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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/featuregenepanel_8cpp_source.html below:

NCBI C++ ToolKit: src/gui/widgets/edit/featuregenepanel.cpp Source File

&

= citer.GetSeq_id();

: m_Object(&object),

(&scope)

wxPanel::Create( parent,

, pos,

, style );

GetSizer()->SetSizeHints(

);

wxBoxSizer* itemBoxSizer2 =

wxBoxSizer(wxVERTICAL);

itemPanel1->SetSizer(itemBoxSizer2);

wxBoxSizer* itemBoxSizer3 =

wxBoxSizer(wxHORIZONTAL);

itemBoxSizer2->Add(itemBoxSizer3, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

wxStaticText* itemStaticText4 =

wxStaticText( itemPanel1, wxID_STATIC,

(

), wxDefaultPosition, wxDefaultSize, 0 );

itemBoxSizer3->Add(itemStaticText4, 0, wxALIGN_CENTER_VERTICAL|wxALL, 5);

wxArrayString m_GeneChoiceStrings;

=

wxListBox( itemPanel1,

, wxDefaultPosition, wxDefaultSize, m_GeneChoiceStrings, wxLB_SINGLE );

itemBoxSizer3->Add(

, 0, wxALIGN_CENTER_VERTICAL|wxALL, 5);

wxArrayString m_MapTypeStrings;

m_MapTypeStrings.Add(

(

));

m_MapTypeStrings.Add(

(

));

=

wxRadioBox( itemPanel1,

,

(

), wxDefaultPosition, wxDefaultSize, m_MapTypeStrings, 1, wxRA_SPECIFY_ROWS );

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

=

wxCheckBox( itemPanel1,

,

(

), wxDefaultPosition, wxDefaultSize, 0 );

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

& gr = gene_it->GetSeq_feat()->GetData().GetGene();

(

.empty()) {

& feat = gene_it->GetOriginalFeature();

& gr = gene_it->GetSeq_feat()->GetData().GetGene();

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

itemBoxSizer2->Add(

, 0, wxALIGN_CENTER_HORIZONTAL|wxALL, 5);

CSeq_feat::TXref::iterator it = feat->

().begin();

(it != feat->

().end()) {

((*it)->IsSetData () && (*it)->GetData ().IsGene ()) {

it = feat->

().erase(it);

(feat->

().size() == 0) {

(!wxPanel::TransferDataFromWindow())

}

(

->GetSelection() == 1) {

(which_gene == 0) {

}

(which_gene == 1) {

((*xit)->IsSetData() && (*xit)->GetData().IsGene() && s.

((*xit)->GetData().GetGene()))

trans_splicing =

;

trans_splicing =

;

need_new_interval =

;

((

&& !new_minus) || (!

&& new_minus)) {

need_new_interval =

;

(bsh != new_bsh) {

need_new_interval =

;

(!need_new_interval && trans_splicing) {

out_of_order =

;

(from < new_from || to < new_to) {

out_of_order =

;

}

(from > new_to) {

distance = from - new_to;

(from > new_from || to > new_to) {

out_of_order =

;

}

(new_from > to) {

distance = new_from - to;

(out_of_order || distance > 10000) {

need_new_interval =

;

(need_new_interval) {

new_id->

(*last_id);

gene_loc->

().Set().push_back(sub);

new_id->

(*last_id);

gene_loc->

().Set().push_back(sub);

new_id->

(*last_id);

(!gene_feat ||

->GetSelection() != 1)

has_xref =

;

((*xit)->IsSetId() && (*xit)->GetId().IsLocal()) {

((*xit)->GetId().Equals(src->

())) {

(*xit)->SetId().Assign(src->

());

(partial_start || partial_stop)

wxWindow *win = GetParent();

win = win->GetParent();

wxWindow* editorWindow =

->CreateWindow(edit_dlg);

edit_dlg->SetTitle(

);

edit_dlg->Show(

);

static CRef< CScope > m_Scope

User-defined methods of the data storage class.

