NCBI C++ ToolKit
Public Member Functions | Static Public Member Functions | Private Types | Static Private Member Functions | Private Attributes | List of all members
CGeneCache Class Reference

Search Toolkit Book for CGeneCache

#include <objtools/validator/gene_cache.hpp>

+ Collaboration diagram for CGeneCache:

Public Member Functions

 CGeneCache ()
 
 ~CGeneCache ()
 
CConstRef< CSeq_featGetGeneFromCache (const CSeq_feat *feat, CScope &scope)
 
CConstRef< CSeq_featGetmRNAFromCache (const CSeq_feat *feat, CScope &scope)
 
CRef< feature::CFeatTree > GetFeatTreeFromCache (const CSeq_loc &loc, CScope &scope)
 
CRef< feature::CFeatTree > GetFeatTreeFromCache (const CSeq_feat &feat, CScope &scope)
 
CRef< feature::CFeatTree > GetFeatTreeFromCache (CBioseq_Handle bh)
 
void Clear ()
 

Static Public Member Functions

static bool IsPseudo (const CSeq_feat &feat)
 

Private Types

typedef map< const CSeq_feat *, CConstRef< CSeq_feat > > TFeatGeneMap
 
typedef map< CBioseq_Handle, CRef< feature::CFeatTree > > TSeqTreeMap
 

Static Private Member Functions

static bool x_IsPseudo (const CGene_ref &gref)
 
static bool x_HasNamedQual (const CSeq_feat &feat, const string &qual)
 

Private Attributes

TFeatGeneMap m_FeatGeneMap
 
TSeqTreeMap m_SeqTreeMap
 

Detailed Description

Definition at line 78 of file gene_cache.hpp.

Member Typedef Documentation

◆ TFeatGeneMap

Definition at line 93 of file gene_cache.hpp.

◆ TSeqTreeMap

typedef map<CBioseq_Handle, CRef<feature::CFeatTree> > CGeneCache::TSeqTreeMap
private

Definition at line 96 of file gene_cache.hpp.

Constructor & Destructor Documentation

◆ CGeneCache()

CGeneCache::CGeneCache ( )
inline

Definition at line 81 of file gene_cache.hpp.

◆ ~CGeneCache()

CGeneCache::~CGeneCache ( )
inline

Definition at line 82 of file gene_cache.hpp.

Member Function Documentation

◆ Clear()

void CGeneCache::Clear ( void  )
inline

Definition at line 89 of file gene_cache.hpp.

Referenced by CValidError_imp::SetTSE(), and CValidError_feat::SetTSE().

◆ GetFeatTreeFromCache() [1/3]

CRef< feature::CFeatTree > CGeneCache::GetFeatTreeFromCache ( CBioseq_Handle  bh)

Definition at line 63 of file gene_cache.cpp.

References f().

◆ GetFeatTreeFromCache() [2/3]

CRef< feature::CFeatTree > CGeneCache::GetFeatTreeFromCache ( const CSeq_feat feat,
CScope scope 
)

Definition at line 100 of file gene_cache.cpp.

References CSeq_feat_Base::GetLocation().

◆ GetFeatTreeFromCache() [3/3]

CRef< feature::CFeatTree > CGeneCache::GetFeatTreeFromCache ( const CSeq_loc loc,
CScope scope 
)

◆ GetGeneFromCache()

CConstRef< CSeq_feat > CGeneCache::GetGeneFromCache ( const CSeq_feat feat,
CScope scope 
)

◆ GetmRNAFromCache()

CConstRef<CSeq_feat> CGeneCache::GetmRNAFromCache ( const CSeq_feat feat,
CScope scope 
)

◆ IsPseudo()

bool CGeneCache::IsPseudo ( const CSeq_feat feat)
static

◆ x_HasNamedQual()

bool CGeneCache::x_HasNamedQual ( const CSeq_feat feat,
const string qual 
)
staticprivate

◆ x_IsPseudo()

bool CGeneCache::x_IsPseudo ( const CGene_ref gref)
staticprivate

Definition at line 150 of file gene_cache.cpp.

References CGene_ref_Base::GetPseudo(), and CGene_ref_Base::IsSetPseudo().

Member Data Documentation

◆ m_FeatGeneMap

TFeatGeneMap CGeneCache::m_FeatGeneMap
private

Definition at line 94 of file gene_cache.hpp.

◆ m_SeqTreeMap

TSeqTreeMap CGeneCache::m_SeqTreeMap
private

Definition at line 97 of file gene_cache.hpp.


The documentation for this class was generated from the following files:
Modified on Sat May 25 14:19:14 2024 by modify_doxy.py rev. 669887