CAlnVecRow Class Reference

Search Toolkit Book for CAlnVecRow

class CAlnVecRow - implementation of IAlignRow for CAlnVec-based alignments. More...

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

Inheritance diagram for CAlnVecRow:

Collaboration diagram for CAlnVecRow:

Public Types
typedef IAlnExplorer::TSignedRange	TSignedRange
Public Types inherited from CObject
enum	EAllocFillMode { eAllocFillNone = 1 , eAllocFillZero , eAllocFillPattern }
	Control filling of newly allocated memory. More...
typedef CObjectCounterLocker	TLockerType
	Default locker type for CRef. More...
typedef atomic< Uint8 >	TCounter
	Counter type is CAtomiCounter. More...
typedef Uint8	TCount
	Alias for value type of counter. More...
Public Types inherited from CEventHandler
enum	EDispatch { eDispatch_SelfOnly , eDispatch_AllHandlers , eDispatch_FirstHandler , eDispatch_Default = eDispatch_AllHandlers }
	enum controlling dispatching strategies More...
enum	EPoolName {   ePool_Default = 0 , ePool_Parent , ePool_Child , ePool_Sibling ,   ePool_NextAvailable }
	Identifiers for standard pools. More...
typedef vector< CEventHandler * >	TListeners
typedef map< int, TListeners >	TPools
typedef list< AutoPtr< SPostRequest > >	TPostRequests
typedef std::map< CEventHandler *, int >	THandlerToCount
typedef void(*	FOnPostCallback) ()
Public Types inherited from IAlignRow
enum	EColumnType {   eInvalid = -1 , eDescr , eIcons , eSeqStart ,   eStart , eAlignment , eEnd , eSeqEnd ,   eSeqLength , eIconStrand , eIconExpand , eTaxLabel ,   eIsolationSource , eCountry , eCollectionDate , eHost ,   ePctIdentity , ePctCoverage , eMismatches , eGeneSymbol ,   eLast }
	Column identifier for use as TColumnType, defines basic column types this set can be extended in derived classes. More...
enum	EState {   fNone = 0 , fItemSelected = 0x01 , fItemFocused = 0x02 , fItemHidden = 0x08 ,   fWidgetFocused = 0x40000000 , fFocused = fItemFocused | fWidgetFocused , fSelectedActive = fItemSelected | fWidgetFocused , fSelectedFocused = fFocused | fItemSelected }
	Row state. More...
enum	EGraphCacheCmd { eInvalidate , eDelete }
typedef vector< CHTMLActiveArea >	TAreaVector
typedef int	TColumnType

Public Member Functions
	CAlnVecRow (const IAlignRowHandle &handle)
	CAlnVecRow. More...
	~CAlnVecRow ()
void	SetConsensus (CConsensusRow *crow)
virtual void	SetScoreCache (CScoreCache *cache)
virtual bool	IsExpandable () const
virtual bool	IsExpanded () const
virtual void	Expand (bool b_exp, CGlPane &pane)
virtual void	UseExternalOrganismLookup (bool f)
virtual string	GetAlignmentTooltip (TSeqPos pos, TSeqPos half_width)
virtual const IAlnRowGraphProperties *	GetProperties () const
virtual void	SetProperties (IAlnRowGraphProperties *props)
virtual TSeqPos	GetColumnAsSeqPos (TColumnType type, const TModelRect &rc_vis) const
virtual string &	GetColumnText (TColumnType col_type, string &text, bool for_printer=false) const
virtual float	GetColumnAsFloat (TColumnType type) const
virtual string &	GetAlnSeqString (string &buffer, const IAlnExplorer::TSignedRange &aln_rng) const
virtual string &	GetStringAtPos (string &buffer, TSignedSeqPos aln_pos) const
virtual void	GetRowStatistics (ITooltipFormatter &tooltip) const
virtual bool	UsesAATranslation () const
virtual bool	IsNucProtAlignment () const
const IAlignRowHandle &	GetRowHandle () const
virtual void	LTH_OnLayoutChanged ()
	provides mouse coords in OpenGL viewport coord system More...
virtual void	LTH_ZoomOnRange (const TSeqRange &range)
	notifies the host we need to zoom on to a range. More...
virtual void	LTH_PopupMenu (wxMenu *menu)
	show track-specific context menu. More...
virtual void	LTH_PushEventHandler (wxEvtHandler *handler)
virtual void	LTH_PopEventHandler ()
virtual void	LTH_ConfigureTracksDlg (const string &category)
void	SaveTrackConfig ()
void	LoadDefaultTracks ()
void	ConfigureTracks (bool reset=false)
void	ConfigureTracksDialog (const string &category=NcbiEmptyString)
size_t	GetTrackCount (CGlPane &pane)
void	GetTaxonomy (string &taxonomy) const
IAlignRow implementation
virtual void	SetHost (IAlignRowHost *host)
virtual void	SetDisplayStyle (const CRowDisplayStyle *style)
virtual const CRowDisplayStyle *	GetDisplayStyle ()
virtual int	GetRowNum () const
	Returns index of row in IAlnMultiDataSource. More...
virtual int	GetHeightPixels () const
	Returns height of the row in pixels. More...
virtual void	RenderColumn (TColumnType col_type)
	Renders a row cell corresponding to column specified by "col_type". More...
virtual void	OnMouseEvent (wxMouseEvent &event, TColumnType col_type, CGlPane &pane)
virtual void	GetTooltip (const TVPPoint &vp_pt, TColumnType col_type, CGlPane &pane, ITooltipFormatter &tooltip)
	returns tooltip text by point in the viewport coordinates More...
virtual void	GetHTMLActiveAreas (TColumnType col_type, CGlPane &pane, TAreaVector &areas)
virtual void	UpdateOnStyleChanged ()
virtual void	UpdateOnAnchorChanged ()
virtual void	Update (const CGlPane &pane, bool layout_only=false)
virtual void	PrepareRendering (CGlPane &pane, TVPUnit row_top, int state)
class ITrackHandlerHost implementation
virtual CRef< CLayoutTrack >	THH_GetLayoutTrack ()
	Get the layout track under the current mouse position. More...
virtual TModelPoint	THH_GetModelByWindow (const wxPoint &pt)
class IGenericHandlerHost implementation
virtual void	GHH_Redraw ()
	redraws the Host and the handler More...
virtual void	GHH_SetCursor (const wxCursor &cursor)
	changes the cursor in the hosting window More...
virtual void	GHH_CaptureMouse ()
	captures mouse events in the hosting window for D&D More...
virtual void	GHH_ReleaseMouse ()
	releases captured mouse More...
Public Member Functions inherited from CObjectEx
	CObjectEx (void)
virtual	~CObjectEx (void)
Public Member Functions inherited from CObject
	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...
Public Member Functions inherited from CDebugDumpable
	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
Public Member Functions inherited from CWeakObject
	CWeakObject (void)
virtual	~CWeakObject (void)
CPtrToObjectProxy *	GetPtrProxy (void) const
	Get pointer to proxy object containing pointer to this object. More...
Public Member Functions inherited from CEventHandler
	CEventHandler ()
	CEventHandler. More...
virtual	~CEventHandler ()
virtual void	AddListener (CEventHandler *listener, int pool_name=ePool_Default)
	Add a listener. More...
virtual void	RemoveListener (CEventHandler *listener)
	Remove a listener. More...
virtual void	RemoveAllListeners (void)
virtual bool	HasListener (CEventHandler *listener, int pool_name=ePool_Default) const
	returns "true" if the given listener belongs to the specified pool More...
virtual const TListeners *	GetListeners (int pool_name=ePool_Default) const
	returns a set of listeners fro the specified pool More...
virtual bool	OnEvent (CEvent *evt)
	Processes en event. Returns "true" if event has been processed. More...
virtual bool	Dispatch (CEvent *evt, EDispatch disp_how=eDispatch_Default, int pool_name=ePool_Default)
	Dispatches an event to the listeners (but does not handle it). More...
virtual bool	Send (CEvent *evt, EDispatch disp_how=eDispatch_Default, int pool_name=ePool_Default)
	Sends an event synchronously. More...
virtual bool	Send (CEvent *evt, int pool_name)
void	Post (CRef< CEvent > evt, EDispatch disp_how=eDispatch_Default, int pool_name=ePool_Default)
	Handles an event asynchronously (process and/or dispatch). More...
Public Member Functions inherited from ILayoutTrackHost
virtual	~ILayoutTrackHost ()
virtual void	ResetSearch ()
Public Member Functions inherited from ITrackHandlerHost
virtual	~ITrackHandlerHost ()
Public Member Functions inherited from IGenericHandlerHost
virtual	~IGenericHandlerHost ()
Public Member Functions inherited from CAlnRowState
	CAlnRowState ()
	CAlnRowState. More...
virtual int	GetRowState () const
	Returns row state (combination of EState flags) More...
virtual void	SetRowState (int mask, bool b_set)
	Set/Clear Row State. More...
Public Member Functions inherited from IAlignRow
virtual	~IAlignRow ()
virtual void	RenderRow ()
virtual void	GraphicsCacheCmd (EGraphCacheCmd)

Protected Types
enum	EButtons { eInvalid = -1 , eStrandMarker , eExpand , eSetupGraphs }
typedef CScoreCache::TScoreColl::const_iterator	TScoreConstIterator
Protected Types inherited from IAlignRow
typedef struct IAlignRow::SRenderCtx	SRenderCtx

