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NCBI C++ ToolKit: src/gui/widgets/aln_multiple/alnmulti_widget.cpp Source File

initialized =

;

wxString& name)

m_DataSource(

),

(model !=

) {

b_invert_others)

vsel.reserve(rows.size());

(

= 0;

< rows.size();

++ ) {

vsel.push_back(index);

wxPoint point =

.GetPosition();

from_keyboard = (point == wxPoint(-1, -1));

(! from_keyboard) {

point = ScreenToClient(point);

}

(exception& e) {

.Enable(

);

.Enable(

);

.Enable(

);

}

(sh_right > 0) {

sh =

(sh_right, sh_left);

SelIndex = vIndices[0];

=

;

+= (sel_n == 0) ?

:

;

rows.push_back(master_row->

());

rows.push_back(

);

vector<TNumrow> sel_rows;

sel_rows.push_back(

);

vector<TNumrow> rows;

hidden.

(pair<string, TNumrow>(acc,

));

(ppp.first != ppp.second) {

rows.push_back(ppp.first->second);

vector<TNumrow> rows;

vector<TNumrow> selected;

=

;

(selected.empty()) {

}

(selected.size() == 1) {

vector<TNumrow> rows;

.Enable(!rows.empty());

vector<TNumrow> rows;

vector<TNumrow> rows;

st_cols.resize(cols_n);

(

= 0;

< cols_n;

++ ) {

st_cols[

].m_Width = col.

;

st_cols.resize(cols_n);

(

= 0;

< cols_n;

++ ) {

st_cols[

].m_Width = col.

;

(dlg.ShowModal() == wxID_OK) {

.Enable(

);

ls_locs.push_back(

());

& seq_loc = *ls_locs.back();

p_int.

(seq_id, it_r->GetFrom(), it_r->GetTo());

(ds && ! ds->

()) {

vector<TNumrow> rows;

rows.push_back(iRow);

vector<TNumrow> rows;

rows.push_back(iRow);

dlg.

(name, sc_type);

(dlg.ShowModal() == wxID_OK) {

dlg.SetTitle(

(

));

(dlg.ShowModal() == wxID_OK) {

.Check( ! en);

method ? method->

() :

;

(current_name != method_name) {

(method_name ==

) {

=

(

) + method_name;

+=

;

=

.GetId();

.Check(current_name == method_name);

*def_name = current_name;

mru_list =

+

;

wxMenu* root = cmd_reg.

(kPopupMenu);

(GetDataSource()) {

wxMenu* color_menu =

(*root,

(

))->GetMenu();

x_CreateScoringMethodsMenu(*color_menu);

m_CmdToName.clear();

current_method = x_GetCurrentMethodName();

mru_list = x_GetScoringMRUListName();

vector<string> MRU_names;

(! current_method.empty()) {

vector<string>::const_iterator it =

std::find(MRU_names.begin(), MRU_names.end(), current_method);

(it == MRU_names.end()) {

MRU_names.push_back(current_method);

( ! MRU_names.empty()) {

(MRU_names.begin(), MRU_names.end());

wxMenu* submenu = col_item->GetSubMenu();

(vector<string>, it_name, MRU_names) {

& method_name = *it_name;

m_CmdToName[

] = method_name;

submenu->AppendSeparator();

* def_name = x_GetDefMethodName();

(*def_name != current_method) {

wxMenu* item_menu =

(method_item);

color_menu.AppendSubMenu(item_menu,

shown = original_shown;

title_height += 12.f;

height = (size_t)-model_limits.

();

width = original_rect.

();

header_height = 0;

height += header_height;

rc_vis.

(y + (height - 1), y);

(title_height > 0.0) {

grabber->DisableGouraudShading(simplified);

renderer.

