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NCBI C++ ToolKit: CTraceGraph Class Reference

CTraceGraph - trace data renderer. More...

#include <gui/widgets/aln_multiple/trace_graph.hpp>

CTraceGraph (const objects::CBioseq_Handle &handle, bool b_neg_strand) void SetConfGraphState (EGraphState state) void SetSignalGraphState (EGraphState state) virtual void Render (CGlPane &pane) virtual TVPPoint PreferredSize () virtual bool NeedTooltip (CGlPane &pane, int vp_x, int vp_y) virtual string GetTooltip () virtual ~CTraceGraph () virtual bool IsCreated () const Graph is not considered fully functional until it has been "created" by the call to create function. More...
virtual bool Create () virtual void Destroy () virtual void Update (double, double) No need to update data for track graph. More...
virtual const IAlnRowGraphProperties * GetProperties () const virtual void SetProperties (IAlnRowGraphProperties *props) virtual void Render (CGlPane &pane, IAlnSegmentIterator &it) CObject (void) Constructor. More...
CObject (const CObject &src) Copy constructor. More...
virtual ~CObject (void) Destructor. More...
CObject & operator= (const CObject &src) THROWS_NONE Assignment operator. More...
bool CanBeDeleted (void) const THROWS_NONE Check if object can be deleted. More...
bool IsAllocatedInPool (void) const THROWS_NONE Check if object is allocated in memory pool (not system heap) More...
bool Referenced (void) const THROWS_NONE Check if object is referenced. More...
bool ReferencedOnlyOnce (void) const THROWS_NONE Check if object is referenced only once. More...
void AddReference (void) const Add reference to object. More...
void RemoveReference (void) const Remove reference to object. More...
void ReleaseReference (void) const Remove reference without deleting object. More...
virtual void DoNotDeleteThisObject (void) Mark this object as not allocated in heap – do not delete this object. More...
virtual void DoDeleteThisObject (void) Mark this object as allocated in heap – object can be deleted. More...
void * operator new (size_t size) Define new operator for memory allocation. More...
void * operator new[] (size_t size) Define new[] operator for 'array' memory allocation. More...
void operator delete (void *ptr) Define delete operator for memory deallocation. More...
void operator delete[] (void *ptr) Define delete[] operator for memory deallocation. More...
void * operator new (size_t size, void *place) Define new operator. More...
void operator delete (void *ptr, void *place) Define delete operator. More...
void * operator new (size_t size, CObjectMemoryPool *place) Define new operator using memory pool. More...
void operator delete (void *ptr, CObjectMemoryPool *place) Define delete operator. More...
virtual void DebugDump (CDebugDumpContext ddc, unsigned int depth) const Define method for dumping debug information. More...
CDebugDumpable (void) virtual ~CDebugDumpable (void) void DebugDumpText (ostream &out, const string &bundle, unsigned int depth) const void DebugDumpFormat (CDebugDumpFormatter &ddf, const string &bundle, unsigned int depth) const void DumpToConsole (void) const CRenderableImpl () CRenderableImpl. More...
virtual ~CRenderableImpl () virtual TVPRect GetVPRect () const virtual void SetVPRect (const TVPRect &rc) virtual TModelRect GetModelRect () const virtual void SetModelRect (const TModelRect &rc) virtual bool IsVisible () virtual void SetVisible (bool set) virtual void SetOrder (int order) virtual int GetOrder () const virtual ~IRenderable (void) virtual ~IAlnVecRowGraph () int x_GetConfGraphH () const int x_GetSignalGraphH () const void x_RenderText (CGlPane &pane) void x_RenderContour (CGlPane &pane, int y, int conf_h, int total_h, IAlnSegmentIterator &it) void x_RenderConfGraph (CGlPane &pane, int y, int h, IAlnSegmentIterator &it) void x_RenderSignalGraph (CGlPane &pane, int y, int h, IAlnSegmentIterator &it) void x_RenderCurveSegment (CGlPane &pane, const IAlnSegment &seg, const CTraceData::TPositions &positions, const CTraceData::TValues &values, int bottom_y, int h, int amp) void x_RenderIntensityGraphs (CGlPane &pane, int y, int h, IAlnSegmentIterator &it) Render signals for all channels as gradient-color bands with color intensity proprotional to signal strength. More...
const CRgbaColor & GetColorByValue (double value, int signal) const int x_FindSampleToLeft (double pos) const returns index of rightmost sample having m_SeqPos less then "pos". More...
int x_FindSampleToRight (double pos) const returns index of the leftmost sample having m_SeqPos greater than "pos" if "pos" is to the left of the trace range function returns -1, if "pos" is to the right of the trace range functions returns "n_samples" More...
virtual void DeleteThis (void) Virtual method "deleting" this object. More...

CTraceGraph - trace data renderer.

Renders confidence graph and A, C, T, G chromatograms using CTraceData as datasource.

Definition at line 82 of file trace_graph.hpp.

◆ EGraphState ◆ ESingnalStyle ◆ CTraceGraph() CTraceGraph::CTraceGraph ( const objects::CBioseq_Handle & handle, bool b_neg_strand )

Definition at line 74 of file trace_graph.cpp.

◆ ~CTraceGraph() CTraceGraph::~CTraceGraph ( ) virtual ◆ Create() bool CTraceGraph::Create ( void ) virtual

Implements IAlnVecRowGraph.

