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NCBI C++ ToolKit: src/gui/widgets/seq_graphic/graph_overlay.cpp Source File

kGraphOverlay =

;

s_GraphOverlayNum = 0;

->SetLegend_text(

);

stacked =

;

smooth_curve =

;

fit_step =

;

->SetHidden_settings().push_back

->SetHidden_settings().push_back

->SetHidden_settings().push_back

value_range =iter->second;

fit_step = iter->second;

}

(std::exception&) {

scale = stored_scale;

(

,

,

);

choice->SetValues().push_back

,

));

choice->SetValues().push_back(

,

));

choice->SetValues().push_back(

,

));

choice->SetValues().push_back(

,

));

->SetChoice_list().push_back(choice);

->SetCheck_boxes().push_back(

,

,

,

, smooth_curve));

range_autoscale =

;

range_min, range_max;

(!value_range.empty()) {

(!r_min.empty() && r_min !=

) {

range_min = (errno) ?

: r_min;

(!r_max.empty() && r_max !=

) {

range_max = (errno) ?

: r_max;

->SetHidden_settings().push_back(

,

,

condition =

(

objects::CConditional);

condition->SetName(

);

range_control->SetConditions().push_back(condition);

->SetRange_controls().push_back(range_control);

->SetCheck_boxes().push_back(

,

,

,

, stacked));

DECLARE_EVENT_TABLE()

(m_Source.empty())

m_Source =

;

m_Legend.SetLayoutPolicy(&*layered_layout);

m_Legend.SetRenderingContext(r_cntx);

m_Legend.SetParent(

);

m_Grid->SetRenderingContext(r_cntx);

m_Grid->SetShowTitle(

);

config_name = annot_name;

*merged_params = *overlay_params;

conf_mgr->

(config_name, merged_params);

(dlg.ShowModal() == wxID_OK) {

(proxy->GetOrder() == order) {

( !preset_style.empty())

settings[

] = preset_style;

parameter_present =

;

scale, stored_scale;

draw_bg =

, need_ruler =

;

bg_color, label_color, ruler_color, value_range;

smooth_curve =

;

bg_color = iter->second;

parameter_present =

;

parameter_present =

;

scale = iter->second;

parameter_present =

;

stored_scale = iter->second;

parameter_present =

;

parameter_present =

;

parameter_present =

;

label_color = iter->second;

parameter_present =

;

ruler_color = iter->second;

parameter_present =

;

value_range = iter->second;

parameter_present =

;

}

(exception& e) {

parameter_present =

;

parameter_present =

;

}

(std::exception&) {

(

<<

(!parameter_present)

(!bg_color.empty())

(!label_color.empty())

(!ruler_color.empty())

(!stored_scale.empty()) {

(!value_range.empty()) {

range_min, range_max;

(!range_min.empty() && range_min !=

)

(!range_max.empty() && range_max !=

)

}

(std::exception&) {

(

<<

);

(

& proxy : m_TrackProxies) {

(proxy->GetSource() == source_name) {

m_LTHost->LTH_PushEventHandler(&*

);

m_LTHost->LTH_PopEventHandler();

glyph.

(

);

(!(*iter)->GetShown())

vector<SLegendData> legend_fields;

(!(*iter)->GetShown())

.annot = (*iter)->GetSource();

.track_id = (*iter)->GetId();

(!

.label.empty())

.label +=

;

.label += (*iter)->GetDisplayName().empty() ?

.annot : (*iter)->GetDisplayName();

legend_fields.push_back(

);

(legend_fields.empty())

num_cols =

((

)(view_width/legend_item_span), (

)legend_fields.size());

num_rows = ceil((

)legend_fields.size() / num_cols);

(

= 0;

< num_rows; ++

) {

base_index =

* num_cols;

(base_index + num_cols >= legend_fields.size())

num_cols =

(legend_fields.size() - base_index);

c = num_cols / 2;

(num_cols % 2 != 0)

left -= legend_item_span/2;

(

col = 0; col < c; ++col) {

left -= legend_item_span;

(

col = 0; col < num_cols; ++col) {

legend_fields[base_index + col].

