src/algo/align/util/demo/hfilter/hitfilter_app.cpp File Reference

#include <ncbi_pch.hpp>
#include "hitfilter_app.hpp"
#include <algo/align/util/hit_filter.hpp>
#include <objects/seqloc/Seq_id.hpp>
#include <objects/seq/Seq_annot.hpp>
#include <objects/seqalign/Dense_seg.hpp>
#include <objects/seqalign/Score.hpp>
#include <objects/seqalign/Seq_align_set.hpp>
#include <objects/general/Object_id.hpp>
#include <util/util_exception.hpp>
#include <serial/objistr.hpp>
#include <serial/serial.hpp>
#include <objmgr/object_manager.hpp>
#include <objmgr/scope.hpp>
#include <objmgr/util/sequence.hpp>
#include <objtools/data_loaders/genbank/gbloader.hpp>

Include dependency graph for hitfilter_app.cpp:

Go to the source code of this file.

Functions
	USING_SCOPE (objects)
const string	g_m8 ("m8")
const string	g_AsnTxt ("asntxt")
const string	g_AsnBin ("asnbin")
const string	kMode_Pairwise ("pairwise")
const string	kMode_Multiple ("multiple")
const CAppHitFilter::THit::TCoord	kMinHitLen (10)
const double	kBigDbl (0.5 *numeric_limits< float >::max())
const string	kBoth ("strict")
const string	kQuery ("query")
const string	kSubj ("subject")
bool	s_PHitRefScore (const CAppHitFilter::THitRef &lhs, const CAppHitFilter::THitRef &rhs)
int	main (int argc, const char *argv[])
Variables
END_NCBI_SCOPE	USING_NCBI_SCOPE

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Function Documentation

const string @0::g_AsnBin (  "asnbin"   )  [static]

Referenced by CAppHitFilter::Init(), and CAppHitFilter::Run().

const string @0::g_AsnTxt (  "asntxt"   )  [static]

Referenced by CAppHitFilter::Init(), and CAppHitFilter::Run().

const string @0::g_m8 (  "m8"   )  [static]

Referenced by CAppHitFilter::Init(), CAppHitFilter::x_DumpOutput(), and CAppHitFilter::x_ReadInputHits().

const double @0::kBigDbl (  0.5 *numeric_limits< float >::  max()  )  [static]

const string @0::kBoth (  "strict"   )  [static]

const CAppHitFilter::THit::TCoord @0::kMinHitLen (  10   )  [static]

Referenced by CAppHitFilter::Init().

const string @0::kMode_Multiple (  "multiple"   )  [static]

Referenced by CAppHitFilter::Init(), and CAppHitFilter::Run().

const string @0::kMode_Pairwise (  "pairwise"   )  [static]

Referenced by CAppHitFilter::Init().

const string @0::kQuery (  "query"   )  [static]

const string @0::kSubj (  "subject"   )  [static]

int main (  int  argc, const char *  argv[] )

Definition at line 762 of file hitfilter_app.cpp. References eDS_Default.

bool s_PHitRefScore (  const CAppHitFilter::THitRef &  lhs, const CAppHitFilter::THitRef &  rhs )

Definition at line 495 of file hitfilter_app.cpp. Referenced by CAppHitFilter::x_DoMultiple(), and CAppHitFilter::x_DoPairwise().

USING_SCOPE (  objects   )

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Variable Documentation

END_NCBI_SCOPE USING_NCBI_SCOPE

Definition at line 760 of file hitfilter_app.cpp.

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