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

Inheritance diagram for CBulkCDS:

Collaboration diagram for CBulkCDS:

Public Member Functions
	CBulkCDS ()
	Constructors. More...

	CBulkCDS (wxWindow parent, objects::CSeq_entry_Handle seh, IWorkbench workbench, CConstRef< objects::CSeq_submit > seqSubmit, wxWindowID id=wxID_ANY, const wxString &caption=_("CDS Editing"), const wxPoint &pos=wxDefaultPosition, const wxSize &size=wxDefaultSize, long style=wxCAPTION\|wxRESIZE_BORDER\|wxSYSTEM_MENU\|wxCLOSE_BOX\|wxTAB_TRAVERSAL)

	CBulkCDS (wxWindow parent, const vector< CSeq_feat_Handle > &feat_handles, IWorkbench workbench=NULL, wxWindowID id=wxID_ANY, const wxString &caption=_("CDS Editing"), const wxPoint &pos=wxDefaultPosition, const wxSize &size=wxDefaultSize, long style=wxCAPTION\|wxRESIZE_BORDER\|wxSYSTEM_MENU\|wxCLOSE_BOX\|wxTAB_TRAVERSAL)

bool	Create (wxWindow *parent, wxWindowID id=wxID_ANY, const wxString &caption=_("CDS Editing"), const wxPoint &pos=wxDefaultPosition, const wxSize &size=wxDefaultSize, long style=wxCAPTION\|wxRESIZE_BORDER\|wxSYSTEM_MENU\|wxCLOSE_BOX\|wxTAB_TRAVERSAL)
	Creation. More...

	~CBulkCDS ()
	Destructor. More...

void	Init ()
	Initialises member variables. More...

void	CreateControls ()
	Creates the controls and sizers. More...

CRef< objects::CSeq_table >	GetValuesTableFromSeqEntry ()

CRef< CCmdComposite >	GetCommandFromValuesTable (CRef< objects::CSeq_table >)

CRef< CCmdComposite >	GetCommand ()

CRef< objects::CSeq_table >	GetChoices (CRef< objects::CSeq_table > values_table)

int	GetCollapsible ()

string	GetErrorMessage ()

bool	IsReadOnlyColumn (string column_name)

wxBitmap	GetBitmapResource (const wxString &name)
	Retrieves bitmap resources. More...

wxIcon	GetIconResource (const wxString &name)
	Retrieves icon resources. More...

void	OnClickOk (wxCommandEvent &event)

void	OnClickCancel (wxCommandEvent &event)

virtual const CObject *	RowToScopedObjects (int row, TConstScopedObjects &objects, CBioseq_Handle &bsh)

void	GetUpdateMRNAProductNameCmd (CRef< CSeq_feat > cds, CScope &scope, const string &prot_name, CRef< CCmdComposite > composite)

Public Member Functions inherited from CReportEditingDialog
virtual bool	Show (bool show=1)
	Report opening events in dialogs used in the editing package. More...

Public Member Functions inherited from CSeqGridTableNav
	CSeqGridTableNav ()

virtual	~CSeqGridTableNav ()

void	NavigateToTextViewPosition (TConstScopedObjects &objects, objects::CBioseq_Handle bsh, const CObject obj, IWorkbench workbench)

void	JumpToTextView (int row)

virtual const CObject *	RowToScopedObjects (int row, TConstScopedObjects &objects, objects::CBioseq_Handle &bsh)=0

Static Public Member Functions
static bool	ShowToolTips ()
	Should we show tooltips? More...

Private Attributes
wxGrid *	m_Grid

vector< CSeq_feat_Handle >	m_FeatHandles

CSeqTableGridPanel *	m_GridPanel

CStringConstraintSelect *	m_StringConstraintPanel

bool	m_Modified

CApplyEditconvertPanel *	m_AecrPanel

wxCheckBox *	m_CopyProtNameToComment

Additional Inherited Members
Protected Attributes inherited from CSeqGridTableNav
IWorkbench *	m_Workbench

CConstRef< objects::CSeq_submit >	m_SeqSubmit

Detailed Description

Definition at line 49 of file bulk_cds_edit.hpp.

Constructor & Destructor Documentation

◆ CBulkCDS() [1/3]

CBulkCDS::CBulkCDS ( )

Constructors.

Definition at line 64 of file bulk_cds_edit.cpp.

References Init().