@ eExtreme_Positional

numerical value

User-defined methods of the data storage class.

EVT_CHECKBOX(ID_CADJUSTFEATURES_CHECKBOX, CAdjustFeaturesForGaps::OnKnownUnknownSelected) EVT_CHECKBOX(ID_CADJUSTFEATURES_CHECKBOX1

ICommandProccessor * GetUndoManager(void)

ICommandProccessor * GetUndoManager(void)

void SetEditorWindow(wxWindow *editorWindow)

void SetEditor(CIRef< IEditObject > editor)

virtual void SetUndoManager(ICommandProccessor *cmdProccessor)

vector< CConstRef< objects::CSeq_feat > > m_GeneFeatList

static bool ShowToolTips()

Should we show tooltips?

void Init()

Initialises member variables.

CFeatureGenePanel()

Constructors.

CConstRef< objects::CSeq_feat > GetGeneToEdit()

void OnClickSuppress(wxCommandEvent &event)

wxEVT_COMMAND_CHECKBOX_CLICKED event handler for ID_CHECKBOX13

bool Create(wxWindow *parent, wxWindowID id=ID_CFEATUREGENEPANEL, const wxPoint &pos=wxDefaultPosition, const wxSize &size=wxDefaultSize, long style=wxTAB_TRAVERSAL)

Creation.

CRef< objects::CGene_ref > m_GeneRef

void SetModifyPseudo(bool modify_pseudo, const string &pseudo_choice)

CRef< objects::CSeq_loc > GetLocationForGene()

CConstRef< objects::CSeq_feat > m_OverlappingGene

CRef< objects::CScope > m_Scope

CRef< objects::CSeq_feat > GetNewGene()

void AddReciprocicalXref(CRef< objects::CSeq_feat > gene_feat)

CRef< objects::CSeq_feat > GetUpdatedGene()

void OnSelectGene(wxCommandEvent &event)

wxEVT_COMMAND_CHOICE_SELECTED event handler for ID_CHOICE16

wxBitmap GetBitmapResource(const wxString &name)

Retrieves bitmap resources.

~CFeatureGenePanel()

Destructor.

wxIcon GetIconResource(const wxString &name)

Retrieves icon resources.

void OnEditGene(wxCommandEvent &event)

vector< CConstRef< objects::CGene_ref > > m_GeneList

CGenePanel * m_GeneRefPanel

virtual bool TransferDataFromWindow()

void CreateControls()

Creates the controls and sizers.

wxButton * m_ButtonEditGene

void GetLabel(string *label) const

static void ModifyPseudo(objects::CSeq_feat &feat, const string &pseudo_choice)

ESubtype GetSubtype(void) const

static bool AllowXref(CSeqFeatData::ESubtype subtype1, CSeqFeatData::ESubtype subtype2)

namespace ncbi::objects::

const CGene_ref * GetGeneXref(void) const

See related function in util/feature.hpp.

void SetGeneXref(CGene_ref &value)

bool AddSeqFeatXref(const CSeqFeatXref::TId &id)

Seq-loc iterator class – iterates all intervals from a seq-loc in the correct order.

Base class for all serializable objects.

TSeq_feat_Handles GetFeaturesWithId(CSeqFeatData::E_Choice type, TFeatureIdInt id) const

vector< CSeq_feat_Handle > TSeq_feat_Handles

Undo/Redo interface for editing operations.

static void ClearGeneXref(CSeq_feat *feat)

static CBioseq_Handle BioseqHandleFromLocation(CScope *m_Scope, const CSeq_loc &loc)

unsigned int TSeqPos

Type for sequence locations and lengths.