Protected Member Functions
	DECLARE_EVENT_MAP ()
virtual int	x_GetBaseHeight () const
virtual void	x_RenderDescr ()
virtual void	x_RenderAlign ()
	Renders graphical part of the row. More...
virtual void	x_RenderIcons ()
virtual void	x_RenderIconStrand ()
virtual void	x_RenderIconExpand ()
virtual void	x_RenderEmptyBox ()
virtual void	x_RenderInserts (CGlPane &pane, int from, int to, TModelUnit top_y, TModelUnit bottom_y)
virtual void	x_RenderUnaligned (CGlPane &pane, int from, int to, TModelUnit top_y, TModelUnit bottom_y)
virtual void	x_RenderAlignSegments (CGlPane &pane, IAlnSegmentIterator &it_seg, TModelUnit top_y, TModelUnit bottom_y, const CRgbaColor &color)
virtual void	x_RenderAlignScores (IAlnSegmentIterator &it_seg, int top_y, int bottom_y, bool averageable)
virtual void	x_RenderAveragableScores (CGlPane &pane, IAlnSegmentIterator &it_seg, TScoreConstIterator it, const TScoreConstIterator it_end, int vp_top_y, int vp_bottom_y)
virtual void	x_RenderNonAveragableScores (CGlPane &pane, IAlnSegmentIterator &it_seg, TScoreConstIterator it, const TScoreConstIterator it_end, int vp_top_y, int vp_bottom_y)
virtual bool	x_CanRenderSeq (CGlPane &pane)
	Checks if sequence can be drawn. More...
virtual void	x_RenderSequence (CGlPane &pane, TModelUnit top_y, TModelUnit bottom_y, int start, int stop)
virtual void	x_RenderGraph (const TSignedRange &range)
virtual void	x_RenderAlnPos (TSeqPos aln_pos, IAlnExplorer::ESearchDirection dir)
virtual void	x_RenderTextCell (const string &text, IGlFont::TAlign align)
virtual TVPRect	x_GetButtonRect (EButtons btn, int shift=1)
virtual EButtons	x_HitTestButton (CGlPane &pane, const TVPPoint &pt)
virtual void	x_OnClickExpandBtn (CGlPane &pane)
virtual void	x_GetDescrTooltip (const TVPPoint &pt, CGlPane &pane, ITooltipFormatter &tooltip)
virtual void	x_GetIconsTooltip (const TVPPoint &pt, CGlPane &pane, ITooltipFormatter &tooltip)
virtual void	x_GetAlignmentTooltip (const TVPPoint &pt, CGlPane &pane, ITooltipFormatter &tooltip)
void	x_GetAlnPosLabel (TSeqPos aln_pos, IAlnExplorer::ESearchDirection dir, string &label) const
void	x_GetAlignmentTooltip_Helper (TSeqPos pos, TSignedRange &range, ITooltipFormatter &tooltip)
void	x_GetAlignmentTooltip_General (TSeqPos pos, ITooltipFormatter &tooltip)
void	x_GetAlignmentTooltip_Insert (const TSignedSeqRange &aln_r, const TSignedSeqRange &seq_r, ITooltipFormatter &tooltip)
void	x_GetAlignmentTooltip_Gap (const TSignedSeqRange &aln_r, const TSignedSeqRange &seq_r, ITooltipFormatter &tooltip)
void	x_GetAlignmentTooltip_Unaligned (TSignedSeqPos aln_prev_to, TSignedSeqPos aln_from, TSignedSeqPos prev_to, TSignedSeqPos from, ITooltipFormatter &tooltip)
string	x_GetTooltipSequence (TSeqPos from, TSeqPos to)
IAlignRowHost *	x_GetHost ()
void	x_OnGraphContentChanged (CEvent *evt)
void	x_OnGraphSizeChanged (CEvent *evt)
virtual void	x_UpdateRowHeight ()
virtual void	x_CreateTrackPanel (CGlPane &pane)
virtual void	x_ResetTrackPanel ()
bool	x_InitTrackPane (const CGlPane &row_pane, CGlPane &track_pane)
void	x_RenderTracks (CGlPane &pane, const TSignedRange &range)
CRef< CSeqGlyph >	x_HitTest (const TVPPoint &vp_pt, CGlPane &pane, TModelPoint &hit_point)
void	x_ForEachAlnSeg (const IAlnExplorer::TSignedRange &range, const CGlPane &src_pane, CGlPane &target_pane, const function< bool(CGlPane &pane)> &f)
Protected Member Functions inherited from CObject
virtual void	DeleteThis (void)
	Virtual method "deleting" this object. More...
Protected Member Functions inherited from CWeakObject
void	CleanWeakRefs (void) const
	Method cleaning all CWeakRefs referencing at this moment to the object After calling to this method all existing CWeakRefs referencing to the object will return NULL, so it effectively will be equal to deleting the object. More...
Protected Member Functions inherited from CEventHandler
virtual const SEvtMap *	GetEventMap () const
void	x_DeclareDead ()
	Removes itself unavailable for async event delivery. More...
void	x_AddListenerToPool (CEventHandler *listener, int pool_name)

Protected Attributes
const IAlignRowHandle &	m_Handle
CConsensusRow *	m_ConsensusRow
IAlignRowHost *	m_Host
int	m_Height
int	m_BaseHeight
bool	m_bExpanded
bool	m_fExtOrgLookup
const CRowDisplayStyle *	m_Style
CScoreCache *	m_Cache
	row display style More...
unique_ptr< CRenderingContext >	m_RenderingCtx
unique_ptr< CRenderingContext >	m_SequenceRenderingCtx
unique_ptr< CGlPane >	m_TrackPane
CRef< CFeaturePanel >	m_TrackPanel
bool	m_NeedUpdateContent = false
bool	m_NeedUpdateLayout = false
bool	m_NeedUpdateSelection = false
AutoPtr< CLayoutTrackHandler >	m_TrackHandler
CWeakRef< CLayoutTrack >	m_LastHitTrack
TVPUnit	m_PixLeft
	Graphics caching. More...
TVPUnit	m_PixRight
TModelUnit	m_ModelLeft
TModelUnit	m_ModelRight
Protected Attributes inherited from CEventHandler
TPools	m_Pools
Protected Attributes inherited from IAlignRow
SRenderCtx	m_RenderCtx

Additional Inherited Members
Static Public Member Functions inherited from CObject
static NCBI_XNCBI_EXPORT void	ThrowNullPointerException (void)
	Define method to throw null pointer exception. More...
static NCBI_XNCBI_EXPORT void	ThrowNullPointerException (const type_info &type)
static EAllocFillMode	GetAllocFillMode (void)
static void	SetAllocFillMode (EAllocFillMode mode)
static void	SetAllocFillMode (const string &value)
	Set mode from configuration parameter value. More...
Static Public Member Functions inherited from CDebugDumpable
static void	EnableDebugDump (bool on)
Static Public Member Functions inherited from CEventHandler
static bool	HandlePostRequest ()
static void	ClearPostQueue ()
	erases all events from the queue More...
static void	DestroyPostQueue ()
Static Public Attributes inherited from CObject
static const TCount	eCounterBitsCanBeDeleted = 1 << 0
	Define possible object states. More...
static const TCount	eCounterBitsInPlainHeap = 1 << 1
	Heap signature was found. More...
static const TCount	eCounterBitsPlaceMask
	Mask for 'in heap' state flags. More...
static const int	eCounterStep = 1 << 2
	Skip over the "in heap" bits. More...
static const TCount	eCounterValid = TCount(1) << (sizeof(TCount) * 8 - 2)
	Minimal value for valid objects (reference counter is zero) Must be a single bit value. More...
static const TCount	eCounterStateMask
	Valid object, and object in heap. More...
Static Protected Attributes inherited from CEventHandler
static const SEvtMap	sm_EvtMap

Detailed Description

class CAlnVecRow - implementation of IAlignRow for CAlnVec-based alignments.

CAlnVecRow uses CAlnVecRowHandle as proxy for accesing data in CAlnVec.

Definition at line 75 of file align_row.hpp.

Member Typedef Documentation

TScoreConstIterator

typedef CScoreCache::TScoreColl::const_iterator CAlnVecRow::TScoreConstIterator

protected

Definition at line 188 of file align_row.hpp.

TSignedRange

typedef IAlnExplorer::TSignedRange CAlnVecRow::TSignedRange

Definition at line 84 of file align_row.hpp.

Member Enumeration Documentation

EButtons

enum CAlnVecRow::EButtons

protected

Enumerator
eInvalid
eStrandMarker
eExpand
eSetupGraphs

Definition at line 182 of file align_row.hpp.

Constructor & Destructor Documentation

CAlnVecRow()

CAlnVecRow::CAlnVecRow

(

const IAlignRowHandle &

handle

)

CAlnVecRow.

Definition at line 104 of file align_row.cpp.

~CAlnVecRow()

&CAlnVecRow::x_OnGraphSizeChanged CAlnVecRow::~CAlnVecRow

(

)

Definition at line 129 of file align_row.cpp.

References NULL.

Member Function Documentation

ConfigureTracks()

void CAlnVecRow::ConfigureTracks

(

bool

reset = false

)

Definition at line 3129 of file align_row.cpp.

References CFeaturePanel::ConfigureTracks(), CSGConfigUtils::DefTrackProfile(), CRowDisplayStyle::GetSeqGraphicConfig(), m_bExpanded, m_Style, m_TrackPanel, CLayoutTrack::SetProfile(), CFeaturePanel::SetTrackConfig(), and CSeqGraphicConfig::SetTrackProfile().

ConfigureTracksDialog()

void CAlnVecRow::ConfigureTracksDialog

(

const string &

category = NcbiEmptyString

)

Definition at line 3121 of file align_row.cpp.

References m_bExpanded, m_TrackPanel, and CFeaturePanel::ShowConfigureTracksDlg().

Referenced by LTH_ConfigureTracksDlg().

DECLARE_EVENT_MAP()

CAlnVecRow::DECLARE_EVENT_MAP ( )

protected

Expand()

void CAlnVecRow::Expand ( bool  b_exp, CGlPane &  pane  )

virtual

Definition at line 2717 of file align_row.cpp.

References IAlignRowHost::ARH_OnRowChanged(), CFeaturePanel::ConfigureTracks(), IsExpandable(), IsExpanded(), m_bExpanded, m_TrackPanel, x_CreateTrackPanel(), x_GetHost(), x_ResetTrackPanel(), and x_UpdateRowHeight().

Referenced by x_OnClickExpandBtn().

GetAlignmentTooltip()

string CAlnVecRow::GetAlignmentTooltip ( TSeqPos  pos, TSeqPos  half_width  )

virtual

Definition at line 933 of file align_row.cpp.

References CHtmlTooltipFormatter::CreateTooltipFormatter(), compile_time_bits::range(), and x_GetAlignmentTooltip_Helper().

GetAlnSeqString()

string & CAlnVecRow::GetAlnSeqString ( string &  buffer, const IAlnExplorer::TSignedRange &  aln_rng  ) const

virtual

Implements IAlignRow.

Definition at line 2845 of file align_row.cpp.

References buffer, IAlignRowHandle::GetAlnSeqString(), and m_Handle.

Referenced by GetStringAtPos().

GetColumnAsFloat()

float CAlnVecRow::GetColumnAsFloat ( TColumnType  type ) const

virtual

Implements IAlignRow.

Definition at line 2823 of file align_row.cpp.

References IAlignRow::ePctCoverage, IAlignRow::ePctIdentity, IAlignRowHandle::GetPctCoverage(), IAlignRowHandle::GetPctIdentity(), m_Handle, and val.

GetColumnAsSeqPos()

TSeqPos CAlnVecRow::GetColumnAsSeqPos ( TColumnType  type, const TModelRect &  rc_vis  ) const

virtual

Implements IAlignRow.

Definition at line 2789 of file align_row.cpp.

References IAlignRow::eEnd, IAlnExplorer::eLeft, IAlignRow::eMismatches, IAlnExplorer::eRight, IAlignRow::eSeqEnd, IAlignRow::eSeqLength, IAlignRow::eSeqStart, IAlignRow::eStart, IAlignRowHandle::GetMismatches(), IAlignRowHandle::GetSeqLength(), IAlignRowHandle::GetSeqPosFromAlnPos(), IAlignRowHandle::GetSeqStart(), IAlignRowHandle::GetSeqStop(), int, IAlignRowHandle::IsNegativeStrand(), CGlRect< T >::Left(), m_Handle, and CGlRect< T >::Right().