,

legend_fields[base_index + col].track_id,

legend_fields[base_index + col].params->m_fgColor,

legend_fields[base_index + col].params->m_LabelColor));

->SetTop(

* row_height +

* 4 + 2);

->SetHeight(row_height);

->SetWidth(legend_item_span);

left += legend_item_span;

(!(*iter)->GetShown())

axis_max =

(hg->

(), axis_max);

axis_min =

(hg->

(), axis_min);

(!(*iter)->GetShown())

(!(*iter)->TrackNotSet())

graph_track =

*

(ch.GetPointer());

(

& glyph : graph_track->GetChildren()) {

(!

().empty()) {

(iter->m_ParentId.empty()) {

iter->m_ParentId =

();

((*iter)->GetOrder() ==

->GetOrder()) {

new_track_proxy = &**iter;

}

((*iter)->GetOrder() ==

()) {

current_track_proxy = &**iter;

(current_track_proxy && new_track_proxy)

(current_track_proxy != 0 && new_track_proxy != 0);

(current_track_proxy == 0 || new_track_proxy == 0)

((*ch_it)->GetOrder() >= new_order) {

new_order = (*ch_it)->GetOrder() + 1;

subtrack_proxy->

(new_order);

new_overlay->

().push_back(subtrack_proxy);

(self_proxy == 0) {

vector<string> subtracks;

(!(*iter)->GetId().empty())

subtracks.push_back((*iter)->GetId());

(!(*iter)->GetUId().empty()) {

subtracks.push_back((*iter)->GetUId());

(proxy && !proxy->

().empty())

subtracks.push_back(proxy->

().front());

(!(*iter)->GetSource().empty())

subtracks.push_back((*iter)->GetSource());

=

;

(!subtracks.empty()) {

(subtracks.begin(), subtracks.end());

((*t_it)->GetOrder() == track_id) {

((*iter)->GetOrder() ==

()) {

overlay_proxy=

*

(&**iter);

((*ch_it)->GetOrder() >= new_order) {

new_order = (*ch_it)->GetOrder() + 1;

((*it)->GetOrder() == track_id) {

n_proxy->CTempTrackProxy::operator=(*proxy);

n_proxy->SetKey(

);

n_proxy->SetOrder(new_order);

n_proxy->SetTrack(proxy->

());

n_proxy->GetTrack()->SetShowTitle(

);

annots.push_back(

->GetAnnot());

n_proxy->SetAnnots(annots);

User-defined methods of the data storage class.

User-defined methods of the data storage class.

virtual void Update(bool layout_only)

Update content and layout including the bounding box.

virtual void SetRegistryPath(const string &path)

void SetDSContext(ISGDataSourceContext *ds_context)

void SetRenderingContext(CRenderingContext *r_cntx)

virtual void x_UpdateBoundingBox()

Update the bounding box assuming children's sizes are fixed if any.

CLayoutGroup & SetGroup()

const CLayoutGroup::TObjectList & GetChildren() const

const CLayoutGroup & GetGroup() const

CLayoutGroup::TObjectList & SetChildren()

void SetLayoutPolicy(ILayoutPolicy *policy)

Set policy on how to deploy the layout of its children.

void OnContextMenu(wxContextMenuEvent &anEvent)

CGraphOverlayEvtHandler(CGraphOverlay *overlay, int track_id)

void x_OnTrackSettings(wxCommandEvent &event)

void x_OnHideTrack(wxCommandEvent &event)

CRef< CGraphOverlay > m_Overlay

void x_OnRemoveTrack(wxCommandEvent &event)

virtual const CTrackTypeInfo & GetThisTypeInfo() const

virtual TTrackMap CreateTracks(SConstScopedObject &object, ISGDataSourceContext *ds_context, CRenderingContext *r_cntx, const SExtraParams &params=SExtraParams(), const TAnnotMetaDataList &src_annots=TAnnotMetaDataList()) const

create a layout track based on the input objects and extra parameters.

virtual CRef< objects::CTrackConfigSet > GetSettings(const string &profile, const TKeyValuePairs &settings, const CTempTrackProxy *track_proxy) const

virtual string GetExtensionIdentifier() const

returns the unique human-readable identifier for the extension the id should use lowercase letters se...