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define NON_CONST_ITERATE(Type, Var, Cont)

Non constant version of ITERATE macro.

virtual void Assign(const CSerialObject &source, ESerialRecursionMode how=eRecursive)

Set object to copy of another one.

virtual bool Equals(const CSerialObject &object, ESerialRecursionMode how=eRecursive) const

Check if both objects contain the same values.

virtual void Assign(const CSerialObject &source, ESerialRecursionMode how=eRecursive)

Optimized implementation of CSerialObject::Assign, which is not so efficient.

static CSeq_id_Handle GetHandle(const CSeq_id &id)

Normal way of getting a handle, works for any seq-id.

bool IsPartialStart(ESeqLocExtremes ext) const

check start or stop of location for e_Lim fuzz

const CSeq_loc & GetEmbeddingSeq_loc(void) const

Get the nearest seq-loc containing the current range.

TRange GetRange(void) const

Get the range.

void SetPartialStart(bool val, ESeqLocExtremes ext)

set / remove e_Lim fuzz on start or stop (lt/gt - indicating partial interval)

ENa_strand GetStrand(void) const

const CSeq_id & GetSeq_id(void) const

Get seq_id of the current location.

void SetPartialStop(bool val, ESeqLocExtremes ext)

bool IsPartialStop(ESeqLocExtremes ext) const

const CSeq_id & GetId(const CSeq_loc &loc, CScope *scope)

If all CSeq_ids embedded in CSeq_loc refer to the same CBioseq, returns the first CSeq_id found,...

CConstRef< CSeq_feat > GetOverlappingGene(const CSeq_loc &loc, CScope &scope, ETransSplicing eTransSplicing=eTransSplicing_Auto)

CBioseq_Handle GetBioseqHandle(const CSeq_id &id)

Get bioseq handle by seq-id.

@ eGetBioseq_All

Search bioseq, load if not loaded yet.

CSeq_entry_Handle GetSeq_entry_Handle(void) const

Get parent Seq-entry handle.

const CTSE_Handle & GetTSE_Handle(void) const

CConstRef< C > ConstRef(const C *object)

Template function for conversion of const object pointer to CConstRef.

void Reset(void)

Reset reference object.

void Reset(void)

Reset reference object.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

static bool IsBlank(const CTempString str, SIZE_TYPE pos=0)

Check if a string is blank (has no text).

static SIZE_TYPE Find(const CTempString str, const CTempString pattern, ECase use_case=eCase, EDirection direction=eForwardSearch, SIZE_TYPE occurrence=0)

Find the pattern in the string.

static bool Equal(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2, ECase use_case=eCase)

Test for equality of a substring with another string.

static const char label[]

TTo GetTo(void) const

Get the To member data.

TFrom GetFrom(void) const

Get the From member data.

virtual void Reset(void)

Reset the whole object.

TId GetId(void) const

Get the variant data.

TXref & SetXref(void)

Assign a value to Xref data member.

void SetLocation(TLocation &value)

Assign a value to Location data member.

void SetPartial(TPartial value)

Assign a value to Partial data member.

const TId & GetId(void) const

Get the Id member data.

bool IsSetXref(void) const

cite other relevant features Check if a value has been assigned to Xref data member.

const TLocation & GetLocation(void) const

Get the Location member data.

bool IsLocal(void) const

Check if variant Local is selected.

const TData & GetData(void) const

Get the Data member data.

const TExcept_text & GetExcept_text(void) const

Get the Except_text member data.

bool IsSetExcept_text(void) const

explain if except=TRUE Check if a value has been assigned to Except_text data member.

void SetData(TData &value)

Assign a value to Data data member.

bool IsSetId(void) const

Check if a value has been assigned to Id data member.

vector< CRef< CSeqFeatXref > > TXref

void ResetXref(void)

Reset Xref data member.

bool IsSetLocation(void) const

feature made from Check if a value has been assigned to Location data member.

@ e_not_set

No variant selected.

const struct ncbi::grid::netcache::search::fields::SIZE size

wxString ToWxString(const string &s)

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