GetColumnText()

string & CAlnVecRow::GetColumnText ( TColumnType  col_type, string &  text, bool  for_printer = false  ) const

virtual

Implements IAlignRow.

Definition at line 474 of file align_row.cpp.

References NStr::DoubleToString(), IAlignRow::eCollectionDate, IAlignRow::eCountry, IAlignRow::eDescr, IAlignRow::eEnd, IAlignRow::eGeneSymbol, IAlignRow::eHost, IAlignRow::eIsolationSource, IAlnExplorer::eLeft, IAlignRow::eMismatches, IAlignRow::ePctCoverage, IAlignRow::ePctIdentity, IAlnExplorer::eRight, IAlignRow::eSeqEnd, IAlignRow::eSeqLength, IAlignRow::eSeqStart, IAlignRow::eStart, IAlignRow::eTaxLabel, CTextUtils::FormatSeparatedNumber(), IAlignRowHandle::GetCollectionDate(), IAlignRowHandle::GetCountry(), IAlignRowHandle::GetGeneSymbol(), IAlignRowHandle::GetHost(), IAlignRowHandle::GetIsolationSource(), IAlignRowHandle::GetMismatches(), IAlignRowHandle::GetOrgLabel(), IAlignRowHandle::GetPctCoverage(), IAlignRowHandle::GetPctIdentity(), IAlignRowHandle::GetSeqLength(), IAlignRowHandle::GetSeqStart(), IAlignRowHandle::GetSeqStop(), IAlignRowHandle::GetText(), CGlPane::GetVisibleRect(), int, IAlignRowHandle::IsNegativeStrand(), CGlRect< T >::Left(), m_fExtOrgLookup, m_Handle, IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, NStr::NumericToString(), CGlRect< T >::Right(), text(), and x_GetAlnPosLabel().

Referenced by RenderColumn().

GetDisplayStyle()

const CRowDisplayStyle * CAlnVecRow::GetDisplayStyle ( )

virtual

Implements IAlignRow.

Definition at line 374 of file align_row.cpp.

References m_Style.

GetHeightPixels()

int CAlnVecRow::GetHeightPixels ( ) const

virtual

Returns height of the row in pixels.

Implements IAlignRow.

Definition at line 392 of file align_row.cpp.

References m_Height.

GetHTMLActiveAreas()

void CAlnVecRow::GetHTMLActiveAreas ( TColumnType  col_type, CGlPane &  pane, TAreaVector &  areas  )

virtual

Implements IAlignRow.

Definition at line 197 of file align_row.cpp.

References IAlignRow::eAlignment, IAlignRow::eDescr, eExpand, CAlnMultiRenderer::eHtmlArea_CheckBox, CAlnMultiRenderer::eHtmlArea_Link, IAlignRow::eIcons, IAlignRow::eSeqEnd, IAlignRow::eSeqStart, eStrandMarker, IAlignRow::eTaxLabel, IAlignRowHandle::GetOrgLabel(), IAlignRowHandle::GetRowNum(), IAlignRowHandle::GetSeqStart(), IAlignRowHandle::GetSeqStop(), IAlignRowHandle::GetText(), CGlPane::GetViewport(), NStr::IntToString(), IsExpandable(), IAlignRowHandle::IsNegativeStrand(), CGlRect< T >::Left(), m_fExtOrgLookup, m_Handle, IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, IAlignRow::SRenderCtx::m_Viewport, CGlRect< T >::Right(), CGlRect< T >::SetHorz(), and x_GetButtonRect().

GetProperties()

const IAlnRowGraphProperties * CAlnVecRow::GetProperties ( void  ) const

virtual

Definition at line 2767 of file align_row.cpp.

GetRowHandle()

const IAlignRowHandle & CAlnVecRow::GetRowHandle ( ) const

inline

Definition at line 307 of file align_row.hpp.

References m_Handle.

GetRowNum()

int CAlnVecRow::GetRowNum ( ) const

virtual

Returns index of row in IAlnMultiDataSource.

Implements IAlignRow.

Definition at line 386 of file align_row.cpp.

References IAlignRowHandle::GetRowNum(), and m_Handle.

GetRowStatistics()

void CAlnVecRow::GetRowStatistics ( ITooltipFormatter &  tooltip ) const

virtual

Implements IAlignRow.

Definition at line 2865 of file align_row.cpp.

References ITooltipFormatter::AddRow(), IAlignRowHandle::CreateSegmentIterator(), IAlnSegmentIterator::eAllSegments, IAlnExplorer::eLeft, IAlnExplorer::eRight, IAlnSegment::fAligned, IAlnSegment::fGap, IAlnSegment::fIndel, flags, IAlnSegment::fUnaligned, NStr::fWithCommas, IAlnSegment::GetAlnRange(), IAlnSegment::GetRange(), IAlignRowHandle::GetSeqAlnStart(), IAlignRowHandle::GetSeqAlnStop(), IAlignRowHandle::GetSeqPosFromAlnPos(), IAlnSegment::GetType(), NStr::IntToString(), IAlignRowHandle::IsNucProtAlignment(), m_Handle, COpenRange< Position >::Set(), and UsesAATranslation().

GetStringAtPos()

string & CAlnVecRow::GetStringAtPos ( string &  buffer, TSignedSeqPos  aln_pos  ) const

virtual

Implements IAlignRow.

Definition at line 2851 of file align_row.cpp.

References buffer, IAlnExplorer::eRight, GetAlnSeqString(), IAlignRowHandle::GetSeqPosFromAlnPos(), IAlignRowHandle::GetSeqString(), IsNucProtAlignment(), m_Handle, and UsesAATranslation().

GetTaxonomy()

void CAlnVecRow::GetTaxonomy

(

string &

taxonomy

)

const

Definition at line 1166 of file align_row.cpp.

References IAlignRowHandle::GetTaxonomy(), m_fExtOrgLookup, and m_Handle.

Referenced by x_GetAlignmentTooltip_General().

GetTooltip()

void CAlnVecRow::GetTooltip ( const TVPPoint &  vp_pt, TColumnType  col_type, CGlPane &  pane, ITooltipFormatter &  tooltip  )

virtual

returns tooltip text by point in the viewport coordinates

Implements IAlignRow.

Definition at line 605 of file align_row.cpp.

References ITooltipFormatter::AddRow(), IAlignRow::eAlignment, IAlignRow::eDescr, IAlignRow::eEnd, IAlignRow::eIcons, IAlignRow::eSeqEnd, IAlignRow::eSeqLength, IAlignRow::eSeqStart, IAlignRow::eStart, IAlignRow::eTaxLabel, x_GetAlignmentTooltip(), x_GetDescrTooltip(), and x_GetIconsTooltip().

GetTrackCount()

size_t CAlnVecRow::GetTrackCount

(

CGlPane &

pane

)

Definition at line 2738 of file align_row.cpp.

References CFeaturePanel::ConfigureTracks(), CLayoutGroup::GetChildrenNum(), CGlyphContainer::GetGroup(), IsExpandable(), m_TrackPanel, and x_CreateTrackPanel().

GHH_CaptureMouse()

void CAlnVecRow::GHH_CaptureMouse ( )

virtual

captures mouse events in the hosting window for D&D

Implements IGenericHandlerHost.

Definition at line 3015 of file align_row.cpp.

References IGenericHandlerHost::GHH_CaptureMouse(), and m_Host.

GHH_Redraw()

void CAlnVecRow::GHH_Redraw ( )

virtual

redraws the Host and the handler

Implements IGenericHandlerHost.

Definition at line 3002 of file align_row.cpp.

References IGenericHandlerHost::GHH_Redraw(), and m_Host.

GHH_ReleaseMouse()

void CAlnVecRow::GHH_ReleaseMouse ( )

virtual

releases captured mouse

Implements IGenericHandlerHost.

Definition at line 3021 of file align_row.cpp.

References IGenericHandlerHost::GHH_ReleaseMouse(), and m_Host.

GHH_SetCursor()

void CAlnVecRow::GHH_SetCursor ( const wxCursor &  cursor )

virtual

changes the cursor in the hosting window

Implements IGenericHandlerHost.

Definition at line 3009 of file align_row.cpp.

References IGenericHandlerHost::GHH_SetCursor(), and m_Host.

IsExpandable()

bool CAlnVecRow::IsExpandable ( ) const

virtual

Definition at line 2627 of file align_row.cpp.

References IAlignRowHandle::CanGetBioseqHandle(), and m_Handle.

Referenced by Expand(), GetHTMLActiveAreas(), GetTrackCount(), x_GetIconsTooltip(), x_RenderIconExpand(), and x_RenderIcons().

IsExpanded()

bool CAlnVecRow::IsExpanded ( ) const

virtual

Definition at line 2633 of file align_row.cpp.

References m_bExpanded.

Referenced by Expand(), x_OnClickExpandBtn(), x_RenderAlign(), x_RenderGraph(), and x_RenderTracks().

IsNucProtAlignment()

bool CAlnVecRow::IsNucProtAlignment ( ) const

virtual

Implements IAlignRow.

Definition at line 2947 of file align_row.cpp.

References IAlignRowHandle::IsNucProtAlignment(), and m_Handle.

Referenced by GetStringAtPos().

LoadDefaultTracks()

void CAlnVecRow::LoadDefaultTracks

(

)

Definition at line 3108 of file align_row.cpp.

References CFeaturePanel::LoadDefaultTracks(), m_bExpanded, m_TrackHandler, m_TrackPane, m_TrackPanel, AutoPtr< X, Del >::reset(), CLayoutTrackHandler::SetHost(), and CLayoutTrackHandler::SetPane().

LTH_ConfigureTracksDlg()

void CAlnVecRow::LTH_ConfigureTracksDlg ( const string &  category )

virtual

Reimplemented from ILayoutTrackHost.

Definition at line 3103 of file align_row.cpp.

References ConfigureTracksDialog().

LTH_OnLayoutChanged()

void CAlnVecRow::LTH_OnLayoutChanged ( )

virtual

provides mouse coords in OpenGL viewport coord system

notifies the host about changes of the track.

Implements ILayoutTrackHost.

Definition at line 3028 of file align_row.cpp.

References _ASSERT, IAlignRowHost::ARH_GetSelectionVisitor(), IAlignRowHost::ARH_OnRowChanged(), CGlPane::EnableOffset(), f, CSeqGlyph::GetHeight(), IAlignRowHandle::IsNegativeStrand(), m_bExpanded, m_Handle, m_Host, m_ModelLeft, m_ModelRight, m_NeedUpdateSelection, m_PixLeft, m_PixRight, m_RenderingCtx, m_TrackPane, m_TrackPanel, compile_time_bits::range(), CSeqGlyph::SetHeight(), CGlPane::SetViewport(), CGlPane::SetVisibleRect(), swap(), t, CFeaturePanel::Update(), CSelectionVisitor::UpdateSelection(), x_ForEachAlnSeg(), and x_UpdateRowHeight().