◆ CBulkCDS() [2/3]

CBulkCDS::CBulkCDS	(	wxWindow *	parent,
		objects::CSeq_entry_Handle	seh,
		IWorkbench *	workbench,
		CConstRef< objects::CSeq_submit >	seqSubmit,
		wxWindowID	id = `wxID_ANY`,
		const wxString &	caption = `_("CDS Editing")`,
		const wxPoint &	pos = `wxDefaultPosition`,
		const wxSize &	size = `wxDefaultSize`,
		long	style = `wxCAPTION\|wxRESIZE_BORDER\|wxSYSTEM_MENU\|wxCLOSE_BOX\|wxTAB_TRAVERSAL`
	)

Definition at line 69 of file bulk_cds_edit.cpp.

References Create(), CSeqFeatData::eSubtype_cdregion, CMappedFeat::GetSeq_feat_Handle(), Init(), m_FeatHandles, CSeqGridTableNav::m_SeqSubmit, CSeqGridTableNav::m_Workbench, and ncbi::grid::netcache::search::fields::size.

◆ CBulkCDS() [3/3]

CBulkCDS::CBulkCDS	(	wxWindow *	parent,
		const vector< CSeq_feat_Handle > &	feat_handles,
		IWorkbench *	workbench = `NULL`,
		wxWindowID	id = `wxID_ANY`,
		const wxString &	caption = `_("CDS Editing")`,
		const wxPoint &	pos = `wxDefaultPosition`,
		const wxSize &	size = `wxDefaultSize`,
		long	style = `wxCAPTION\|wxRESIZE_BORDER\|wxSYSTEM_MENU\|wxCLOSE_BOX\|wxTAB_TRAVERSAL`
	)

Definition at line 84 of file bulk_cds_edit.cpp.

References Create(), Init(), CSeqGridTableNav::m_Workbench, and ncbi::grid::netcache::search::fields::size.

◆ ~CBulkCDS()

CBulkCDS::~CBulkCDS ( )

Destructor.

Definition at line 110 of file bulk_cds_edit.cpp.

Member Function Documentation

◆ Create()

bool CBulkCDS::Create	(	wxWindow *	parent,
		wxWindowID	id = `wxID_ANY`,
		const wxString &	caption = `_("CDS Editing")`,
		const wxPoint &	pos = `wxDefaultPosition`,
		const wxSize &	size = `wxDefaultSize`,
		long	style = `wxCAPTION\|wxRESIZE_BORDER\|wxSYSTEM_MENU\|wxCLOSE_BOX\|wxTAB_TRAVERSAL`
	)

Creation.

Definition at line 94 of file bulk_cds_edit.cpp.

References CreateControls(), and ncbi::grid::netcache::search::fields::size.

Referenced by CBulkCDS().

◆ CreateControls()

void CBulkCDS::CreateControls ( )

Creates the controls and sizers.

Definition at line 125 of file bulk_cds_edit.cpp.

References _, eUnknown, GetChoices(), GetCollapsible(), CSeqTableGridPanel::GetGrid(), GetValuesTableFromSeqEntry(), CSeqTableGridPanel::InitColumnCollapse(), IsReadOnlyColumn(), ITERATE, m_AecrPanel, m_CopyProtNameToComment, m_FeatHandles, m_Grid, m_GridPanel, m_StringConstraintPanel, CSeqTableGridPanel::MakeColumnReadOnly(), NCBI_THROW, wxFIXED_MINSIZE, wxID_ANY, and wxT.

Referenced by Create().

◆ GetBitmapResource()

wxBitmap CBulkCDS::GetBitmapResource ( const wxString & name )

Retrieves bitmap resources.

Get bitmap resources

Definition at line 664 of file bulk_cds_edit.cpp.

◆ GetChoices()

CRef<objects::CSeq_table> CBulkCDS::GetChoices ( CRef< objects::CSeq_table > values_table )

inline

Definition at line 78 of file bulk_cds_edit.hpp.

Referenced by CreateControls().

◆ GetCollapsible()

int CBulkCDS::GetCollapsible ( )

inline

Definition at line 79 of file bulk_cds_edit.hpp.

Referenced by CreateControls().

◆ GetCommand()

CRef< CCmdComposite > CBulkCDS::GetCommand ( void )

Definition at line 638 of file bulk_cds_edit.cpp.

References cmd, GetCommandFromValuesTable(), CSeqTableGridPanel::GetValuesTable(), and m_GridPanel.

Referenced by CSequenceEditingEventHandler::BulkCdsEdit(), CEditingBtnsPanel::BulkEditCDS(), CDiscrepancyPanel::OnDblClk(), and CClickableSortUniqueCount::OnTreeItemActivated().

◆ GetCommandFromValuesTable()

CRef< CCmdComposite > CBulkCDS::GetCommandFromValuesTable ( CRef< objects::CSeq_table > )

Definition at line 355 of file bulk_cds_edit.cpp.

