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

(; seg_it; seg_it.Advance()) {

= seg_it.GetSeqRunEndPosition();

vector<TSeqRange> gaps;

(

&& gap : gaps) {

rasterizer.

(gap.GetFrom(), gap.GetToOpen(), 1., [](

& dst,

& src,

fraction,

) {

dst = min<float>(1., dst + fraction);

gl.

(GL_SRC_ALPHA, GL_ONE_MINUS_SRC_ALPHA);

& raster = rasterizer.

();

kGaps_Threshold = 0.025f;

(

x1 = 0; x1 < raster.size();) {

(raster[x1] < kGaps_Threshold) {

= max<float>(0.25, raster[x1]);

(++x2 < raster.size()) {

& new_val = raster[x2];

(new_val < kGaps_Threshold || max<float>(0.25, new_val) !=

)

next_pos = x2;

start = x1 + shift_x;

stop = x2 + shift_x;

gl.

(GL_LINES);

gl.

(start, top, stop, bottom);

(m_RangesCache.capacity() <= m_ReservedCount)

m_RangesCache.reserve(m_ReservedCount);

(m_RangesCache.capacity() == m_RangesCache.size()) {

m_RangesCache.reserve(m_ReservedCount);

item.

= range_it->GetFrom();

item.

= range_it->GetTo();

m_RangesCache.push_back(item);

sz = m_RangesCache.size();

writer.

(

*

(&sz),

(sz));

writer.

(

*

(&m_RangesCache[0]), m_RangesCache.size() *

(m_RangesCache[0]));

reader.

(

*

(&sz),

(sz));

m_RangesCache.resize(sz);

buf_size = sz *

(m_RangesCache[0]);

* buf_ptr =

*

(&m_RangesCache[0]);

(buf_size > 0) {

rw_res = reader.

(buf_ptr, buf_size, &bytes_read);

buf_ptr += bytes_read;

buf_size -= bytes_read;

}

(rw_res ==

) {

(

= 0;

< m_RangesCache.size(); ++

) {

m_Bins.resize(x_CalcNbins(), m_DefVal);

(

= 0;

< m_RangesCache.size(); ++

) {

(

= 0;

< m_RangesCache.size(); ++

) {

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

TModelUnit GetVisibleFrom() const

CRef< CSGSequenceDS > GetSeqDS() const

CGlPane * GetGlPane()

inline method implementations

const TModelRange & GetVisibleRange() const

TVPUnit SeqToScreenX(const TModelUnit &size) const

TModelUnit GetVisibleTo() const

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

const TModelUnit & GetScale() const

void Draw3DQuad(TModelUnit x1, TModelUnit y1, TModelUnit x2, TModelUnit y2, const CRgbaColor &color, bool border=false) const

class CRgbaColor provides a simple abstraction for managing colors.

TSeqPos GetSequenceLength() const

void AddRanges(CRangeCollection< TSeqPos > ranges, TValueType score=1, bool expand=false)

void AddRange(TSeqRange range, TValueType score=1, bool expand=false)

std::vector< SRangeItem > m_RangesCache

void Deserialize(IReader &reader)

void GetGaps(const TModelRange &range, vector< TSeqRange > &gaps)

void SetRange(const TSeqRange &range)

void Serialize(IWriter &writer) const

virtual void x_Draw() const

The default renderer for this layout object.

unique_ptr< CSegMap > m_SegMap

CSegmentSmearGlyph(CSegMap *map)

virtual bool IsClickable() const

Query if this glyph is clickable.

virtual void x_UpdateBoundingBox()

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

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

Check if need to show tooltip.

TColorCode m_Colors

color code for segment map.

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

Get the tooltip if available.

CRenderingContext * m_Context

the rendering context

virtual void SetWidth(TModelUnit w)

virtual void SetLeft(TModelUnit l)

virtual TModelUnit GetTop() const

virtual TModelUnit GetHeight() const

A very basic data-read interface.

A very basic data-write interface.

unsigned int TSeqPos

Type for sequence locations and lengths.

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define NCBI_THROW(exception_class, err_code, message)

Generic macro to throw an exception, given the exception class, error code and message string.

virtual void Scalef(GLfloat x, GLfloat y, GLfloat z)=0

const TRaster & GetRaster() const

virtual void Enable(GLenum glstate)=0

virtual void Begin(GLenum mode)=0

Start rendering.

virtual void BlendFunc(GLenum sfactor, GLenum dfactor)=0

Options to be used when GL_BLEND is enabled.

IRender & GetGl()

convenience function for getting current render manager

void Vertex2d(GLdouble x, GLdouble y)

TVPRect & GetViewport(void)

virtual void PopAttrib()=0

virtual void PushAttrib(GLbitfield mask)=0

virtual void PopMatrix()=0

virtual void End()=0

Finish rendering (create buffer and send to renderer)

void AddInterval(TModelUnit min, TModelUnit max, const A &attr, F f_add)

virtual void PolygonMode(GLenum face, GLenum mode)=0

Set the polygon rasterization mode.

virtual void ColorC(const CRgbaColor &c)=0

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

void Rectd(GLdouble x1, GLdouble y1, GLdouble x2, GLdouble y2)

virtual void PushMatrix()=0

virtual void AddRanges(CRangeCollection< TSeqPos > ranges, CntType score=1, bool expand=false)

virtual void AddRange(TSeqRange range, CntType score=1, bool expand=false)

CRange< TSeqPos > TSeqRange

typedefs for sequence ranges

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

ERW_Result

Result codes for I/O operations.

virtual ERW_Result Flush(void)=0

Flush pending data (if any) down to the output device.

virtual ERW_Result Write(const void *buf, size_t count, size_t *bytes_written=0)=0

Write up to "count" bytes from the buffer pointed to by the "buf" argument onto the output device.

virtual ERW_Result Read(void *buf, size_t count, size_t *bytes_read=0)=0

Read as many as "count" bytes into a buffer pointed to by the "buf" argument.

@ eRW_Eof

End of data, should be considered permanent.

@ eRW_Success

Everything is okay, I/O completed.

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

Reader-writer based streams.

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