LTH_PopEventHandler()

void CAlnVecRow::LTH_PopEventHandler ( )

virtual

Implements ILayoutTrackHost.

Definition at line 3095 of file align_row.cpp.

References m_Host.

LTH_PopupMenu()

void CAlnVecRow::LTH_PopupMenu ( wxMenu *  menu )

virtual

show track-specific context menu.

Implements ILayoutTrackHost.

Definition at line 3075 of file align_row.cpp.

References m_Host, and CGlWidgetPane::SetPopupMenuDisplayed().

LTH_PushEventHandler()

void CAlnVecRow::LTH_PushEventHandler ( wxEvtHandler *  handler )

virtual

Implements ILayoutTrackHost.

Definition at line 3086 of file align_row.cpp.

References m_Host.

LTH_ZoomOnRange()

virtual void CAlnVecRow::LTH_ZoomOnRange ( const TSeqRange &  range )

inlinevirtual

notifies the host we need to zoom on to a range.

Implements ILayoutTrackHost.

Definition at line 149 of file align_row.hpp.

OnMouseEvent()

void CAlnVecRow::OnMouseEvent ( wxMouseEvent &  event, TColumnType  col_type, CGlPane &  pane  )

virtual

Implements IAlignRow.

Definition at line 542 of file align_row.cpp.

References _ASSERT, IAlignRowHost::ARH_GetRowTop(), IAlignRowHost::ARH_GetSelectionVisitor(), IAlignRowHost::ARH_GetVPPosByWindowPos(), IAlignRowHost::ARH_OnSelectionChanged(), CSelectionVisitor::Clear(), CSelectionVisitor::DeSelectObject(), eExpand, IAlignRow::eIconExpand, IAlignRow::eIcons, IObjectBasedGlyph::GetObject(), CRef< C, Locker >::GetPointer(), CSelectionVisitor::HasSelectedObjects(), CSeqGlyph::IsClickable(), CSelectionVisitor::IsObjectSelected(), CTrackContainer::IsTrackInitDone(), m_bExpanded, m_Host, m_NeedUpdateSelection, m_TrackHandler, m_TrackPanel, CGlPoint< T >::m_X, CSeqGlyph::OnLeftDblClick(), CSeqGlyph::OnLeftDown(), CSeqGlyph::OnLeftUp(), PrepareRendering(), CGlRect< T >::PtInRect(), CSelectionVisitor::SelectObject(), x_GetButtonRect(), x_GetHost(), x_HitTest(), and x_OnClickExpandBtn().

PrepareRendering()

void CAlnVecRow::PrepareRendering ( CGlPane &  pane, TVPUnit  row_top, int  state  )

virtual

Implements IAlignRow.

Definition at line 3155 of file align_row.cpp.

References CGlPane::GetViewport(), m_Height, IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, IAlignRow::SRenderCtx::m_State, IAlignRow::SRenderCtx::m_Top, IAlignRow::SRenderCtx::m_Viewport, offset, CGlRect< T >::SetVert(), and CGlRect< T >::Top().

Referenced by OnMouseEvent().

RenderColumn()

void CAlnVecRow::RenderColumn ( TColumnType  col_type )

virtual

Renders a row cell corresponding to column specified by "col_type".

"Pane" represents port corresponding to the cell; model space is Elems x Pixels.

Implements IAlignRow.

Definition at line 425 of file align_row.cpp.

References _ASSERT, IAlignRow::eAlignment, IAlignRow::eCollectionDate, IAlignRow::eCountry, IAlignRow::eDescr, IAlignRow::eEnd, IAlignRow::eGeneSymbol, IAlignRow::eHost, IAlignRow::eIconExpand, IAlignRow::eIcons, IAlignRow::eIconStrand, IAlignRow::eIsolationSource, IAlignRow::eMismatches, IAlignRow::ePctCoverage, IAlignRow::ePctIdentity, ERR_POST, IAlignRow::eSeqEnd, IAlignRow::eSeqLength, IAlignRow::eSeqStart, IAlignRow::eStart, IAlignRow::eTaxLabel, GetColumnText(), CException::GetMsg(), CGlPane::GetViewport(), CGlRect< T >::Left(), IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, IAlignRow::SRenderCtx::m_State, m_Style, IAlignRow::SRenderCtx::m_Viewport, NCBI_ASSERT, CGlRect< T >::Right(), s_GetColumnAlignemnt(), CGlRect< T >::SetHorz(), text(), CException::what(), x_RenderAlign(), x_RenderDescr(), x_RenderIconExpand(), x_RenderIcons(), x_RenderIconStrand(), and x_RenderTextCell().

SaveTrackConfig()

void CAlnVecRow::SaveTrackConfig

(

)

Definition at line 3146 of file align_row.cpp.

References m_bExpanded, m_TrackPanel, and CFeaturePanel::SaveTrackConfig().

SetConsensus()

void CAlnVecRow::SetConsensus ( CConsensusRow *  crow )

inlinevirtual

Implements IAlignRow.

Definition at line 90 of file align_row.hpp.

References m_ConsensusRow.

Referenced by CAlnMultiModel::x_CreateRow().

SetDisplayStyle()

void CAlnVecRow::SetDisplayStyle ( const CRowDisplayStyle *  style )

virtual

Implements IAlignRow.

Definition at line 322 of file align_row.cpp.

References m_Style, and UpdateOnStyleChanged().

Referenced by CAlnMultiModel::x_CreateRow().

SetHost()

void CAlnVecRow::SetHost ( IAlignRowHost *  host )

virtual

Implements IAlignRow.

Definition at line 380 of file align_row.cpp.

References m_Host.

SetProperties()

void CAlnVecRow::SetProperties ( IAlnRowGraphProperties *  props )

virtual

Definition at line 2774 of file align_row.cpp.

SetScoreCache()

void CAlnVecRow::SetScoreCache ( CScoreCache *  cache )

virtual

Definition at line 135 of file align_row.cpp.

References m_Cache.

Referenced by CAlnMultiModel::x_CreateRow().

THH_GetLayoutTrack()

CRef< CLayoutTrack > CAlnVecRow::THH_GetLayoutTrack ( )

virtual

Get the layout track under the current mouse position.

Parameters

pos	the mouse pos in window coord. sys.

Implements ITrackHandlerHost.

Definition at line 2971 of file align_row.cpp.

References CWeakRef< C, Locker >::Lock(), m_LastHitTrack, and CRef< C, Locker >::Reset().

THH_GetModelByWindow()

TModelPoint CAlnVecRow::THH_GetModelByWindow ( const wxPoint &  pt )

virtual

Implements ITrackHandlerHost.

Definition at line 2992 of file align_row.cpp.

References IAlignRowHost::ARH_GetVPPosByWindowPos(), m_Host, m_TrackPane, m_TrackPanel, CGlPoint< T >::X(), and CGlPoint< T >::Y().

Update()

void CAlnVecRow::Update ( const CGlPane &  pane, bool  layout_only = false  )

virtual

Reimplemented from IAlignRow.

Definition at line 343 of file align_row.cpp.

References CGlPane::GetViewport(), CGlPane::GetVisibleRect(), CGlRect< T >::Left(), m_bExpanded, m_ModelLeft, m_ModelRight, m_NeedUpdateContent, m_NeedUpdateLayout, m_NeedUpdateSelection, m_PixLeft, m_PixRight, m_TrackPanel, and CGlRect< T >::Right().

UpdateOnAnchorChanged()

void CAlnVecRow::UpdateOnAnchorChanged ( )

virtual

Reimplemented from IAlignRow.

Definition at line 337 of file align_row.cpp.

References m_NeedUpdateLayout.

UpdateOnStyleChanged()

void CAlnVecRow::UpdateOnStyleChanged ( )

virtual

Implements IAlignRow.

Definition at line 329 of file align_row.cpp.

References CSeqGlyph::GetHeight(), m_BaseHeight, m_bExpanded, m_Height, m_TrackPanel, and x_GetBaseHeight().

Referenced by SetDisplayStyle().

UseExternalOrganismLookup()

void CAlnVecRow::UseExternalOrganismLookup ( bool  f )

virtual

Definition at line 2750 of file align_row.cpp.

References f, and m_fExtOrgLookup.

UsesAATranslation()

bool CAlnVecRow::UsesAATranslation ( ) const

virtual

Implements IAlignRow.

Definition at line 2942 of file align_row.cpp.

References m_Handle, and IAlignRowHandle::UsesAATranslation().

Referenced by GetRowStatistics(), and GetStringAtPos().

x_CanRenderSeq()

bool CAlnVecRow::x_CanRenderSeq ( CGlPane &  pane )

protectedvirtual

Checks if sequence can be drawn.

Definition at line 1963 of file align_row.cpp.

References IGlFont::eMetric_MaxCharWidth, CGlTextureFont::GetMetric(), CGlPane::GetScaleX(), CRowDisplayStyle::GetSeqFont(), and m_Style.

Referenced by x_RenderAlign().

x_CreateTrackPanel()

void CAlnVecRow::x_CreateTrackPanel ( CGlPane &  pane )

protectedvirtual

Definition at line 2638 of file align_row.cpp.

References IAlnExplorer::eLeft, IAlnExplorer::eRight, IAlignRowHandle::GetBioseqHandle(), CBioseq_Handle::GetScope(), CRowDisplayStyle::GetSeqGraphicConfig(), CBioseq_Handle::GetSeqId(), IAlignRowHandle::GetSeqPosFromAlnPos(), IAlignRowHandle::GetSeqStart(), IAlignRowHandle::GetSeqStop(), CRowDisplayStyle::GetTrackConfigKey(), CRowDisplayStyle::GetTrackSettings(), CSGDataSource::IsBackgroundJob(), IAlignRowHandle::IsNegativeStrand(), CGlRect< T >::Left(), m_Handle, m_NeedUpdateContent, m_RenderingCtx, m_Style, m_TrackHandler, m_TrackPane, m_TrackPanel, AutoPtr< X, Del >::reset(), CRef< C, Locker >::Reset(), CGlRect< T >::Right(), s_PrepareTrackPane(), CLayoutTrack::SetConfig(), CFeaturePanel::SetConfigKey(), CFeaturePanel::SetDSContext(), CSeqGlyph::SetHeight(), CGlRect< T >::SetHorz(), CLayoutTrack::SetHost(), CLayoutTrackHandler::SetHost(), CFeaturePanel::SetInputObject(), CLayoutTrackHandler::SetPane(), CLayoutTrack::SetProfile(), CFeaturePanel::SetTrackConfig(), CFeaturePanel::Update(), and x_InitTrackPane().