Definition at line 162 of file trace_graph.cpp.

References CTraceData::CalculateMax(), CTraceGraphProperties::eExpanded, CTraceGraphProperties::eHidden, CTraceData::GetSamplesCount(), kGradColors, CTraceDataProxy::LoadData(), m_Data, m_DataProxy, m_vSignalColors, SetConfGraphState(), and SetSignalGraphState().

◆ Destroy() void CTraceGraph::Destroy ( void ) virtual ◆ GetColorByValue() ◆ GetProperties() ◆ GetTooltip() string CTraceGraph::GetTooltip ( void ) virtual ◆ IsCreated() bool CTraceGraph::IsCreated ( ) const virtual

Graph is not considered fully functional until it has been "created" by the call to create function.

Only "Created" graph can be rendered. Creating may include loading data and building internal data structures.

Implements IAlnVecRowGraph.

Definition at line 156 of file trace_graph.cpp.

References m_Data, and NULL.

◆ NeedTooltip() ◆ PreferredSize() ◆ Render() [1/2] void CTraceGraph::Render ( CGlPane & pane ) virtual ◆ Render() [2/2]

Implements IAlnVecRowGraph.

Definition at line 229 of file trace_graph.cpp.

References IRender::BlendFunc(), IAlnSegmentIterator::Clone(), CGlPane::Close(), IRender::Disable(), CTraceGraphProperties::eCurve, CTraceGraphProperties::eExpanded, IRender::Enable(), GetGl(), CGlPane::GetOffsetY(), CGlPane::GetScaleX(), int, IRender::LineWidth(), CTraceGraphProperties::m_ConfGraphState, m_Data, CRenderableImpl::m_ModelRect, m_Props, CTraceGraphProperties::m_SignalGraphState, CTraceGraphProperties::m_SignalStyle, CGlPane::OpenOrtho(), CGlPane::OpenPixels(), CGlRect< T >::Top(), x_GetConfGraphH(), x_GetSignalGraphH(), x_RenderConfGraph(), x_RenderContour(), x_RenderIntensityGraphs(), and x_RenderSignalGraph().

◆ SetConfGraphState() void CTraceGraph::SetConfGraphState ( EGraphState state ) ◆ SetProperties() ◆ SetSignalGraphState() void CTraceGraph::SetSignalGraphState ( EGraphState state ) ◆ Update() virtual void CTraceGraph::Update ( double , double ) inlinevirtual ◆ x_FindSampleToLeft() int CTraceGraph::x_FindSampleToLeft ( double pos ) const protected

returns index of rightmost sample having m_SeqPos less then "pos".

if "pos" is to the left of the trace range function returns -1, if "pos" is to the right of the trace range functions returns "n_samples"

Definition at line 906 of file trace_graph.cpp.

References CTraceData::GetPositions(), CTraceData::GetSamplesCount(), CTraceData::GetSeqFrom(), CTraceData::GetSeqLength(), CTraceData::GetSeqTo(), i, int, m_Data, max(), and min().

Referenced by x_RenderCurveSegment(), and x_RenderIntensityGraphs().

◆ x_FindSampleToRight() int CTraceGraph::x_FindSampleToRight ( double pos ) const protected

returns index of the leftmost sample having m_SeqPos greater than "pos" if "pos" is to the left of the trace range function returns -1, if "pos" is to the right of the trace range functions returns "n_samples"

Definition at line 938 of file trace_graph.cpp.

References CTraceData::GetPositions(), CTraceData::GetSamplesCount(), CTraceData::GetSeqFrom(), CTraceData::GetSeqLength(), CTraceData::GetSeqTo(), i, int, m_Data, max(), and min().

Referenced by x_RenderCurveSegment(), and x_RenderIntensityGraphs().

◆ x_GetConfGraphH() int CTraceGraph::x_GetConfGraphH ( ) const protected ◆ x_GetSignalGraphH() int CTraceGraph::x_GetSignalGraphH ( ) const protected ◆ x_RenderConfGraph()

Definition at line 417 of file trace_graph.cpp.

References _ASSERT, IRender::Begin(), CGlRect< T >::Bottom(), CGlPane::Close(), IRender::Color3d(), IRender::Disable(), IRender::End(), CGlPane::eOrtho, SChunkTranslator::GetAlnPosFromSeqPos(), IAlnSegment::GetAlnRange(), CTraceData::GetConfidence(), CRange_Base::GetFrom(), GetGl(), CTraceData::GetMaxConfidence(), CGlPane::GetOffsetX(), CGlPane::GetProjMode(), IAlnSegment::GetRange(), CGlPane::GetScaleX(), CTraceData::GetSeqFrom(), SChunkTranslator::GetSeqPosFromAlnPos(), CTraceData::GetSeqTo(), CRange_Base::GetTo(), CGlPane::GetViewport(), CGlPane::GetVisibleRect(), SChunkTranslator::Init(), IAlnSegment::IsAligned(), CTraceData::IsNegative(), kGraphOffsetY, CGlRect< T >::Left(), m_Data, max(), min(), NULL, CGlPane::OpenPixels(), IRender::PolygonMode(), IRender::Rectd(), CGlRect< T >::Right(), swap(), and IRender::Vertex2d().