CAppendModToOrg Class Reference

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#include <gui/packages/pkg_sequence_edit/append_mod_to_org.hpp>

Collaboration diagram for CAppendModToOrg:

Public Member Functions
	CAppendModToOrg (bool isOrgMod, int subtype, string abbr, bool use_abbr, bool only_sp, bool only_cf, bool only_aff, bool only_nr, bool no_taxid, bool EndsWith=false, CRef< CEditingActionConstraint > constraint=CRef< CEditingActionConstraint >(NULL))
CRef< CCmdComposite >	GetCommand (objects::CSeq_entry_Handle tse)

Private Member Functions
void	apply_to_seq_and_feat (objects::CSeq_entry_Handle tse, CCmdComposite *composite)
void	x_ApplyToDescriptors (const objects::CSeq_entry &se, CCmdComposite *composite)
bool	x_ApplyToBioSource (objects::CBioSource &biosource)

Private Attributes
bool	m_IsOrgMod
int	m_Subtype
string	m_Abbreviation
bool	m_Use_Abbreviation
bool	m_Only_sp
bool	m_Only_cf
bool	m_Only_aff
bool	m_Only_nr
bool	m_No_taxid
bool	m_EndsWith
CRef< CEditingActionConstraint >	m_constraint
CRef< objects::CScope >	m_Scope

Detailed Description

Definition at line 40 of file append_mod_to_org.hpp.

Constructor & Destructor Documentation

CAppendModToOrg()

CAppendModToOrg::CAppendModToOrg ( bool  isOrgMod, int  subtype, string  abbr, bool  use_abbr, bool  only_sp, bool  only_cf, bool  only_aff, bool  only_nr, bool  no_taxid, bool  EndsWith = false, CRef< CEditingActionConstraint >  constraint = CRef<CEditingActionConstraint>(NULL)  )

inline

Definition at line 43 of file append_mod_to_org.hpp.

Member Function Documentation

apply_to_seq_and_feat()

void CAppendModToOrg::apply_to_seq_and_feat ( objects::CSeq_entry_Handle  tse, CCmdComposite *  composite  )

private

Definition at line 52 of file append_mod_to_org.cpp.

References CCmdComposite::AddCommand(), CSerialObject::Assign(), cmd, CSeqFeatData_Base::e_Biosrc, CSeq_entry_Handle::GetCompleteSeq_entry(), m_constraint, CEditingActionConstraint::Match(), CSeq_feat_Base::SetData(), x_ApplyToBioSource(), and x_ApplyToDescriptors().

Referenced by GetCommand().

GetCommand()

CRef< CCmdComposite > CAppendModToOrg::GetCommand

(

objects::CSeq_entry_Handle

tse

)

Definition at line 41 of file append_mod_to_org.cpp.

References apply_to_seq_and_feat(), CSeq_entry_Handle::GetScope(), m_Scope, and CRef< C, Locker >::Reset().

Referenced by CAppendModToOrgDlg::GetCommand(), and CEditingBtnsPanel::StrainToSp().

x_ApplyToBioSource()

bool CAppendModToOrg::x_ApplyToBioSource ( objects::CBioSource &  biosource )

private

Definition at line 91 of file append_mod_to_org.cpp.

References NMacroUtil::CleanupForTaxnameChange(), NStr::EndsWith(), NStr::eNocase, NStr::Equal(), COrgMod_Base::eSubtype_bio_material, COrgMod_Base::eSubtype_culture_collection, COrgMod_Base::eSubtype_specimen_voucher, FOR_EACH_DBXREF_ON_ORGREF, FOR_EACH_ORGMOD_ON_BIOSOURCE, FOR_EACH_SUBSOURCE_ON_BIOSOURCE, CBioSource_Base::GetOrg(), COrg_ref_Base::GetOrgname(), CBioSource::GetTaxname(), COrg_ref_Base::GetTaxname(), COrg_ref_Base::IsSetDb(), COrgName_Base::IsSetMod(), CBioSource_Base::IsSetOrg(), COrg_ref_Base::IsSetOrgname(), CBioSource_Base::IsSetSubtype(), CBioSource::IsSetTaxname(), COrg_ref_Base::IsSetTaxname(), m_Abbreviation, m_EndsWith, m_IsOrgMod, m_No_taxid, m_Only_aff, m_Only_cf, m_Only_nr, m_Only_sp, m_Subtype, m_Use_Abbreviation, NStr::ReplaceInPlace(), CBioSource_Base::SetOrg(), NStr::StartsWith(), str(), and NStr::TruncateSpacesInPlace().