Referenced by Expand(), and GetTrackCount().

x_ForEachAlnSeg()

void CAlnVecRow::x_ForEachAlnSeg ( const IAlnExplorer::TSignedRange &  range, const CGlPane &  src_pane, CGlPane &  target_pane, const function< bool(CGlPane &pane)> &  f  )

protected

Definition at line 711 of file align_row.cpp.

References abs, IRender::BeginClippingRect(), IAlignRowHandle::CreateSegmentIterator(), data, IRender::EndClippingRect(), IAlnSegmentIterator::eSkipInserts, f, flags, IAlnSegment::GetAlnRange(), CRange_Base::GetFrom(), GetGl(), CGlPane::GetOffsetX(), IAlnSegment::GetRange(), CGlPane::GetScaleX(), CGlPane::GetViewport(), CGlRect< T >::Height(), IAlnSegment::IsAligned(), IRender::IsPrinterFriendly(), l(), CGlRect< T >::Left(), len, m_Handle, r(), compile_time_bits::range(), CGlRect< T >::Right(), s_PrepareTrackPane(), CGlRect< T >::SetHorz(), CGlPane::SetViewport(), swap(), CGlRect< T >::Top(), and CGlRect< T >::Width().

Referenced by LTH_OnLayoutChanged(), x_HitTest(), and x_RenderTracks().

x_GetAlignmentTooltip()

void CAlnVecRow::x_GetAlignmentTooltip ( const TVPPoint &  pt, CGlPane &  pane, ITooltipFormatter &  tooltip  )

protectedvirtual

Definition at line 882 of file align_row.cpp.

References ITooltipFormatter::AddRow(), ITooltipFormatter::Append(), CGlPane::Close(), CHtmlTooltipFormatter::CreateTooltipFormatter(), NStr::fWithCommas, CRef< C, Locker >::GetPointer(), IAlignRowHandle::GetText(), CSeqGlyph::GetTooltip(), CGlPane::GetViewport(), NStr::IntToString(), IAlignRowHandle::IsNegativeStrand(), m_bExpanded, m_Handle, m_LastHitTrack, m_PixLeft, m_PixRight, m_TrackPanel, NcbiEmptyString, CGlPane::OpenOrtho(), compile_time_bits::range(), CWeakRef< C, Locker >::Reset(), TOOLTIP_RANGE_PIX, CGlPane::UnProjectWidth(), CGlPane::UnProjectX(), CGlPoint< T >::X(), x_GetAlignmentTooltip_Helper(), and x_HitTest().

Referenced by GetTooltip().

x_GetAlignmentTooltip_Gap()

void CAlnVecRow::x_GetAlignmentTooltip_Gap ( const TSignedSeqRange &  aln_r, const TSignedSeqRange &  seq_r, ITooltipFormatter &  tooltip  )

protected

Definition at line 1185 of file align_row.cpp.

References ITooltipFormatter::AddRow(), COpenRange< Position >::GetLength(), m_Handle, NStr::NumericToString(), and IAlignRowHandle::UsesAATranslation().

Referenced by x_GetAlignmentTooltip_Helper().

x_GetAlignmentTooltip_General()

void CAlnVecRow::x_GetAlignmentTooltip_General ( TSeqPos  pos, ITooltipFormatter &  tooltip  )

protected

Definition at line 1084 of file align_row.cpp.

References ITooltipFormatter::AddRow(), IAlignRowHandle::CanGetBioseqHandle(), CBioseq_Handle::CanGetDescr(), CSubSource_Base::eSubtype_collection_date, CSubSource_Base::eSubtype_country, CSubSource_Base::eSubtype_isolation_source, NStr::fWithCommas, IAlignRowHandle::GetBioseqHandle(), CBioseq_Handle::GetBioseqLength(), CBioseq_Handle::GetDescr(), GetProteinName(), IAlignRowHandle::GetSeqPosFromAlnPos(), GetTaxonomy(), IAlignRowHandle::GetText(), NStr::IntToString(), CBioseq_Handle::IsAa(), IAlignRowHandle::IsNegativeStrand(), IAlignRowHandle::IsNucProtAlignment(), m_Handle, NStr::NumericToString(), s_GetOrgModNatHost(), s_GetSourceSubtype(), s_GetTitle(), and IAlignRowHandle::UsesAATranslation().

Referenced by x_GetAlignmentTooltip_Helper().

x_GetAlignmentTooltip_Helper()

void CAlnVecRow::x_GetAlignmentTooltip_Helper ( TSeqPos  pos, TSignedRange &  range, ITooltipFormatter &  tooltip  )

protected

Definition at line 941 of file align_row.cpp.

References ITooltipFormatter::AddRow(), IAlignRowHandle::CreateSegmentIterator(), IAlnSegmentIterator::eAllSegments, IAlnSegmentIterator::eInsertsOnly, IAlnExplorer::eLeft, COpenRange< Position >::Empty(), IAlnExplorer::eRight, IAlnSegment::fAligned, IAlnSegment::fGap, flags, IAlignRowHandle::GetAlnPosFromSeqPos(), IAlnSegment::GetAlnRange(), CRange_Base::GetFrom(), COpenRange< Position >::GetLength(), IAlnSegment::GetRange(), IAlignRowHandle::GetSeqAlnRange(), IAlignRowHandle::GetSeqPosFromAlnPos(), CRange_Base::GetTo(), IAlnSegment::GetType(), i, COpenRange< Position >::IntersectionWith(), NStr::IntToString(), kTooltipMaxLines, m_Handle, compile_time_bits::range(), swap(), x_GetAlignmentTooltip_Gap(), x_GetAlignmentTooltip_General(), x_GetAlignmentTooltip_Insert(), and x_GetAlignmentTooltip_Unaligned().

Referenced by GetAlignmentTooltip(), and x_GetAlignmentTooltip().

x_GetAlignmentTooltip_Insert()

void CAlnVecRow::x_GetAlignmentTooltip_Insert ( const TSignedSeqRange &  aln_r, const TSignedSeqRange &  seq_r, ITooltipFormatter &  tooltip  )

protected

Definition at line 1171 of file align_row.cpp.

References ITooltipFormatter::AddRow(), FormatRange(), CRange_Base::GetFrom(), CRange_Base::GetTo(), and x_GetTooltipSequence().

Referenced by x_GetAlignmentTooltip_Helper().

x_GetAlignmentTooltip_Unaligned()

void CAlnVecRow::x_GetAlignmentTooltip_Unaligned ( TSignedSeqPos  aln_prev_to, TSignedSeqPos  aln_from, TSignedSeqPos  prev_to, TSignedSeqPos  from, ITooltipFormatter &  tooltip  )

protected

Definition at line 1211 of file align_row.cpp.

References ITooltipFormatter::AddRow(), FormatRange(), NStr::fWithCommas, NStr::IntToString(), and x_GetTooltipSequence().

Referenced by x_GetAlignmentTooltip_Helper().

x_GetAlnPosLabel()

void CAlnVecRow::x_GetAlnPosLabel ( TSeqPos  aln_pos, IAlnExplorer::ESearchDirection  dir, string &  label  ) const

protected

Definition at line 2547 of file align_row.cpp.

References IAlnExplorer::eLeft, IAlnExplorer::eRight, CTextUtils::FormatSeparatedNumber(), IAlignRowHandle::GetSeqPosFromAlnPos(), label, and m_Handle.

Referenced by GetColumnText(), and x_RenderAlnPos().

x_GetBaseHeight()

int CAlnVecRow::x_GetBaseHeight ( ) const

protectedvirtual

Definition at line 360 of file align_row.cpp.

References CRowDisplayStyle::fShown_Alignment, CRowDisplayStyle::GetSeqFont(), CRowDisplayStyle::GetShownElements(), CRowDisplayStyle::GetTextFont(), int, kSeqVertSpace, kTextVertSpace, m_Style, max(), and CGlTextureFont::TextHeight().

Referenced by UpdateOnStyleChanged().

x_GetButtonRect()

TVPRect CAlnVecRow::x_GetButtonRect ( EButtons  btn, int  shift = 1  )

protectedvirtual

Definition at line 2336 of file align_row.cpp.

References int, kButtonOffset, kButtonSize, m_BaseHeight, IAlignRow::m_RenderCtx, and IAlignRow::SRenderCtx::m_Viewport.

Referenced by GetHTMLActiveAreas(), OnMouseEvent(), x_RenderIconExpand(), x_RenderIcons(), and x_RenderIconStrand().

x_GetDescrTooltip()

void CAlnVecRow::x_GetDescrTooltip ( const TVPPoint &  pt, CGlPane &  pane, ITooltipFormatter &  tooltip  )

protectedvirtual

Definition at line 642 of file align_row.cpp.

References ITooltipFormatter::AddRow(), IAlignRowHandle::CanGetBioseqHandle(), NStr::fWithCommas, IAlignRowHandle::GetBioseqHandle(), CBioseq_Handle::GetBioseqLength(), COrg_ref::GetLabel(), GetOrg_ref(), IAlignRowHandle::GetSeqStart(), IAlignRowHandle::GetSeqStop(), IAlignRowHandle::GetText(), NStr::IntToString(), CBioseq_Handle::IsNa(), m_Handle, str(), and type.

Referenced by GetTooltip().

x_GetHost()

IAlignRowHost* CAlnVecRow::x_GetHost ( )

inlineprotected

Definition at line 252 of file align_row.hpp.

References m_Host.

Referenced by Expand(), OnMouseEvent(), and x_GetIconsTooltip().

x_GetIconsTooltip()

void CAlnVecRow::x_GetIconsTooltip ( const TVPPoint &  pt, CGlPane &  pane, ITooltipFormatter &  tooltip  )

protectedvirtual

Definition at line 674 of file align_row.cpp.

References _ASSERT, ITooltipFormatter::AddRow(), eExpand, eStrandMarker, IsExpandable(), IAlignRowHandle::IsNegativeStrand(), m_bExpanded, m_Handle, x_GetHost(), and x_HitTestButton().

Referenced by GetTooltip().

x_GetTooltipSequence()

string CAlnVecRow::x_GetTooltipSequence ( TSeqPos  from, TSeqPos  to  )

protected

Definition at line 1232 of file align_row.cpp.

References CRange_Base::GetFrom(), COpenRange< Position >::GetLength(), IAlignRowHandle::GetSeqString(), kMaxSeqInTooltip, m_Handle, and COpenRange< Position >::Set().

Referenced by x_GetAlignmentTooltip_Insert(), and x_GetAlignmentTooltip_Unaligned().

x_HitTest()

CRef< CSeqGlyph > CAlnVecRow::x_HitTest ( const TVPPoint &  vp_pt, CGlPane &  pane, TModelPoint &  hit_point  )

protected

Definition at line 798 of file align_row.cpp.