CGraphOverlayFactory()

CGraphOverlayFactory.

virtual string GetExtensionLabel() const

returns a displayable label for this extension ( please capitalize the key words - "My Extension" )

CGraphOverlay container of the graph_tracks that are dispalyed in overlay mode.

virtual void LH_OnItemDblClick(const string &source_name)

notifies the host about changes of the track.

virtual bool CanDrop(CRef< CLayoutTrack > &track)

CRef< CSimpleLayout > m_StackedLayout

virtual void x_UpdateBoundingBox()

Update the bounding box assuming children's sizes are fixed if any.

void UpdateSource(CTempTrackProxy *self_proxy=0)

virtual void OnTrackSettings(int order)

virtual void x_OnAllJobsFinished()

actions to take on all job finished.

void MoveTrackOut(int track_id)

static CTrackTypeInfo m_TypeInfo

CLayoutTrack required track type info.

virtual void x_RenderContent() const

The content rendering must be implemented in the derived layout tracks.

void x_UpdateContainerParams(CHistParams &params)

CRef< CHistogramGlyph > m_Grid

virtual void x_SaveSettings(const string &preset_style)

save the track settings to a profile string.

string m_Source

The unique name - combination of subtracks annots - is used to access the track setting in registry.

CRef< COverlayLayout > m_OverlayLayout

virtual void GetHTMLActiveAreas(TAreaVector *p_areas) const

Get html active areas.

virtual void x_LoadSettings(const string &, const TKeyValuePairs &settings)

load the track settings.

void x_UpdateTrackSettings(const string &source_name)

virtual CRef< CSeqGlyph > HitTest(const TModelPoint &p)

Hit testing.

virtual void x_OnLayoutChanged()

update the layout.

virtual bool Drop(CRef< CLayoutTrack > &track)

virtual const CTrackTypeInfo & GetTypeInfo() const

void UpdateTrackParams(const string &annot_name)

Close a track.

static const string kOverlayed

void SetConfig(CRef< CHistParams > config)

bool CreateX(wxWindow *parent, wxWindowID id=ID_CHISTCONFIGDLG, const wxString &caption=_("Graph Rendering Options"), const wxPoint &pos=wxDefaultPosition, const wxSize &size=wxDefaultSize, long style=wxCAPTION|wxRESIZE_BORDER|wxSYSTEM_MENU|wxCLOSE_BOX|wxTAB_TRAVERSAL)

CRef< CHistParams > GetConfig() const

void SetConfigName(const string &name)

void AddSettings(const string &name, CRef< CHistParams > hist_params)

Add a new settings for a given name.

void AddTempSettings(const string &name, CRef< CHistParams > hist_params)

Add a temporary settings for a given name.

bool HasSettings(const string &name) const

Check if there is settings for a given name.

CRef< CHistParams > GetDefHistParams() const

CRef< CHistParams > GetHistParams(TFeatSubtype subtype) const

Get histogram settings using feature subtype.

CRgbaColor m_SmearColorMin

EScale m_StoredScale

stored scale of the underlying data (e.g. as reported by TMS)

static EScale ScaleStrToValue(const string &scale)

static const string & TypeValueToStr(CHistParams::EType type)

static const string & ScaleValueToStr(CHistParams::EScale scale)

EScale m_Scale

requested scale

CRange< float > m_ValueRange

CRgbaColor m_SmearColorMax

void SetAxisMin(TDataType min)

void SetAnnotName(const string &name)

void SetAxisMax(TDataType max)

void SetFixedScale(bool value)

virtual void GetHTMLActiveAreas(TAreaVector *p_areas) const

Get html active areas.

