnology Information
*
* This software/database is a "United States Government Work" under the
* terms of the United States Copyright Act. It was written as part of
* the author's official duties as a United States Government employee and
* thus cannot be copyrighted. This software/database is freely available
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*
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#ifndef _hpp_ngs_itf_fragmentitf_
#define _hpp_ngs_itf_fragmentitf_
#ifndef _hpp_ngs_itf_refcount_
#include <ngs/itf/Refcount.hpp>
#endif
struct NGS_Fragment_v1;
namespace ngs
{
/*----------------------------------------------------------------------
* forwards
*/
class StringItf;
/*----------------------------------------------------------------------
* FragmentItf
*/
class FragmentItf : public Refcount < FragmentItf, NGS_Fragment_v1 >
{
public:
StringItf * getFragmentId () const
throw ( ErrorMsg );
StringItf * getFragmentBases () const
throw ( ErrorMsg );
StringItf * getFragmentBases ( uint64_t offset ) const
throw ( ErrorMsg );
StringItf * getFragmentBases ( uint64_t offset, uint64_t length ) const
throw ( ErrorMsg );
StringItf * getFragmentQualities () const
throw ( ErrorMsg );
StringItf * getFragmentQualities ( uint64_t offset ) const
throw ( ErrorMsg );
StringItf * getFragmentQualities ( uint64_t offset, uint64_t length ) const
throw ( ErrorMsg );
bool nextFragment ()
throw ( ErrorMsg );
bool isPaired () const
throw ( ErrorMsg );
bool isAligned () const
throw ( ErrorMsg );
};
} // namespace ngs
#endif // _hpp_ngs_itf_fragmentitf_
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