(original_rect);

wxMessageBox(

(

),

(

), wxOK);

wxMessageBox(

(

),

(

), wxOK);

class CAlnMultiModel - represents a visual model of an alignment.

virtual bool CanChangeMasterRow() const

changes Master (Anchor) and performs necessary updates

virtual void CreateConsensus(void)

Creates consenus row if it is not already created.

virtual int GetLineByRowNum(TNumrow row) const

virtual void SetDefaultMethod(const string &method_name)

void GetSelectedRows(vector< TNumrow > &rows)

virtual void UpdateSortOrder(void)

enables auto sorting of rows, sorts rows using x_SortRows() and performs necessary updates

virtual bool AddScoringMethod(IScoringMethod *method)

adds scoring method; model assumes ownership of the method, it will be deleted automatically

virtual CWidgetDisplayStyle * GetDisplayStyle()

virtual string GetDefaultMethod(void)

IAlignRow * GetRow(TNumrow row)

CAlnMultiModel inline functions.

virtual const IScoringMethod * GetCurrentMethod() const

virtual void UpdateOnScoringChanged(const TSeqRange &range=TSeqRange::GetEmpty())

const size_t GetNumRows() const

Get number of rows registered in model.

virtual void SetRowOrder(const vector< TNumrow > &rows, int pos=0)

disables auto sorting, reorders rows in alignment so that rows from the given vector appear in the sp...

virtual void SetStyleCatalog(const CRowStyleCatalog *catalog)

virtual void ClearRows(void)

Update handlers.

virtual void UpdateOnRowHChanged(void)

updates model after row height changed

virtual void SetListener(CScoreCache::IListener *listener)

virtual IAlignRow * GetMasterRow()

virtual bool SetMasterRow(TNumrow new_row)

virtual IAlignRow * GetRowByLine(TLine line)

all Y coordinates are OpenGL Viewport coordinates (not widget coords) "index" is a line index (not ro...

virtual void SetShownElements(int shown_mask)

virtual void UpdateOnStyleChanged(void)

virtual void UpdateOnDataChanged()

virtual void SLM_SelectAll(bool bSelect)

void SetVisible(vector< TNumrow > rows, bool b_visible, bool b_invert_others=false)

makes specified rows visible/hidden, if b_invert_others == "true" then visibility of all rows not in ...

virtual void ResetCurrentMethod()

virtual void SetDataSource(IAlnMultiDataSource *p_ds)

virtual int GetShownElements()

returns mask of shown elements - header, ruler, master row, alignment, track matrix

virtual bool SetCurrentMethod(const string &name, const TSeqRange &range=TSeqRange::GetEmpty())

void UpdateHeaderSortState()

virtual TModelUnit SHH_GetModelByWindow(int z, EOrientation orient) override

bool HasSelectedObjects() const

void SetContext(IAlnMultiRendererContext *p_context)

const TRowToMarkMap & GetMarks() const

void ResetSelection(bool redraw)

CAlnMultiRenderer & GetRenderer()

void SetBackColor(const CRgbaColor &color)

virtual void Update() override

const TRangeColl & GetSelection() const

int GetAlignVPWidth() const

virtual void UpdateOnDataChanged()

void Init(objects::CScope *scope)

void ShowProgressPanel(float progress, const string &msg)

void SetSelection(const TRangeColl &C, bool redraw)

void MarkSelectedRows(const TRangeColl &C, bool bMark)

void SetWidget(IAlnMultiPaneParent *p_arent)

CRange< TSeqPos > GetSelectionLimits()

int GetAlignVPHeight() const

void GetObjectSelection(TConstObjects &objs) const

class CAlnMultiRenderer - renders multiple alignment represented by IAlnMultiRendererContext (the Mod...

virtual void Resize(const TVPRect &rc)

void SetColumnsByStyle(CWidgetDisplayStyle &style)

virtual int GetColumnsCount() const

int GetHeaderAreaHeight() const

virtual const SColumn & GetColumn(int index) const

int GetMasterAreaHeight() const

int GetRulerAreaHeight() const

virtual TVPRect GetRect() const

void SetParams(CWidgetDisplayStyle &style)

CUpdate - notification send by CUIDataSource to the listener.

double GetProgressNorm() const

virtual void SetRegistryPath(const string &path)

CRegistryWriteView GetWriteView(const string &section)

get a read-write view at a particular level.

static CGuiRegistry & GetInstance()

access the application-wide singleton

CRegistryReadView GetReadView(const string &section) const

get a read-only view at a particular level.

static IImageGrabber * CreateImageGrabber(EOutputFormat format, IVectorGraphicsRenderer &pane)

void AddInterval(const CSeq_interval &ival)

for convenience

static const string & GetFileExtension(EOutputFormat format)

TThisType & CombineWith(const TRange &r)

class CRegistryReadView provides a nested hierarchical view at a particular key.

class CRgbaColor provides a simple abstraction for managing colors.

