CSpecificHostMapForFix Class Reference

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#include <objtools/validator/tax_validation_and_cleanup.hpp>

Inheritance diagram for CSpecificHostMapForFix:

Collaboration diagram for CSpecificHostMapForFix:

Public Member Functions
	CSpecificHostMapForFix ()
string	GetKey (const string &orig_val, const COrg_ref &) const override
bool	ApplyToOrg (COrg_ref &org) const override
Public Member Functions inherited from CQualLookupMap
	CQualLookupMap (COrgMod::ESubtype subtype)
virtual	~CQualLookupMap ()
bool	IsPopulated () const
void	Clear ()
virtual bool	Check (const COrg_ref &) const
void	AddDesc (CConstRef< CSeqdesc > desc, CConstRef< CSeq_entry > ctx)
void	AddFeat (CConstRef< CSeq_feat > feat)
void	AddOrg (const COrg_ref &org)
void	AddString (const string &val)
vector< CRef< COrg_ref > >	GetRequestList ()
string	IncrementalUpdate (const vector< CRef< COrg_ref > > &input, const CTaxon3_reply &reply, TTaxId descTaxID=ZERO_TAX_ID)
bool	IsUpdateComplete () const
void	PostErrors (CValidError_imp &imp)
virtual void	ListErrors (vector< TTaxError > &errs) const

Protected Member Functions
CRef< CQualifierRequest >	x_MakeNewRequest (const string &orig_val, const COrg_ref &org) override
Protected Member Functions inherited from CQualLookupMap
TQualifierRequests::iterator	x_FindRequest (const string &val)

Static Protected Member Functions
static string	x_DefaultSpecificHostAdjustments (const string &host_val)

Additional Inherited Members
Protected Types inherited from CQualLookupMap
typedef map< string, CRef< CQualifierRequest > >	TQualifierRequests
Protected Attributes inherited from CQualLookupMap
TQualifierRequests	m_Map
COrgMod::ESubtype	m_Subtype
bool	m_Populated

Detailed Description

Definition at line 296 of file tax_validation_and_cleanup.hpp.

Constructor & Destructor Documentation

CSpecificHostMapForFix()

CSpecificHostMapForFix::CSpecificHostMapForFix ( )

inline

Definition at line 299 of file tax_validation_and_cleanup.hpp.

Member Function Documentation

ApplyToOrg()

bool CSpecificHostMapForFix::ApplyToOrg ( COrg_ref &  org ) const

overridevirtual

Implements CQualLookupMap.

Definition at line 1119 of file tax_validation_and_cleanup.cpp.

References map_checker< Container >::end(), NStr::Equal(), COrgMod_Base::eSubtype_nat_host, map_checker< Container >::find(), COrg_ref_Base::GetOrgname(), NStr::IsBlank(), COrgName_Base::IsSetMod(), COrg_ref_Base::IsSetOrgname(), CQualLookupMap::m_Map, COrg_ref_Base::SetOrgname(), CSpecificHostRequest::SuggestFix(), and x_DefaultSpecificHostAdjustments().

Referenced by CTaxValidationAndCleanup::AdjustOrgRefsForSpecificHosts().

GetKey()

string CSpecificHostMapForFix::GetKey ( const string &  orig_val, const COrg_ref &    ) const

inlineoverridevirtual

Implements CQualLookupMap.

Definition at line 302 of file tax_validation_and_cleanup.hpp.

References x_DefaultSpecificHostAdjustments().

x_DefaultSpecificHostAdjustments()

string CSpecificHostMapForFix::x_DefaultSpecificHostAdjustments ( const string &  host_val )

staticprotected

Definition at line 1110 of file tax_validation_and_cleanup.cpp.

References COrgMod::FixHost(), and NStr::TruncateSpacesInPlace().

Referenced by ApplyToOrg(), and GetKey().

x_MakeNewRequest()

CRef< CQualifierRequest > CSpecificHostMapForFix::x_MakeNewRequest ( const string &  orig_val, const COrg_ref &  org  )

overrideprotectedvirtual

Implements CQualLookupMap.

Definition at line 1103 of file tax_validation_and_cleanup.cpp.

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The documentation for this class was generated from the following files:

• include/objtools/validator/tax_validation_and_cleanup.hpp
• src/objtools/validator/tax_validation_and_cleanup.cpp