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

objects::CBioseq_Handle& handle,

: m_AlignSmear(new

(handle, start, stop, window, strand_type))

objects::CBioseq_Handle& handle,

objects::CSeq_annot& seq_annot)

: m_AlignSmear(new

(handle, start, stop, window, strand_type))

(; seg_it; seg_it.

()) {

t < m_Context->GetVisSeqFrom())

(; gap_it; gap_it.

()) {

+=

;

+=

;

virtual void x_UpdateBoundingBox()

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

virtual void GetTooltip(const TModelPoint &p, ITooltipFormatter &tt, string &t_title) const

Get the tooltip if available.

CRef< CAlignmentSmear > m_AlignSmear

CAlignSmearGlyph(const objects::CBioseq_Handle &handle, TSeqPos start, TSeqPos stop, float window, CAlignmentSmear::EAlignSmearStrand strand_type)

const CAlignmentSmear & GetAlignSmear() const

}

CConstRef< CAlignmentConfig > m_Config

virtual void x_Draw() const

The default renderer for this layout object.

virtual bool NeedTooltip(const TModelPoint &p, ITooltipFormatter &tt, string &t_title) const

Check if need to show tooltip.

virtual bool IsClickable() const

Query if this glyph is clickable.

CRgbaColor m_SmearColorMin

CRgbaColor m_SmearColorMax

CGlTextureFont m_LabelFont

Run iterator. iterate through runs of equal values in the bins.

void TextOut(const CGlTextureFont *font, const char *text, TModelUnit x, TModelUnit y, bool center, bool adjust_flip=true) const

const TModelRange & GetVisibleRange() const

TModelRange IntersectVisible(const CSeqGlyph *obj) const

TSeqPos GetVisSeqTo() const

void DrawLine(TModelUnit x1, TModelUnit y1, TModelUnit x2, TModelUnit y2) const

void DrawQuad(const TModelRect &rc, bool border=false) const

const CRgbaColor & GetSelLabelColor() const

bool WillLabelFit(const TModelRect &rc) const

class CRgbaColor provides a simple abstraction for managing colors.

CRenderingContext * m_Context

the rendering context

virtual void SetHeight(TModelUnit h)

virtual void SetWidth(TModelUnit w)

virtual TSeqRange GetRange(void) const

get the total range of this object.

virtual void SetLeft(TModelUnit l)

virtual TModelUnit GetHeight() const

TModelRect GetModelRect() const

get the bounding box.

unsigned int TSeqPos

Type for sequence locations and lengths.

score_type GetMaxValue() const

void AddAnnot(const objects::CSeq_annot &seq_annot, ISeqTaskProgressCallback *p_cb=NULL)

INPUT:

runlen_iterator SmearGapBegin() const

EAlignSmearStrand GetStrandType() const

runlen_iterator SmearSegBegin() const

OUTPUT:

IRender & GetGl()

convenience function for getting current render manager

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

void Color4f(GLfloat r, GLfloat g, GLfloat b, GLfloat a)

virtual void ColorC(const CRgbaColor &c)=0

Set current color (glColor{3,4}{f,d}{v,})

TSeqPos GetSeqPosition() const

virtual void AddRow(const string &sContents="", unsigned colspan=2)=0

add a row with a cell, spanning across all columns

float GetBlue(void) const

float GetGreen(void) const

static CRgbaColor Interpolate(const CRgbaColor &color1, const CRgbaColor &color2, float alpha)

Interpolate two colors.

TSeqPos GetSeqRunLength() const

float GetRed(void) const

Get specific channels in floating point values.

string GetLabel(const CSeq_id &id)

position_type GetLength(void) const

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

static const char label[]

TTo GetTo(void) const

Get the To member data.

TFrom GetFrom(void) const

Get the From member data.

const GenericPointer< typename T::ValueType > T2 value

double r(size_t dimension_, const Int4 *score_, const double *prob_, double theta_)

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