CRowStyleCatalog is a collection of CRowDisplayStyle-s assigned to rows in alignment.

bool Create(wxWindow *parent, wxWindowID id=ID_CSCORINGMETHODSDLG, const wxString &caption=_("Alignment Scoring Methods"), const wxPoint &pos=wxDefaultPosition, const wxSize &size=wxSize(400, 300), long style=wxCAPTION|wxRESIZE_BORDER|wxSYSTEM_MENU|wxCLOSE_BOX)

Creation.

void Setup(const string &sel_method, IAlnExplorer::EAlignType type)

wxString GetSelectedMethod() const

virtual void SLM_SelectItems(const TIndexVector &vIndeces, bool b_reset_others=false)

Select items with given indices.

virtual TIndex SLM_GetSelectedCount() const

virtual void SLM_GetSelectedIndices(TIndexVector &vIndices) const

virtual void SLM_AddSLView(TSelListView *pView)

CUICommandRegistry is a centralized registry where all application commands should be registered.

static CUICommandRegistry & GetInstance()

the main instance associated with the application

wxMenu * CreateMenu(const SwxMenuItemRec *items)

create a menu from a static definition (see WX_*_MENU macros)

int RegisterCommand(CUICommand *cmd)

assumes ownership of the given object returns a command id (useful when registry is used for auto id ...

wxMenuItem * AppendMenuItem(wxMenu &menu, TCmdID cmd_id) const

Interface IAlignRow - abstracts row rendering in Multiple Alignment Widget.

virtual int GetRowNum() const =0

Returns index of row in IAlnMultiDataSource.

virtual string & GetColumnText(TColumnType col_type, string &text, bool for_printer=false) const =0

virtual void SetHost(IAlignRowHost *pHost)=0

virtual int GetRowState() const =0

Returns row state (combination of EState flags)

@ eRight

Towards higher aln coord (always to the right)

@ eLeft

Towards lower aln coord (always to the left)

IAlnMultiDataSource - interface to a data source representing an abstract multiple alignment.

virtual IAlnExplorer::EAlignType GetAlignType() const =0

virtual TSignedSeqPos GetSeqPosFromAlnPos(TNumrow for_row, TSeqPos aln_pos, IAlnExplorer::ESearchDirection dir=IAlnExplorer::eNone, bool try_reverse_dir=true) const =0

virtual TSignedSeqPos GetAlnPosFromSeqPos(TNumrow row, TSeqPos seq_pos, IAlnExplorer::ESearchDirection dir=IAlnExplorer::eNone, bool try_reverse_dir=true) const =0

virtual int GetConsensusRow() const =0

returns index of the Consensus row or -1 if it doesn't exist

virtual TNumrow GetNumRows(void) const =0

number of rows in alignment

virtual const objects::CSeq_id & GetSeqId(TNumrow row) const =0

virtual TNumrow GetAnchor(void) const =0

virtual bool CanCreateConsensus()=0

virtual void SetCreateConsensus(bool b)=0

virtual bool IsEmpty() const =0

Interface IAlnMultiPaneParent represents a context in which an instance of CAlnMultiPane lives.

IAlnMultiDataSource::TNumrow TNumrow

IAlnMultiRendererContext - this interface represents context in which CAlnMultiRenderer lives.

@ fShownElement_MasterRow

void SetTitleHeight(TModelUnit h)

Set size for optional pdf title.

IScoringMethod represents an abstract algorithm for calculating alignment scores and assigning colors...

static const char * GetAlignmentTagByType(IAlnExplorer::EAlignType type)

returns symbolic label for the given alignment type, should be

vector< TIndex > TIndexVector

const_iterator_pair equal_range(const key_type &key) const

iterator insert(const value_type &val)

container_type::iterator iterator

iterator_bool insert(const value_type &val)

void WidgetsData_RegisterCommands(CUICommandRegistry &cmd_reg, wxFileArtProvider &provider)

Register standard commands defined in this file and wxWidgets headers.

static const char * catalog

unsigned int TSeqPos

Type for sequence locations and lengths.