References IAlignRowHost::ARH_GetSelectionVisitor(), CGlPane::eAlwaysUpdate, IAlnExplorer::eLeft, CGlPane::eOrtho, IAlnExplorer::eRight, CRenderingContext::fSkipControls, CRenderingContext::fSkipTitleBar, CSeqGraphicConfig::GetCgiMode(), CRef< C, Locker >::GetPointer(), CRowDisplayStyle::GetSeqGraphicConfig(), IAlignRowHandle::GetSeqPosFromAlnPos(), CGlPane::GetVisibleRect(), CFeaturePanel::HitTest(), if(), IAlignRowHandle::IsAnchor(), IAlignRowHandle::IsNegativeStrand(), CGlRect< T >::Left(), m_Handle, m_Host, m_LastHitTrack, m_NeedUpdateSelection, m_RenderingCtx, m_Style, m_TrackPane, m_TrackPanel, CGlPoint< T >::m_X, compile_time_bits::range(), CWeakRef< C, Locker >::Reset(), CGlRect< T >::Right(), s_PrepareTrackPane(), CGlPane::UnProject(), CGlPane::UnProjectX(), CFeaturePanel::Update(), CSelectionVisitor::UpdateSelection(), CGlPoint< T >::X(), x_ForEachAlnSeg(), x_InitTrackPane(), and CGlPoint< T >::Y().

Referenced by OnMouseEvent(), and x_GetAlignmentTooltip().

x_HitTestButton()

CAlnVecRow::EButtons CAlnVecRow::x_HitTestButton ( CGlPane &  pane, const TVPPoint &  pt  )

protectedvirtual

Definition at line 2356 of file align_row.cpp.

References eInvalid, CGlPane::GetViewport(), i, kButtonOffset, kButtonSize, CGlRect< T >::Left(), and CGlPoint< T >::X().

Referenced by x_GetIconsTooltip().

x_InitTrackPane()

bool CAlnVecRow::x_InitTrackPane ( const CGlPane &  row_pane, CGlPane &  track_pane  )

protected

Definition at line 2173 of file align_row.cpp.

References _ASSERT, abs, CGlRect< T >::Bottom(), CGlPane::EnableOffset(), CRowDisplayStyle::fShown_Alignment, CSeqGlyph::GetHeight(), CGlPane::GetModelLimitsRect(), CRowDisplayStyle::GetShownElements(), CGlPane::GetViewport(), CGlPane::GetVisibleRect(), CGlRect< T >::Height(), m_BaseHeight, IAlignRow::m_RenderCtx, m_Style, IAlignRow::SRenderCtx::m_Top, m_TrackPanel, IAlignRow::SRenderCtx::m_Viewport, CGlPane::SetModelLimitsRect(), CGlRect< T >::SetVert(), CGlPane::SetViewport(), CGlPane::SetVisibleRect(), and CGlRect< T >::Top().

Referenced by x_CreateTrackPanel(), x_HitTest(), and x_RenderTracks().

x_OnClickExpandBtn()

void CAlnVecRow::x_OnClickExpandBtn ( CGlPane &  pane )

protectedvirtual

Definition at line 1257 of file align_row.cpp.

References Expand(), and IsExpanded().

Referenced by OnMouseEvent().

x_OnGraphContentChanged()

void CAlnVecRow::x_OnGraphContentChanged ( CEvent *  evt )

protected

Definition at line 2952 of file align_row.cpp.

References IAlignRowHost::ARH_OnRowChanged(), m_Host, and x_UpdateRowHeight().

x_OnGraphSizeChanged()

void CAlnVecRow::x_OnGraphSizeChanged ( CEvent *  evt )

protected

Definition at line 2962 of file align_row.cpp.

References IAlignRowHost::ARH_OnRowChanged(), m_Host, and x_UpdateRowHeight().

x_RenderAlign()

void CAlnVecRow::x_RenderAlign ( )

protectedvirtual

Renders graphical part of the row.

Definition at line 1277 of file align_row.cpp.

References _ASSERT, IRender::Begin(), IRender::BeginClippingRect(), CGlRect< T >::Bottom(), color, IRender::ColorC(), IAlignRowHandle::CreateSegmentIterator(), CWidgetDisplayStyle::eAlignSegs, CWidgetDisplayStyle::eAlignSegsNoScores, IAlnSegmentIterator::eAllSegments, CWidgetDisplayStyle::eFrame, CGlPane::EnableOffset(), IRender::End(), IRender::EndClippingRect(), CGlPane::eOrtho, CGlPane::ePixels, flags, CRowDisplayStyle::fShown_Alignment, CRowDisplayStyle::fShown_Track, CGlPane::GetClipRect(), CRowDisplayStyle::GetColor(), GetGl(), CGlPane::GetScaleX(), CScoreCache::GetScoringMethod(), CRowDisplayStyle::GetShownElements(), IRender::GetViewport(), CScoreCache::HasScores(), CGlRect< T >::Height(), int, IScoringMethod::IsAverageable(), IsExpanded(), IRender::IsPrinterFriendly(), CRowDisplayStyle::IsWebRendering(), kAlignSpace, kScoreMinScale, CGlRect< T >::Left(), IRender::LineWidth(), m_BaseHeight, m_Cache, m_Handle, m_ModelLeft, m_ModelRight, IAlignRow::SRenderCtx::m_Pane, m_PixLeft, m_PixRight, IAlignRow::m_RenderCtx, m_Style, IAlignRow::SRenderCtx::m_Viewport, compile_time_bits::range(), CGlRect< T >::Right(), CGlRect< T >::Top(), IRender::Vertex2f(), IRender::Viewport(), CGlRect< T >::Width(), x_CanRenderSeq(), x_RenderAlignScores(), x_RenderAlignSegments(), x_RenderInserts(), x_RenderSequence(), x_RenderTracks(), and x_RenderUnaligned().

Referenced by RenderColumn().

x_RenderAlignScores()

void CAlnVecRow::x_RenderAlignScores ( IAlnSegmentIterator &  it_seg, int  top_y, int  bottom_y, bool  averageable  )

protectedvirtual

Definition at line 1661 of file align_row.cpp.

References CAttrRangeCollection< Attr, Position >::begin(), IRender::BlendFunc(), IRender::Enable(), CAttrRangeCollection< Attr, Position >::end(), CGlPane::ePixels, CAttrRangeCollection< Attr, Position >::find(), GetGl(), IAlignRowHandle::GetRowNum(), CScoreCache::GetScores(), CGlPane::GetVisibleRect(), int, kAlignSpace, CGlRect< T >::Left(), m_BaseHeight, m_Cache, m_Handle, m_ModelLeft, m_ModelRight, IAlignRow::SRenderCtx::m_Pane, m_PixLeft, m_PixRight, IAlignRow::m_RenderCtx, IAlignRow::SRenderCtx::m_Viewport, CGlRect< T >::Right(), x_RenderAveragableScores(), and x_RenderNonAveragableScores().

Referenced by x_RenderAlign().

x_RenderAlignSegments()

void CAlnVecRow::x_RenderAlignSegments ( CGlPane &  pane, IAlnSegmentIterator &  it_seg, TModelUnit  top_y, TModelUnit  bottom_y, const CRgbaColor &  color  )

protectedvirtual

Definition at line 1554 of file align_row.cpp.

References IRender::Begin(), IRender::BlendFunc(), color, IRender::ColorC(), COpenRange< Position >::Empty(), IRender::Enable(), IRender::End(), CGlPane::ePixels, IAlnSegment::GetAlnRange(), CRange_Base::GetFrom(), GetGl(), IAlignRowHandle::GetSeqAlnStart(), IAlignRowHandle::GetSeqAlnStop(), CRange_Base::GetTo(), CGlPane::GetVisibleRect(), glLined(), i, COpenRange< Position >::IntersectWith(), IAlnSegment::IsAligned(), kAlignSpace, CGlRect< T >::Left(), m_BaseHeight, m_Handle, m_ModelLeft, m_ModelRight, IAlignRow::m_RenderCtx, IAlignRow::SRenderCtx::m_Viewport, IRender::PolygonMode(), r(), IRender::Rectd(), CGlRect< T >::Right(), and CRgbaColor::SetAlpha().

Referenced by x_RenderAlign().

x_RenderAlnPos()

void CAlnVecRow::x_RenderAlnPos ( TSeqPos  aln_pos, IAlnExplorer::ESearchDirection  dir  )

protectedvirtual

Definition at line 2567 of file align_row.cpp.

References IGlFont::eAlign_HCenter, label, x_GetAlnPosLabel(), and x_RenderTextCell().

x_RenderAveragableScores()

void CAlnVecRow::x_RenderAveragableScores ( CGlPane &  pane, IAlnSegmentIterator &  it_seg, TScoreConstIterator  it, const TScoreConstIterator  it_end, int  vp_top_y, int  vp_bottom_y  )

protectedvirtual

Definition at line 1774 of file align_row.cpp.

References color, IRender::ColorC(), IScoringMethod::fBackground, IAlnSegment::GetAlnRange(), CScoreCache::GetColorForScore(), CRange_Base::GetFrom(), GetGl(), CGlPane::GetScaleX(), IAlignRowHandle::GetSeqAlnStart(), IAlignRowHandle::GetSeqAlnStop(), CRange_Base::GetTo(), CGlPane::GetViewport(), CGlPane::GetVisibleRect(), i, CRgbaColor::Interpolate(), IAlnSegment::IsAligned(), IColumnScoringMethod::kAmbiguousResidueScore, CGlRect< T >::Left(), m_Cache, SScPix2::m_GapLen, SScPix2::m_GapScore, m_Handle, SScPix2::m_Init, SScPix2::m_IntLen, SScPix2::m_IntScore, SScPix2::m_MinScore, max(), min(), IRender::PolygonMode(), r(), IRender::Rectd(), CGlRect< T >::Right(), CRange_Base::SetFrom(), and CRange_Base::SetTo().

Referenced by x_RenderAlignScores().

x_RenderDescr()

void CAlnVecRow::x_RenderDescr ( )

protectedvirtual

Definition at line 2150 of file align_row.cpp.

References _ASSERT, IRender::BeginText(), IGlFont::eAlign_Left, IGlFont::eAlign_Right, IGlFont::eAlign_VCenter, IRender::EndText(), CGlPane::ePixels, CWidgetDisplayStyle::eSelectedText, CWidgetDisplayStyle::eText, IAlignRow::fItemSelected, CRowDisplayStyle::GetColor(), GetGl(), IAlignRowHandle::GetText(), CRowDisplayStyle::GetTextFont(), IAlignRowHandle::IsNegativeStrand(), IRender::IsPrinterFriendly(), kTextOffsetX, m_BaseHeight, m_Handle, IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, IAlignRow::SRenderCtx::m_State, m_Style, IAlignRow::SRenderCtx::m_Viewport, IRender::WriteText(), and x_RenderTextCell().

Referenced by RenderColumn().

x_RenderEmptyBox()

void CAlnVecRow::x_RenderEmptyBox ( )

protectedvirtual

Definition at line 2607 of file align_row.cpp.