Referenced by apply_to_seq_and_feat(), and x_ApplyToDescriptors().

x_ApplyToDescriptors()

void CAppendModToOrg::x_ApplyToDescriptors ( const objects::CSeq_entry &  se, CCmdComposite *  composite  )

private

Definition at line 68 of file append_mod_to_org.cpp.

References CCmdComposite::AddCommand(), CSerialObject::Assign(), cmd, FOR_EACH_SEQDESC_ON_SEQENTRY, FOR_EACH_SEQENTRY_ON_SEQSET, CSeq_entry_Base::GetSet(), CSeq_entry_Base::IsSet(), m_constraint, m_Scope, CEditingActionConstraint::Match(), CSeqdesc_Base::SetSource(), and x_ApplyToBioSource().

Referenced by apply_to_seq_and_feat().

Member Data Documentation

m_Abbreviation

string CAppendModToOrg::m_Abbreviation

private

Definition at line 57 of file append_mod_to_org.hpp.

Referenced by x_ApplyToBioSource().

m_constraint

CRef<CEditingActionConstraint> CAppendModToOrg::m_constraint

private

Definition at line 61 of file append_mod_to_org.hpp.

Referenced by apply_to_seq_and_feat(), and x_ApplyToDescriptors().

m_EndsWith

bool CAppendModToOrg::m_EndsWith

private

Definition at line 60 of file append_mod_to_org.hpp.

Referenced by x_ApplyToBioSource().

m_IsOrgMod

bool CAppendModToOrg::m_IsOrgMod

private

Definition at line 55 of file append_mod_to_org.hpp.

Referenced by x_ApplyToBioSource().

m_No_taxid

bool CAppendModToOrg::m_No_taxid

private

Definition at line 59 of file append_mod_to_org.hpp.

Referenced by x_ApplyToBioSource().

m_Only_aff

bool CAppendModToOrg::m_Only_aff

private

Definition at line 59 of file append_mod_to_org.hpp.

Referenced by x_ApplyToBioSource().

m_Only_cf

bool CAppendModToOrg::m_Only_cf

private

Definition at line 59 of file append_mod_to_org.hpp.

Referenced by x_ApplyToBioSource().

m_Only_nr

bool CAppendModToOrg::m_Only_nr

private

Definition at line 59 of file append_mod_to_org.hpp.

Referenced by x_ApplyToBioSource().

m_Only_sp

bool CAppendModToOrg::m_Only_sp

private

Definition at line 59 of file append_mod_to_org.hpp.

Referenced by x_ApplyToBioSource().

m_Scope

CRef<objects::CScope> CAppendModToOrg::m_Scope

private

Definition at line 62 of file append_mod_to_org.hpp.

Referenced by GetCommand(), and x_ApplyToDescriptors().

m_Subtype

int CAppendModToOrg::m_Subtype

private

Definition at line 56 of file append_mod_to_org.hpp.

Referenced by x_ApplyToBioSource().

m_Use_Abbreviation

bool CAppendModToOrg::m_Use_Abbreviation

private

Definition at line 58 of file append_mod_to_org.hpp.

Referenced by x_ApplyToBioSource().

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

• include/gui/packages/pkg_sequence_edit/append_mod_to_org.hpp
• src/gui/packages/pkg_sequence_edit/append_mod_to_org.cpp