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

int TSignedSeqPos

Type for signed sequence position.

const string & GetMsg(void) const

Get message string.

virtual const char * what(void) const noexcept

Standard report (includes full backlog).

static bool Match(const objects::CSeq_id &id1, const objects::CSeq_id &id2, objects::CScope *scope=NULL)

check to see if two seq-ids are identical.

void ZoomPoint(TModelUnit x, TModelUnit y, TModelUnit factor, int options=fZoomXY)

void SetSize(T width, T height)

void SetViewport(const TVPRect &R)

TVPRect & GetViewport(void)

CGlRect< TVPUnit > TVPRect

void SetScale(TModelUnit scale_x, TModelUnit scale_y, TModelPoint p_center)

virtual TModelUnit GetFontDescender() const

void SetScaleRefPoint(TModelUnit scale_x, TModelUnit scale_y, TModelPoint p_ref)

void ZoomRect(const TModelRect &r)

TModelRect & GetModelLimitsRect(void)

void Scroll(TModelUnit dx, TModelUnit dy)

void SetVert(T bottom, T top)

void SetVisibleRect(const TModelRect &R)

virtual TModelUnit GetMetric(EMetric metric, const char *text=NULL, int len=-1) const

virtual TModelUnit TextHeight(void) const

void SetFontSize(unsigned int size)

Set/get font size in points.

TModelRect & GetVisibleRect(void)

virtual void RemoveListener(CEventHandler *listener)

Remove a listener.

vector< CConstRef< CObject > > TConstObjects

const string & GetLabel() const

EDialogReturnValue NcbiMessageBox(const string &message, TDialogType type=eDialog_Ok, EDialogIcon icon=eIcon_Exclamation, const string &title="Error", EDialogTextMode text_mode=eRaw)

virtual bool Send(CEvent *evt, EDispatch disp_how=eDispatch_Default, int pool_name=ePool_Default)

Sends an event synchronously.

@ eCmdZoomSeq

Zoom to Selection.

@ eDispatch_Default

dispatch until handled at least by one handler

void SetPacked_int(TPacked_int &v)

TObjectType * GetPointer(void) THROWS_NONE

Get pointer,.

bool NotEmpty(void) const

CRange< TSeqPos > TSeqRange

typedefs for sequence ranges

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

static enable_if< is_arithmetic< TNumeric >::value||is_convertible< TNumeric, Int8 >::value, string >::type NumericToString(TNumeric value, TNumToStringFlags flags=0, int base=10)

Convert numeric value to string.

TTo GetTo(void) const

Get the To member data.

TFrom GetFrom(void) const

Get the From member data.

The blob sat and sat key Both must be positive integers</td > n< td > Non empty string The interpretation of the blob id depends on a processor Cassandra n processor expects the following format

static void text(MDB_val *v)

CMinPanelContainer::OnRestoreWindow EVT_UPDATE_UI_RANGE(eCmdCloseDockPanel, eCmdWindowRestore, CMinPanelContainer::OnUpdateWindowCommand) CMinPanelContainer

constexpr auto sort(_Init &&init)

constexpr bool empty(list< Ts... >) noexcept

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

ViewerWindowBase::OnEditMenu ViewerWindowBase::OnJustification EVT_MENU(MID_SHOW_GEOM_VLTNS, ViewerWindowBase::OnShowGeomVltns) EVT_MENU(MID_FIND_PATTERN

static SLJIT_INLINE sljit_ins msg(sljit_gpr r, sljit_s32 d, sljit_gpr x, sljit_gpr b)

#define row(bind, expected)

SColumn describes a single column.

int m_Width

horizontal position in viewport

bool m_Visible

can be used to identify column

#define WX_DEFINE_MENU(name)

New macros for defining menus for use with CUICommandRegistry.

#define WX_SUBMENU(label)

#define WX_MENU_SEPARATOR_L(label)

#define WX_MENU_ITEM(cmd)

#define WX_MENU_SEPARATOR()

const string & CDCN_GetMessage(const CDataChangeNotifier::CUpdate &update)

wxMenu * CreateMenu(const CMenuItem *item)

Creates a wxMenu object replicating the structure of CMenuItem.

wxString ToWxString(const string &s)

string ToStdString(const wxString &s)

wxMenuItem * FindSubItem(wxMenu &menu, const wxString &text)

Find a subitem of the given menu by text.

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