References IRender::Begin(), IRender::ColorC(), CWidgetDisplayStyle::eFrame, IRender::End(), CRowDisplayStyle::GetColor(), GetGl(), IRender::LineWidth(), IAlignRow::m_RenderCtx, m_Style, IAlignRow::SRenderCtx::m_Viewport, and IRender::Vertex2d().

Referenced by x_RenderIcons(), and x_RenderTextCell().

x_RenderGraph()

void CAlnVecRow::x_RenderGraph ( const TSignedRange &  range )

protectedvirtual

Definition at line 2322 of file align_row.cpp.

References IsExpanded(), IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, compile_time_bits::range(), and x_RenderTracks().

x_RenderIconExpand()

void CAlnVecRow::x_RenderIconExpand ( )

protectedvirtual

Definition at line 2500 of file align_row.cpp.

References _ASSERT, IRender::Begin(), CGlRect< T >::Bottom(), CGlRect< T >::CenterPoint(), IRender::ColorC(), IRender::Disable(), eExpand, IRender::End(), CGlPane::ePixels, eStrandMarker, CWidgetDisplayStyle::eText, CRowDisplayStyle::GetColor(), GetGl(), IsExpandable(), kButtonSignSize, kButtonSize, CGlRect< T >::Left(), IRender::LineWidth(), m_bExpanded, IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, m_Style, offset, IRender::PolygonMode(), IRender::Rectd(), CGlRect< T >::Right(), CGlRect< T >::Top(), IRender::Vertex2d(), CGlPoint< T >::X(), x_GetButtonRect(), and CGlPoint< T >::Y().

Referenced by RenderColumn().

x_RenderIcons()

void CAlnVecRow::x_RenderIcons ( )

protectedvirtual

Definition at line 2374 of file align_row.cpp.

References _ASSERT, IRender::Begin(), CGlRect< T >::Bottom(), CGlRect< T >::CenterPoint(), IRender::Color3d(), IRender::ColorC(), IRender::Disable(), eExpand, CWidgetDisplayStyle::eFocusedBack, IRender::End(), CGlPane::ePixels, CWidgetDisplayStyle::eSelectedBack, CWidgetDisplayStyle::eSelectedText, eStrandMarker, CWidgetDisplayStyle::eText, IAlignRow::fItemSelected, IAlignRow::fWidgetFocused, CRowDisplayStyle::GetColor(), GetGl(), CGlRect< T >::Height(), IsExpandable(), IAlignRowHandle::IsNegativeStrand(), kButtonSignSize, kButtonSize, CGlRect< T >::Left(), IRender::LineWidth(), m_bExpanded, m_Handle, IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, IAlignRow::SRenderCtx::m_State, m_Style, IAlignRow::SRenderCtx::m_Viewport, offset, IRender::PolygonMode(), IRender::Rectd(), CGlRect< T >::Right(), CGlPane::SetExactOrthoProjection(), swap(), CGlRect< T >::Top(), IRender::Vertex2d(), CGlPoint< T >::X(), x_GetButtonRect(), x_RenderEmptyBox(), and CGlPoint< T >::Y().

Referenced by RenderColumn().

x_RenderIconStrand()

void CAlnVecRow::x_RenderIconStrand ( )

protectedvirtual

Definition at line 2473 of file align_row.cpp.

References _ASSERT, IRender::Begin(), CGlRect< T >::CenterPoint(), IRender::Color3d(), eExpand, IRender::End(), CGlPane::ePixels, GetGl(), CGlRect< T >::Height(), IAlignRowHandle::IsNegativeStrand(), CGlRect< T >::Left(), m_Handle, IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, m_Style, IRender::PolygonMode(), CGlRect< T >::Right(), swap(), IRender::Vertex2d(), x_GetButtonRect(), and CGlPoint< T >::Y().

Referenced by RenderColumn().

x_RenderInserts()

void CAlnVecRow::x_RenderInserts ( CGlPane &  pane, int  from, int  to, TModelUnit  top_y, TModelUnit  bottom_y  )

protectedvirtual

Definition at line 1402 of file align_row.cpp.

References IRender::Begin(), IRender::BlendFunc(), IRender::ColorC(), CompressLength(), IAlignRowHandle::CreateSegmentIterator(), IRender::Disable(), IAlnSegmentIterator::eInsertsOnly, IRender::Enable(), IRender::End(), IAlnSegmentIterator::eSkipInserts, flags, IAlnSegment::fUnaligned, IAlnSegment::GetAlnRange(), GetGl(), CGlPane::GetOffsetX(), IAlnSegment::GetRange(), CGlPane::GetScaleX(), IAlignRowHandle::GetSeqAlnStart(), IAlignRowHandle::GetSeqAlnStop(), COpenRange< Position >::GetToOpen(), glLined(), IAlnSegment::IsAligned(), len, m_Handle, max(), r(), compile_time_bits::range(), CRgbaColor::SetAlpha(), CRange_Base::SetTo(), and IRender::Vertex2d().

Referenced by x_RenderAlign().

x_RenderNonAveragableScores()

void CAlnVecRow::x_RenderNonAveragableScores ( CGlPane &  pane, IAlnSegmentIterator &  it_seg, TScoreConstIterator  it, const TScoreConstIterator  it_end, int  vp_top_y, int  vp_bottom_y  )

protectedvirtual

Definition at line 1883 of file align_row.cpp.

References color, IRender::ColorC(), IScoringMethod::fBackground, FSetPixMaxCoverage(), IAlnSegment::GetAlnRange(), CScoreCache::GetColorForScore(), GetGl(), IAlignRowHandle::GetSeqAlnStart(), IAlignRowHandle::GetSeqAlnStop(), CGlPane::GetViewport(), CGlPane::GetVisibleRect(), i, IAlnSegment::IsAligned(), CGlRect< T >::Left(), m_Cache, SScPix::m_Gap, m_Handle, SScPix::m_MaxCoverage, SScPix::m_Score, IRender::PolygonMode(), r(), IRender::Rectd(), and CGlRect< T >::Right().

Referenced by x_RenderAlignScores().

x_RenderSequence()

void CAlnVecRow::x_RenderSequence ( CGlPane &  pane, TModelUnit  top_y, TModelUnit  bottom_y, int  start, int  stop  )

protectedvirtual

Definition at line 1977 of file align_row.cpp.

References _ASSERT, abs, CAttrRangeCollection< Attr, Position >::begin(), IRender::Begin(), IRender::BeginText(), IRender::ColorC(), colors, IAlignRowHandle::CreateSegmentIterator(), IRender::Disable(), IRender::Enable(), CGlPane::EnableOffset(), CAttrRangeCollection< Attr, Position >::end(), IRender::End(), IRender::EndText(), CWidgetDisplayStyle::eSequence, IAlnSegmentIterator::eSkipGaps, IScoringMethod::fForeground, CAttrRangeCollection< Attr, Position >::find(), IAlnSegment::GetAlnRange(), CConsensusRow::GetAlnSeqString(), IAlignRowHandle::GetAlnSeqString(), IAlignRowHandle::GetBaseWidth(), CRowDisplayStyle::GetColor(), CScoreCache::GetColorForScore(), CRowDisplayStyle::GetDotTexture(), CRange_Base::GetFrom(), GetGl(), CConsensusRow::GetHandle(), CGlPane::GetOffsetX(), IAlnSegment::GetRange(), IAlignRowHandle::GetRowNum(), CGlPane::GetScaleX(), CScoreCache::GetScores(), CScoreCache::GetScoringMethod(), CRowDisplayStyle::GetSeqFont(), CRowDisplayStyle::GetShowIdenticalBases(), IScoringMethod::GetSupportedColorTypes(), H, CScoreCache::HasScores(), i, IAlnSegment::IsAligned(), IAlignRowHandle::IsNegativeStrand(), CConsensusRow::IsValid(), len, CRgbaColor::Lighten(), IRender::LineWidth(), m_Cache, m_ConsensusRow, m_Handle, m_SequenceRenderingCtx, m_Style, max(), min(), CRef< C, Locker >::NotEmpty(), NULL, r(), CGlTextureFont::TextHeight(), CGlTextureFont::TextWidth(), IRender::Vertex2d(), and IRender::WriteText().

Referenced by x_RenderAlign().

x_RenderTextCell()

void CAlnVecRow::x_RenderTextCell ( const string &  text, IGlFont::TAlign  align  )

protectedvirtual

Definition at line 2575 of file align_row.cpp.

References _ASSERT, IRender::BeginText(), IRender::ColorC(), IGlFont::eAlign_VCenter, CWidgetDisplayStyle::eFocusedBack, IRender::EndText(), CGlPane::ePixels, CWidgetDisplayStyle::eSelectedBack, CWidgetDisplayStyle::eSelectedText, CWidgetDisplayStyle::eText, IAlignRow::fItemSelected, IAlignRow::fWidgetFocused, CRowDisplayStyle::GetColor(), CGlTextureFont::GetFontDescender(), GetGl(), CRowDisplayStyle::GetTextFont(), kTextOffsetX, m_BaseHeight, IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, IAlignRow::SRenderCtx::m_State, m_Style, IAlignRow::SRenderCtx::m_Viewport, IRender::PolygonMode(), IRender::Rectd(), text(), IRender::WriteText(), and x_RenderEmptyBox().

Referenced by RenderColumn(), x_RenderAlnPos(), and x_RenderDescr().

x_RenderTracks()

void CAlnVecRow::x_RenderTracks ( CGlPane &  pane, const TSignedRange &  range  )

protected

Definition at line 2228 of file align_row.cpp.

References _ASSERT, IAlignRowHost::ARH_GetSelectionVisitor(), CSeqGlyph::Draw(), IAlnExplorer::eLeft, IAlnExplorer::eRight, CRenderingContext::fSkipContent, CRenderingContext::fSkipControls, CRenderingContext::fSkipFrames, CRenderingContext::fSkipGrid, CRenderingContext::fSkipTitleBar, CGlPane::GetClipRect(), GetGl(), CSeqGlyph::GetHeight(), IAlignRowHandle::GetSeqPosFromAlnPos(), IAlignRowHandle::GetSeqStart(), IAlignRowHandle::GetSeqStop(), CGlRect< T >::IntersectWith(), IAlignRowHandle::IsAnchor(), IsExpanded(), IAlignRowHandle::IsNegativeStrand(), CGlRect< T >::Left(), m_Handle, m_Host, m_NeedUpdateContent, m_NeedUpdateLayout, m_NeedUpdateSelection, IAlignRow::SRenderCtx::m_Pane, IAlignRow::m_RenderCtx, m_RenderingCtx, m_TrackHandler, m_TrackPane, m_TrackPanel, IAlignRow::SRenderCtx::m_Viewport, compile_time_bits::range(), CLayoutTrackHandler::Render(), CGlRect< T >::Right(), s_PrepareTrackPane(), CGlRect< T >::SetHorz(), CFeaturePanel::Update(), CSelectionVisitor::UpdateSelection(), x_ForEachAlnSeg(), and x_InitTrackPane().