TDataType GetMax() const

Get the actually density max/min values.

void SetRenderingMode(ERenderingMode mode)

void DrawGrid(bool include_background) const

void SetConfig(const CSeqGraphicConfig &config)

CLayeredLayout is a standard 2D layout policy.

void PushBack(CSeqGlyph *obj)

Append a layout object to the end.

const TObjectList & GetChildren() const

CLayoutGroup inline methods.

virtual void GetHTMLActiveAreas(TAreaVector *p_areas) const

Get html active areas.

virtual CRef< CSeqGlyph > HitTest(const TModelPoint &p)

Hit testing.

ILayoutPolicy::TObjectList TObjectList

bool m_Expanded

is this track in expanded state

virtual void x_SaveSettings(const string &preset_style)

save the track settings to a profile string.

bool m_On

is this track shown

CLayoutTrack * GetParentTrack()

void x_OnLayoutChanged()

update the layout.

const string & GetId() const

bool x_HitTitleBar(const TModelPoint &p) const

hit the title bar?.

void SetProfile(const string &preset_style)

CLayoutTrack inline method implmentation.

CRef< CSeqGraphicConfig > m_gConfig

global configuration.

COverlayLayout is the layout policy that arranges glyphs over the top of each other.

CRenderingContext offers the basic context and utility methods for rendering layout objects in featur...

TModelRange IntersectVisible(const CSeqGlyph *obj) const

TModelUnit SeqToScreen(const TModelUnit &size) const

convert from sequence positions to screen pixels

TModelUnit ScreenToSeq(const TModelUnit &size) const

convert from screen pixels to sequence positions

TSeqPos GetViewWidth() const

static string ComposeProfileString(const TKeyValuePairs &settings)

CRenderingContext * m_Context

the rendering context

void x_Parent2Local(TModelPoint &pnt) const

Transform the coordiante from parent coord. to local coord.

virtual void SetHeight(TModelUnit h)

bool IsIn(const TModelPoint &p) const

Hit test for points in PARENT COORD.

virtual void SetWidth(TModelUnit w)

virtual void SetLeft(TModelUnit l)

virtual TModelUnit GetTop() const

virtual TModelUnit GetHeight() const

virtual void Update(bool)

Update content and layout including the bounding box.

virtual void SetTop(TModelUnit b)

void Draw() const

render the layout.

virtual TModelUnit GetWidth() const

virtual TModelUnit GetLeft() const

vector< CHTMLActiveArea > TAreaVector

CRef< CHistParamsManager > GetHistParamsManager() const

Get histogram config manager.

CRef< CGlTextureFont > GetLabelFont() const

CSimpleLayout is the simpliest layout policy that simply stack a set of glyphs one on top of the othe...

virtual CRef< CTempTrackProxy > Clone() const

list< CRef< CTempTrackProxy > > TTrackProxies

void SetSource(const string &src)

const TAnnots & GetAnnots() const

const TTrackProxies & GetChildren() const

void SetOrder(int order)

CTempTrackProxy class implementation.

const string & GetStoredScale() const

const CLayoutTrack * GetTrack() const

static CRef< objects::CChoice > CreateChoice(const string &name, const string &disp_name, const string &curr_val, const string &help, bool optional=false)

static CRef< objects::CHiddenSetting > CreateHiddenSetting(const string &name, const string &value)

static CRef< objects::CCheckBox > CreateCheckBox(const string &name, const string &disp_n, const string &help_text, const string &legend_txt, bool value, bool optional=false)

static CRef< objects::CRangeControl > CreateRangeControl(const string &name, const string &disp_name, const string &help, const string &value_min, const string &value_max, bool autoscale=true, bool inverse=false, bool optional=false)

static void DecodeValueRange(const string &value_range, string &range_min, string &range_max, bool &range_auto)

static CRef< objects::CChoiceItem > CreateChoiceItem(const string &name, const string &disp_name, const string &help, const string &legend_txt, bool optional=false)

CTrackContainer - a track container in the form of layout track.

void SetSkipGenuineCheck(bool flag)

const TTrackProxies & GetSubtrackProxies() const

CTrackContainer inline methods.

void AddTrackProxy(CTempTrackProxy *proxy, bool upgateMsg=true)

Add a track proxy.

