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NCBI C++ ToolKit: include/gui/widgets/aln_score/template_methods.hpp Source File

1 #ifndef GUI_WIDGETS_ALN_SCORE___TEMPLATE_METHODS__HPP 2 #define GUI_WIDGETS_ALN_SCORE___TEMPLATE_METHODS__HPP 88 const string

& GetSetBases()

const

;

89 void

AddSetBase(

char

cbase);

122 virtual void

CreateColorTable(

int size

);

150 size_t

GetWindowSize()

const

;

164 void

x_CalculateConsensusScores(

char

cons,

const string

column

166 void

x_CalculateNonConsensusScores(

const string

column

TScore

& col_score,

200 virtual void

CreateColorTable(

int size

);

225 size_t

GetWindowSize()

const

;

236 void

x_CalculateConsensusRange();

237 void

x_CalculateNonConsensusRange();

238 static int

x_BaseToIndex(

char

c);

@ eBoth

Both preliminary and traceback stages.

void x_CreateColorTable(CNcbiRegistry &reg)

string m_SetBases

> Foreground color when nothing specified for a base.

CRgbaColor m_DefaultForeColor

> Background color when nothing specified for a base.

CRgbaColor m_DefaultBackColor

> foreground or text colors

vector< CRgbaColor > m_Colors

vector< CRgbaColor > m_ForeColors

> background colors

vector< TScore > m_vScore

void x_CreateScoreTable(CNcbiRegistry &reg)

size_t m_WindowSize

relative, not absolute scores.

CRgbaGradColorTable m_ColorTable

TScore m_MinScore

weight matrix

TScore m_MaxScore

possible range of scores.

CRgbaColor x_GetThreeColorScore(TScore score) const

CRgbaColor x_GetTwoColorScore(TScore score) const

TScore m_NonConsensusMaxScore

TScore m_NonConsensusMinScore

void x_CreateScoreTable(CNcbiRegistry &reg)

unsigned char m_CalculateRange

CNcbiMatrix< TScore > m_vScore

TScore m_ConsensusMinScore

TScore m_ConsensusMaxScore

CRgbaGradColorTable m_ColorTable

class CRgbaColor provides a simple abstraction for managing colors.

CRgbaGradColorTable Provides a storage for colors (to eliminate color creation overhead) and Function...

CTemplateMethod - describes a class of similar methods.

virtual bool Save(CNcbiRegistry &reg)

virtual bool Load(CNcbiRegistry &reg)

virtual int GetSupportedColorTypes() const

returns a combination of EColorType flags

IColumnScoringMethod - column-based method.

IRowScoringMethod - row-based method.

virtual void CalculateScores(IAlnExplorer::TNumrow row, const IScoringAlignment &aln, IScoringMethod::TScoreColl &scores)=0

IScoringMethod represents an abstract algorithm for calculating alignment scores and assigning colors...

virtual void SetColorForNoScore(IScoringMethod::EColorType type, const CRgbaColor &color)=0

virtual const CRgbaColor & GetColorForScore(TScore score, EColorType type) const =0

returns a color corresponding to a given score value.

vector< TScore > TScoreVector

virtual const CRgbaColor & GetColorForNoScore(IScoringMethod::EColorType type) const =0

Call for display colors when CanCalculateScores returns false.

IWindowScoringMethod - Method that can be windowed, i.e.

CRgbaColor & GetColor(CSeqFeatData::ESubtype subtype)

static const char * column

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define NCBI_GUIWIDGETS_ALNSCORE_EXPORT

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

#define row(bind, expected)

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