Referenced by x_RenderAlign(), and x_RenderGraph().

x_RenderUnaligned()

void CAlnVecRow::x_RenderUnaligned ( CGlPane &  pane, int  from, int  to, TModelUnit  top_y, TModelUnit  bottom_y  )

protectedvirtual

Definition at line 1503 of file align_row.cpp.

References IRender::Begin(), IRender::ColorC(), CompressLength(), IAlignRowHandle::CreateSegmentIterator(), IRender::End(), IAlnSegmentIterator::eSkipGaps, flags, CRange_Base::GetFrom(), GetGl(), CGlPane::GetOffsetX(), CGlPane::GetScaleX(), CRange_Base::GetTo(), glLined(), len, m_Handle, max(), r(), and compile_time_bits::range().

Referenced by x_RenderAlign().

x_ResetTrackPanel()

void CAlnVecRow::x_ResetTrackPanel ( )

protectedvirtual

Definition at line 2697 of file align_row.cpp.

References _ASSERT, IAlignRowHost::ARH_GetSelectionVisitor(), ERR_POST, Error(), CSeqGraphicConfig::GetHistParamsManager(), CRowDisplayStyle::GetSeqGraphicConfig(), m_Host, m_RenderingCtx, m_Style, m_TrackHandler, m_TrackPane, m_TrackPanel, AutoPtr< X, Del >::reset(), CRef< C, Locker >::Reset(), CSelectionVisitor::ResetObjectSelection(), CHistParamsManager::SaveSettings(), and CFeaturePanel::SaveTrackConfig().

Referenced by Expand().

x_UpdateRowHeight()

void CAlnVecRow::x_UpdateRowHeight ( )

protectedvirtual

Definition at line 2756 of file align_row.cpp.

References CSeqGlyph::GetHeight(), m_BaseHeight, m_bExpanded, m_Height, m_NeedUpdateContent, m_TrackPanel, and CFeaturePanel::Update().

Referenced by Expand(), LTH_OnLayoutChanged(), x_OnGraphContentChanged(), and x_OnGraphSizeChanged().

Member Data Documentation

m_BaseHeight

int CAlnVecRow::m_BaseHeight

protected

Definition at line 276 of file align_row.hpp.

Referenced by UpdateOnStyleChanged(), x_GetButtonRect(), x_InitTrackPane(), x_RenderAlign(), x_RenderAlignScores(), x_RenderAlignSegments(), x_RenderDescr(), x_RenderTextCell(), and x_UpdateRowHeight().

m_bExpanded

bool CAlnVecRow::m_bExpanded

protected

Definition at line 282 of file align_row.hpp.

Referenced by ConfigureTracks(), ConfigureTracksDialog(), Expand(), IsExpanded(), LoadDefaultTracks(), LTH_OnLayoutChanged(), OnMouseEvent(), SaveTrackConfig(), Update(), UpdateOnStyleChanged(), x_GetAlignmentTooltip(), x_GetIconsTooltip(), x_RenderIconExpand(), x_RenderIcons(), and x_UpdateRowHeight().

m_Cache

CScoreCache* CAlnVecRow::m_Cache

protected

row display style

Definition at line 287 of file align_row.hpp.

Referenced by SetScoreCache(), x_RenderAlign(), x_RenderAlignScores(), x_RenderAveragableScores(), x_RenderNonAveragableScores(), and x_RenderSequence().

m_ConsensusRow

CConsensusRow* CAlnVecRow::m_ConsensusRow

protected

Definition at line 271 of file align_row.hpp.

Referenced by SetConsensus(), and x_RenderSequence().

m_fExtOrgLookup

bool CAlnVecRow::m_fExtOrgLookup

protected

Definition at line 283 of file align_row.hpp.

Referenced by GetColumnText(), GetHTMLActiveAreas(), GetTaxonomy(), and UseExternalOrganismLookup().

m_Handle

const IAlignRowHandle& CAlnVecRow::m_Handle

protected

Definition at line 269 of file align_row.hpp.

Referenced by GetAlnSeqString(), GetColumnAsFloat(), GetColumnAsSeqPos(), GetColumnText(), GetHTMLActiveAreas(), GetRowHandle(), GetRowNum(), GetRowStatistics(), GetStringAtPos(), GetTaxonomy(), IsExpandable(), IsNucProtAlignment(), LTH_OnLayoutChanged(), UsesAATranslation(), x_CreateTrackPanel(), x_ForEachAlnSeg(), x_GetAlignmentTooltip(), x_GetAlignmentTooltip_Gap(), x_GetAlignmentTooltip_General(), x_GetAlignmentTooltip_Helper(), x_GetAlnPosLabel(), x_GetDescrTooltip(), x_GetIconsTooltip(), x_GetTooltipSequence(), x_HitTest(), x_RenderAlign(), x_RenderAlignScores(), x_RenderAlignSegments(), x_RenderAveragableScores(), x_RenderDescr(), x_RenderIcons(), x_RenderIconStrand(), x_RenderInserts(), x_RenderNonAveragableScores(), x_RenderSequence(), x_RenderTracks(), and x_RenderUnaligned().

m_Height

int CAlnVecRow::m_Height

protected

Definition at line 275 of file align_row.hpp.

Referenced by GetHeightPixels(), PrepareRendering(), UpdateOnStyleChanged(), and x_UpdateRowHeight().

m_Host

IAlignRowHost* CAlnVecRow::m_Host

protected

Definition at line 273 of file align_row.hpp.

Referenced by GHH_CaptureMouse(), GHH_Redraw(), GHH_ReleaseMouse(), GHH_SetCursor(), LTH_OnLayoutChanged(), LTH_PopEventHandler(), LTH_PopupMenu(), LTH_PushEventHandler(), OnMouseEvent(), SetHost(), THH_GetModelByWindow(), x_GetHost(), x_HitTest(), x_OnGraphContentChanged(), x_OnGraphSizeChanged(), x_RenderTracks(), and x_ResetTrackPanel().

m_LastHitTrack

CWeakRef<CLayoutTrack> CAlnVecRow::m_LastHitTrack

protected

Definition at line 298 of file align_row.hpp.

Referenced by THH_GetLayoutTrack(), x_GetAlignmentTooltip(), and x_HitTest().

m_ModelLeft

TModelUnit CAlnVecRow::m_ModelLeft

protected

Definition at line 302 of file align_row.hpp.

Referenced by LTH_OnLayoutChanged(), Update(), x_RenderAlign(), x_RenderAlignScores(), and x_RenderAlignSegments().

m_ModelRight

TModelUnit CAlnVecRow::m_ModelRight

protected

Definition at line 302 of file align_row.hpp.

Referenced by LTH_OnLayoutChanged(), Update(), x_RenderAlign(), x_RenderAlignScores(), and x_RenderAlignSegments().

m_NeedUpdateContent

bool CAlnVecRow::m_NeedUpdateContent = false

protected

Definition at line 293 of file align_row.hpp.

Referenced by Update(), x_CreateTrackPanel(), x_RenderTracks(), and x_UpdateRowHeight().

m_NeedUpdateLayout

bool CAlnVecRow::m_NeedUpdateLayout = false

protected

Definition at line 294 of file align_row.hpp.

Referenced by Update(), UpdateOnAnchorChanged(), and x_RenderTracks().

m_NeedUpdateSelection

bool CAlnVecRow::m_NeedUpdateSelection = false

protected

Definition at line 295 of file align_row.hpp.

Referenced by LTH_OnLayoutChanged(), OnMouseEvent(), Update(), x_HitTest(), and x_RenderTracks().

m_PixLeft

TVPUnit CAlnVecRow::m_PixLeft

protected

Graphics caching.

Definition at line 301 of file align_row.hpp.

Referenced by LTH_OnLayoutChanged(), Update(), x_GetAlignmentTooltip(), x_RenderAlign(), and x_RenderAlignScores().

m_PixRight

TVPUnit CAlnVecRow::m_PixRight

protected

Definition at line 301 of file align_row.hpp.

Referenced by LTH_OnLayoutChanged(), Update(), x_GetAlignmentTooltip(), x_RenderAlign(), and x_RenderAlignScores().

m_RenderingCtx

unique_ptr<CRenderingContext> CAlnVecRow::m_RenderingCtx

protected

Definition at line 289 of file align_row.hpp.

Referenced by LTH_OnLayoutChanged(), x_CreateTrackPanel(), x_HitTest(), x_RenderTracks(), and x_ResetTrackPanel().

m_SequenceRenderingCtx

unique_ptr<CRenderingContext> CAlnVecRow::m_SequenceRenderingCtx

protected

Definition at line 290 of file align_row.hpp.

Referenced by x_RenderSequence().

m_Style

const CRowDisplayStyle* CAlnVecRow::m_Style

protected

Definition at line 285 of file align_row.hpp.

Referenced by ConfigureTracks(), GetDisplayStyle(), RenderColumn(), SetDisplayStyle(), x_CanRenderSeq(), x_CreateTrackPanel(), x_GetBaseHeight(), x_HitTest(), x_InitTrackPane(), x_RenderAlign(), x_RenderDescr(), x_RenderEmptyBox(), x_RenderIconExpand(), x_RenderIcons(), x_RenderIconStrand(), x_RenderSequence(), x_RenderTextCell(), and x_ResetTrackPanel().

m_TrackHandler

AutoPtr<CLayoutTrackHandler> CAlnVecRow::m_TrackHandler

protected

Definition at line 296 of file align_row.hpp.

Referenced by LoadDefaultTracks(), OnMouseEvent(), x_CreateTrackPanel(), x_RenderTracks(), and x_ResetTrackPanel().

m_TrackPane

unique_ptr<CGlPane> CAlnVecRow::m_TrackPane

protected

Definition at line 291 of file align_row.hpp.

Referenced by LoadDefaultTracks(), LTH_OnLayoutChanged(), THH_GetModelByWindow(), x_CreateTrackPanel(), x_HitTest(), x_RenderTracks(), and x_ResetTrackPanel().

m_TrackPanel

CRef<CFeaturePanel> CAlnVecRow::m_TrackPanel

protected

Definition at line 292 of file align_row.hpp.

Referenced by ConfigureTracks(), ConfigureTracksDialog(), Expand(), GetTrackCount(), LoadDefaultTracks(), LTH_OnLayoutChanged(), OnMouseEvent(), SaveTrackConfig(), THH_GetModelByWindow(), Update(), UpdateOnStyleChanged(), x_CreateTrackPanel(), x_GetAlignmentTooltip(), x_HitTest(), x_InitTrackPane(), x_RenderTracks(), x_ResetTrackPanel(), and x_UpdateRowHeight().

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The documentation for this class was generated from the following files:

• include/gui/widgets/aln_multiple/align_row.hpp
• src/gui/widgets/aln_multiple/align_row.cpp