References CFeatureSeqTableColumnBase::AddToFeature(), AddValueToString(), CExistingTextDlg::AllowAdditionalQual(), CSerialObject::Assign(), CFeatureSeqTableColumnBase::ClearInFeature(), cmd, CFeatureSeqTableColumnBaseFactory::Create(), CreateAction(), CSeqFeatData_Base::e_Prot, eExistingText_cancel, eExistingText_replace_old, CFieldNamePanel::eFieldType_Feature, CSeqFeatData::eSubtype_cdregion, CScope::GetBioseqHandle(), CSeq_table::GetColumn(), CSeq_feat_Base::GetComment(), CSeq_feat_Base::GetData(), CSeqTable_column_Base::GetData(), CExistingTextDlg::GetExistingTextHandler(), CFeatureSeqTableColumnBase::GetFromFeat(), CMappedFeat::GetOriginalFeature(), CRef< C, Locker >::GetPointer(), CSeqFeatData_Base::GetProt(), CSeq_feat::GetProtXref(), CBioseq_Handle::GetScope(), CSeq_entry_Handle::GetScope(), CBioseq_Handle::GetSeq_entry_Handle(), CSeqTable_multi_data_Base::GetString(), GetUpdateMRNAProductNameCmd(), IEditingAction::GetValues(), CBioseq_Handle::IsProtein(), CSeq_feat_Base::IsSetComment(), NStr::Join(), kPartialStart, kPartialStop, m_CopyProtNameToComment, m_FeatHandles, m_Modified, msg(), NULL, prot, CSeq_feat::RemoveQualifier(), CSeq_feat_Base::ResetComment(), row, CSeq_feat_Base::SetComment(), CSeq_feat_Base::SetData(), IEditingActionFeat::SetFeat(), CSeq_feat::SetProtXref(), IEditingAction::SetTopSeqEntry(), ncbi::grid::netcache::search::fields::size, NStr::Split(), ToWxString(), val, and wxT.

Referenced by GetCommand().

◆ GetErrorMessage()

string CBulkCDS::GetErrorMessage ( )

Definition at line 645 of file bulk_cds_edit.cpp.

Referenced by CSequenceEditingEventHandler::BulkCdsEdit(), and CEditingBtnsPanel::BulkEditCDS().

◆ GetIconResource()

wxIcon CBulkCDS::GetIconResource ( const wxString & name )

Retrieves icon resources.

Get icon resources

Definition at line 677 of file bulk_cds_edit.cpp.

◆ GetUpdateMRNAProductNameCmd()

void CBulkCDS::GetUpdateMRNAProductNameCmd	(	CRef< CSeq_feat >	cds,
		CScope &	scope,
		const string &	prot_name,
		CRef< CCmdComposite >	composite
	)

Definition at line 614 of file bulk_cds_edit.cpp.

References CCmdComposite::AddCommand(), CSerialObject::Assign(), cmd, GetmRNAforCDS(), CScope::GetSeq_featHandle(), CConstRef< C, Locker >::Reset(), and CSeq_feat_Base::SetData().

Referenced by GetCommandFromValuesTable().

◆ GetValuesTableFromSeqEntry()

CRef< objects::CSeq_table > CBulkCDS::GetValuesTableFromSeqEntry ( )

Definition at line 213 of file bulk_cds_edit.cpp.

References AddStringColumnToTable(), AddValueToColumn(), CFeatureSeqTableColumnBaseFactory::Create(), CreateAction(), CSeqFeatData_Base::e_Prot, CFieldNamePanel::eFieldType_Feature, CSeqFeatData::eSubtype_cdregion, CScope::GetBioseqHandle(), CSeq_feat_Base::GetData(), CFeatureSeqTableColumnBase::GetFromFeat(), CMappedFeat::GetOriginalFeature(), CRef< C, Locker >::GetPointer(), CSeqFeatData_Base::GetProt(), CBioseq_Handle::GetScope(), CSeq_entry_Handle::GetScope(), CBioseq_Handle::GetSeq_entry_Handle(), IEditingAction::GetValues(), CBioseq_Handle::IsProtein(), NStr::Join(), kPartialStart, kPartialStop, kSequenceIdColLabel, m_FeatHandles, prot, row, IEditingActionFeat::SetFeat(), CSeqTable_column_Base::SetHeader(), IEditingAction::SetTopSeqEntry(), and table.

Referenced by CreateControls().

◆ Init()

void CBulkCDS::Init ( void )

Initialises member variables.

Member initialisation

Definition at line 119 of file bulk_cds_edit.cpp.

