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NCBI C++ ToolKit: src/gui/packages/pkg_snp/bins/bins_track.cpp Source File

);

, m_IconLayout(eIcon_Layout,

,

,

)

.SetBottom(

.Top() + (

)tb_height + (tb_height > 0.0 ? 2 : 0));

p_areas->push_back(area);

&(p_areas->back());

bIsLayoutOnlyChange =

;

wxMenuItemList& item_list = menu.GetMenuItems();

(wxMenuItemList, iter, item_list) {

((*iter)->IsChecked() &&

!=

) {

bIsLayoutOnlyChange =

;

(bIsLayoutOnlyChange);

kNPP_Cutoff= 50;

(

);

(

(*glyph) ==

(

)) {

(objs.size()==1) {

}

(gene_marker) {

( !src_annots.

() ) {

seq_ds->

(iter->first);

( !iter->second.empty() ) {

track->SetTitle(iter->second);

track->SetAnnot(iter->first);

->SetLegend_text(

);

CAppJobNotification Notification send by CAppJobEventTranslator.

void SetName(const string &)

static void GetTrackNames(SConstScopedObject &object, TAnnotNameTitleMap &names, const TSeqRange &range, const ILayoutTrackFactory::SExtraParams &)

void LoadData(const TSeqRange &range, TModelUnit scale, bool isSeqView)

static string GenerateBinSignature(const string &title, const string &annot_name, TGi gi, TSeqRange range, objects::NSnpBins::TBinType BinType)

objects::NSnpBins::TBinType GetType() const

const string & GetTitle() const

virtual string GetExtensionIdentifier() const

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

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

CBinsTrackFactory.

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

virtual string GetExtensionLabel() const

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

virtual void GetMatchedAnnots(const TAnnotMetaDataList &src_annots, const ILayoutTrackFactory::SExtraParams &params, TAnnotNameTitleMap &out_annots) const

virtual const CTrackTypeInfo & GetThisTypeInfo() const

void x_ProcessBinsJobResult(const SBinsJobResult &result)

objects::SAnnotSelector m_FeatSel

virtual void x_OnIconClicked(TIconID id)

Mouse left-click event handler on an icon.

@ eLayout_Labels

Show labels and cascade features (CLayeredLayoutPolicy)

static CTrackTypeInfo m_TypeInfo

CBinsTrack.

virtual string GetFullTitle() const

get a more meaningful title.

void SetAnnot(const string &name)

virtual void x_UpdateData()

update track content.

virtual void x_OnJobCompleted(CAppJobNotification &notify)

CBinsTrack(CBinsDS *ds, CRenderingContext *r_cntx)

bool x_IsOverviewMode() const

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

load the track settings.

virtual void GetHTMLActiveAreas(TAreaVector *p_areas) const

Get html active areas.

virtual const CTrackTypeInfo & GetTypeInfo() const

virtual CHTMLActiveArea * InitHTMLActiveArea(TAreaVector *p_areas) const

Initialize the HTML active area for a track.

objects::NSnpBins::TBinType m_BinType

CDataTrack - a abstract base class for layout tracks which need to deal with background data retrieva...

virtual void Update(bool layout_only)

Update content and layout including the bounding box.

const string & GetTitle() const

virtual void GetHTMLActiveAreas(TAreaVector *p_areas) const

Get html active areas.

void Add(CSeqGlyph *obj)

Append a layout object to the end.

const CLayoutGroup::TObjectList & GetChildren() const

CRef< CLayeredLayout > m_Layered

@ fNoNavigation

track title won't show navigation controls

@ fNoPin

tooltip is not pinnable

@ fNoSelection

the object can't be selected

int m_Flags

area flags, will need to replace m_Type

const string & GetTitle() const

void SetConfig(const CSeqGraphicConfig &config)

void x_DeregisterIcon(TIconID id)

deregister an icon if already registered.

@ eIcon_Layout

icon id for setting layout style

ILayoutTrackHost * m_LTHost

Top level host owning the tracks.

string GetTitle() const

get the track title.

void x_OnLayoutChanged()

update the layout.

TTrackAttrFlags m_Attrs

various track attributes

virtual void x_OnIconClicked(TIconID id)

Mouse left-click event handler on an icon.

@ fNavigable

Track has navigation controls.

TModelUnit x_GetTBHeight() const

Get title bar height including margin.

void SetMsg(const string &msg)

CConstRef< CSeqGraphicConfig > x_GetGlobalConfig() const

Method for getting global configuration from rendering context.

CRef< CSeqGraphicConfig > m_gConfig

global configuration.

int TIconID

use int as TIconID instead of EIconID.

virtual CHTMLActiveArea * InitHTMLActiveArea(TAreaVector *p_areas) const

Initialize the HTML active area for a track.

void x_RegisterIcon(const SIconInfo &icon)

register track icons.

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

const TSeqRange & GetVisSeqRange() const

const TModelUnit & GetScale() const

bool WillSeqLetterFit() const

is it enougth space to sequence letters.

virtual bool AllJobsFinished() const

void SetJobListener(CEventHandler *listener)

Set JobDispatcher listener.

objects::CBioseq_Handle & GetBioseqHandle(void)

Get the underlying bioseq handle.

virtual void ClearJobID(TJobID job_id)

void SetDepth(int depth)

Set the annotation selector resolving depth.

virtual void DeleteAllJobs()

Remove waiting jobs from queue or cancel the unfinished jobs.

void SetAdaptive(bool flag)

class CSeqGlyph defines an interface that wraps a rectilinear abstract object.

void x_InitHTMLActiveArea(CHTMLActiveArea &area) const

initialize the basic information for a given active area.

CRenderingContext * m_Context

the rendering context

vector< CHTMLActiveArea > TAreaVector

list< CRef< CSeqGlyph > > TObjects

int GetObjectSpace() const

CTrackTypeInfo - holds description of a layout track type.

const string & GetDescr() const

const string & GetId() const

static void GetMatchedAnnots(const TAnnotMetaDataList &src_annots, const vector< string > &target_annots, const string &annot_type, const string &track_type, TAnnotNameTitleMap &out_annots)

Help function to find matched annotations.

virtual void LTH_PopupMenu(wxMenu *menu)=0

show track-specific context menu.

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.

objects and functions for dealing with variation (historically called SNP) bins

@ eGAP

dbGaP analysis files

@ eGCAT

NHGRI GWAS Catalog Track (AKA Association Results)

iterator_bool insert(const value_type &val)

container_type::value_type value_type

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define ERR_POST(message)

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

static objects::SAnnotSelector GetAnnotSelector(TAnnotFlags flags=0)

request an annotation selector for a given type

CRef< CObject > GetResult() const

returns non-null pointer only if Completed or Running and has temporary results available

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,...

TGi GetGiForId(const objects::CSeq_id &id, CScope &scope, EGetIdType flags=0)

Given a Seq-id retrieve the corresponding GI.

@ eGetId_ForceGi

return only a gi-based seq-id

TObjectType * GetPointer(void) THROWS_NONE

Get pointer,.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

Tdata & Set(void)

Assign a value to data member.

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

T bound(T x_, T xlo_, T xhi_)

TIconID m_Id

must be unique within the context

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