CTrackProxy * AddNewTrack(const string &track_key, const CTrackProxy::TAnnots &annots, const string &disp_name, const string &name="", const string &filter="", const string &sub_key="")

Add a new empty track proxy.

virtual void OnToggleTrack(int order)

void SetAdaptive(bool flag)

void SetAnnotLevel(int level)

void x_UpdateMsg()

udpate message in track title bar.

virtual void RemoveTrack(int order, bool immediately=true)

completely remove a track from the hierachical tree.

void MoveTrack(int from, int to)

CTempTrackProxy::TTrackProxies TTrackProxies

TTrackProxies m_TrackProxies

all the tracks including on and off.

virtual void x_OnAllJobsFinished()

actions to take on all job finished.

CTrackProxy data structure contains information about the position of a track in its parent scope,...

CTrackTypeInfo - holds description of a layout track type.

const string & GetDescr() const

const string & GetId() const

static CUICommandRegistry & GetInstance()

the main instance associated with the application

ISGDSManager is seqgraphic data source manage that serves as an data source context.

virtual CIRef< ISGDataSource > GetDS(const string &type, SConstScopedObject &object)=0

Get a seqgraphic data source instance of the specified type.

void(*)(CSeq_entry_Handle seh, IWorkbench *wb, const CSerialObject &obj) handler

static const int kLegendBarWidth

static const string kStacked

static const int kLegendLabelGap

static const string kValueRange

static const int kLegenPadding

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define ERASE_ITERATE(Type, Var, Cont)

Non-constant version with ability to erase current element, if container permits.

#define VECTOR_ERASE(Var, Cont)

Use this macro inside body of ERASE_ITERATE cycle to erase from vector-like container.

#define NON_CONST_ITERATE(Type, Var, Cont)

Non constant version of ITERATE macro.

#define ERR_POST(message)

Error posting with file, line number information but without error codes.

#define LOG_POST(message)

This macro is deprecated and it's strongly recomended to move in all projects (except tests) to macro...

void Error(CExceptionArgs_Base &args)

IRender & GetGl()

convenience function for getting current render manager

virtual TModelUnit TextHeight(const CGlTextureFont *font) const =0

virtual TModelUnit TextWidth(const CGlTextureFont *font, const char *text) const =0

string ToString(bool printAlpha=true, bool uchars=true) const

Return a string representation of the current color.

void FromString(const string &str)

Assign color values encoded in a string.

CRef< C > Ref(C *object)

Helper functions to get CRef<> and CConstRef<> objects.

TObjectType * GetPointer(void) THROWS_NONE

Get pointer,.

void Reset(void)

Reset reference object.

position_type GetLength(void) const

static position_type GetEmptyFrom(void)

TThisType & Set(position_type from, position_type to)

static position_type GetEmptyTo(void)

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

static bool StringToBool(const CTempString str)

Convert string to bool.

static int StringToInt(const CTempString str, TStringToNumFlags flags=0, int base=10)

Convert string to int.

static const string BoolToString(bool value)

Convert bool to string.

static string Join(const TContainer &arr, const CTempString &delim)

Join strings using the specified delimiter.

static bool EqualNocase(const CTempString s1, SIZE_TYPE pos, SIZE_TYPE n, const char *s2)

Case-insensitive equality of a substring with another string.

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.

@ fConvErr_NoThrow

Do not throw an exception on error.

static const char label[]

void SetFrom(TFrom value)

Assign a value to From data member.

TTo GetTo(void) const

Get the To member data.

TFrom GetFrom(void) const

Get the From member data.

void SetTo(TTo value)

Assign a value to To data member.

Tdata & Set(void)

Assign a value to data member.

constexpr auto sort(_Init &&init)

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

const CharType(& source)[N]

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

#define row(bind, expected)

int g(Seg_Gsm *spe, Seq_Mtf *psm, Thd_Gsm *tdg)

#define WX_DEFINE_MENU(name)

New macros for defining menus for use with CUICommandRegistry.

#define WX_MENU_ITEM(cmd)

wxMenu * CreateMenu(const CMenuItem *item)

Creates a wxMenu object replicating the structure of CMenuItem.

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