References m_Grid, and NULL.

Referenced by CBulkCDS().

◆ IsReadOnlyColumn()

bool CBulkCDS::IsReadOnlyColumn ( string column_name )

inline

Definition at line 82 of file bulk_cds_edit.hpp.

Referenced by CreateControls().

◆ OnClickCancel()

void CBulkCDS::OnClickCancel ( wxCommandEvent & event )

wxEVT_COMMAND_BUTTON_CLICKED event handler for ID_BUTTON1

Definition at line 702 of file bulk_cds_edit.cpp.

References _, CApplyEditconvertPanel::GetModified(), CSeqTableGridPanel::GetModified(), m_AecrPanel, and m_GridPanel.

◆ OnClickOk()

void CBulkCDS::OnClickOk ( wxCommandEvent & event )

wxEVT_COMMAND_BUTTON_CLICKED event handler for ID_BUTTON

Definition at line 690 of file bulk_cds_edit.cpp.

◆ RowToScopedObjects()

const CObject * CBulkCDS::RowToScopedObjects	(	int	row,
		TConstScopedObjects &	objects,
		CBioseq_Handle &	bsh
	)

virtual

Definition at line 718 of file bulk_cds_edit.cpp.

References CBioseq_Handle::GetBioseqCore(), CSeq_entry_Handle::GetCompleteSeq_entry(), CConstRef< C, Locker >::GetPointer(), CBioseq_Handle::GetScope(), CBioseq_Handle::GetTopLevelEntry(), m_FeatHandles, CSeqGridTableNav::m_SeqSubmit, NULL, and row.

◆ ShowToolTips()

bool CBulkCDS::ShowToolTips ( )

static

Should we show tooltips?

Definition at line 655 of file bulk_cds_edit.cpp.

Member Data Documentation

◆ m_AecrPanel

CApplyEditconvertPanel* CBulkCDS::m_AecrPanel

private

Definition at line 102 of file bulk_cds_edit.hpp.

Referenced by CreateControls(), and OnClickCancel().

◆ m_CopyProtNameToComment

wxCheckBox* CBulkCDS::m_CopyProtNameToComment

private

Definition at line 103 of file bulk_cds_edit.hpp.

Referenced by CreateControls(), and GetCommandFromValuesTable().

◆ m_FeatHandles

vector<CSeq_feat_Handle> CBulkCDS::m_FeatHandles

private

Definition at line 98 of file bulk_cds_edit.hpp.

Referenced by CBulkCDS(), CreateControls(), GetCommandFromValuesTable(), GetValuesTableFromSeqEntry(), and RowToScopedObjects().

◆ m_Grid

wxGrid* CBulkCDS::m_Grid

private

Definition at line 97 of file bulk_cds_edit.hpp.

Referenced by CreateControls(), and Init().

◆ m_GridPanel

CSeqTableGridPanel* CBulkCDS::m_GridPanel

private

Definition at line 99 of file bulk_cds_edit.hpp.

Referenced by CreateControls(), GetCommand(), and OnClickCancel().

◆ m_Modified

bool CBulkCDS::m_Modified

private

Definition at line 101 of file bulk_cds_edit.hpp.

Referenced by GetCommandFromValuesTable().

◆ m_StringConstraintPanel

CStringConstraintSelect* CBulkCDS::m_StringConstraintPanel

private

Definition at line 100 of file bulk_cds_edit.hpp.

Referenced by CreateControls().

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

include/gui/packages/pkg_sequence_edit/bulk_cds_edit.hpp
src/gui/packages/pkg_sequence_edit/bulk_cds_edit.cpp

Public Member Functions

Static Public Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ CBulkCDS() [1/3]

◆ CBulkCDS() [2/3]

◆ CBulkCDS() [3/3]

◆ ~CBulkCDS()

Member Function Documentation

◆ Create()

◆ CreateControls()

◆ GetBitmapResource()

◆ GetChoices()

◆ GetCollapsible()

◆ GetCommand()

◆ GetCommandFromValuesTable()

◆ GetErrorMessage()

◆ GetIconResource()

◆ GetUpdateMRNAProductNameCmd()

◆ GetValuesTableFromSeqEntry()

◆ Init()

◆ IsReadOnlyColumn()

◆ OnClickCancel()

◆ OnClickOk()

◆ RowToScopedObjects()

◆ ShowToolTips()

Member Data Documentation

◆ m_AecrPanel

◆ m_CopyProtNameToComment

◆ m_FeatHandles

◆ m_Grid

◆ m_GridPanel

◆ m_Modified

◆ m_StringConstraintPanel