Search Toolkit Book for CCdsGlyph
#include <gui/widgets/seq_graphic/cds_glyph.hpp>
Inheritance diagram for CCdsGlyph:
Collaboration diagram for CCdsGlyph:
Public Member Functions | |
| void | SetCdsConfig (CCdsConfig *config) |
| CCdsGlyph inline methods. More... | |
ctors. | |
| CCdsGlyph (const objects::CMappedFeat &feat) | |
| CCdsGlyph (const objects::CMappedFeat &feat, const objects::CSeq_loc &loc) | |
| Public Member Functions inherited from CFeatGlyph | |
| TIntervals & | SetIntervals () |
| CFeatGlyph inline implementations. More... | |
| const objects::CSeq_feat & | GetFeature (void) const |
| Access the original feature. More... | |
| const objects::CMappedFeat & | GetMappedFeature (void) const |
| Access a new, fully remapped feature. More... | |
| bool | IsLabelHided () const |
| TModelUnit | GetBarCenter () const |
| void | GetLabel (string &label, CLabel::ELabelType type) const |
| retrieve feature label for a given type More... | |
| virtual void | GetAccessoryLabel (string &accessory_label) const |
| Some features may have an accessory label on top (e.g. introns) More... | |
| void | GetAdditionalInfo (string &sAdditionalInfo) const |
| Some features may have additional info on the right (alleles for SNPs) More... | |
| virtual bool | IsConsensus () const |
| Check if (intron) feature is consensus or not. More... | |
| bool | isRmtBased () const |
| CConstRef< CFeatureParams > | GetConfig () const |
| void | SetConfig (CConstRef< CFeatureParams > conf) |
| void | SetFilter (const string &sFilter) |
| sets the filter that was used for creating the track where this feature glyph resides More... | |
| void | SetRulerType (int ruler_types) |
| void | SetProjectedFeat (bool f) |
| bool | IsProjectedFeat () const |
| void | SetMappingInfo (const TMappingInfo &info) |
| const TMappingInfo & | GetMappingInfo () const |
| void | SetProjectedMappingInfo (const CProjectedMappingInfo &info) |
| const CProjectedMappingInfo & | GetProjectedMappingInfo () const |
| bool | GetCustomColor (CRgbaColor &color) const |
| Get the customized color for a given feature. More... | |
| void | GetCustomColor (size_t idx, CRgbaColor &color) const |
| virtual string | GetPName () const |
| persistent name of the glyph should not depend on the instance of the glyph, but should uniquely reflect its contents so two glyphs having the same contents will have the same name currently used to track isDrawn() status for expandable glyphs default implementation returns an empty string implementations exist for CFeatGlyph (name of the contained feature) and CLayoutGroup (concatenation of all sorted children names) More... | |
| void | SetRelatedGlyphSelected (bool Selected) |
| bool | GetRelatedGlyphSelected () const |
| void | SetTopLabelPrefix (const char *prefix) |
| Set prefix to prepend to labels on top. More... | |
| bool | isDrawn () const |
| determines whether the glyph should be drawn or not at all (currently children of unselected parents when m_LinkedFeat is set to "Expandable") More... | |
| void | LayoutChanged () |
| update the layout for everything encompassing this glyph More... | |
| CFeatGlyph (const objects::CMappedFeat &feat, ELinkedFeatDisplay LinkedFeat=ELinkedFeatDisplay::eLFD_Default) | |
| CFeatGlyph (const objects::CMappedFeat &feat, const objects::CSeq_loc &loc, ELinkedFeatDisplay LinkedFeat=ELinkedFeatDisplay::eLFD_Default) | |
| virtual bool | NeedTooltip (const TModelPoint &, ITooltipFormatter &, string &) const |
| Check if need to show tooltip. More... | |
| virtual void | GetTooltip (const TModelPoint &p, ITooltipFormatter &tt, string &t_title) const |
| Get the tooltip if available. More... | |
| virtual void | GetHTMLActiveAreas (TAreaVector *p_areas) const |
| Get html active areas. More... | |
| virtual TSeqRange | GetRange (void) const |
| get the total range of this object. More... | |
| virtual bool | SetSelected (bool f) |
| Select or deselect this glyph. More... | |
| virtual void | SetHideLabel (bool b) |
| Force to hide label. More... | |
| virtual bool | HasSideLabel () const |
| Query if there is label and label is on the side. More... | |
| virtual bool | IsClickable () const |
| Query if this glyph is clickable. More... | |
| virtual bool | LessBySeqPos (const CSeqGlyph &obj) const |
| compare this object to another based on glyph sequence position. More... | |
| virtual bool | HitTestHor (TSeqPos x, const CObject *obj) |
| virtual const objects::CSeq_loc & | GetLocation (void) const |
| access the position of this object. More... | |
| virtual CConstRef< CObject > | GetObject (TSeqPos pos) const |
| Retrieve the feature as an object. More... | |
| virtual void | GetObjects (vector< CConstRef< CObject > > &objs) const |
| retrieve CObjects corresponding to this CSeqGlyph. More... | |
| virtual bool | HasObject (CConstRef< CObject > obj) const |
| check if the wrapped object(s) is the one. More... | |
| virtual string | GetSignature () const |
| return signature for this glyph. More... | |
| virtual const TIntervals & | GetIntervals (void) const |
| access sub-intervals (if any). More... | |
| Public Member Functions inherited from CSeqGlyph | |
| CSeqGlyph () | |
| virtual | ~CSeqGlyph () |
| virtual CRef< CSeqGlyph > | HitTest (const TModelPoint &p) |
| Hit testing. More... | |
| virtual bool | Intersects (const TModelRect &rect, TConstObjects &objs) const |
| Intersect testing. More... | |
| virtual void | Update (bool) |
| Update content and layout including the bounding box. More... | |
| virtual bool | Accept (IGlyphVisitor *visitor) |
| Interface for accepting an IGlyphVisitor. More... | |
| bool | LessByPos (const CSeqGlyph &obj) const |
| compare this object to another, based on glyph geometry position. More... | |
| bool | LessBySeqSize (const CSeqGlyph &obj) const |
| compare this object to another, based on sequence size. More... | |
| bool | LessBySize (const CSeqGlyph &obj) const |
| compare this object to another, based on geometry size. More... | |
| void | Draw () const |
| render the layout. More... | |
| TModelRect | GetModelRect () const |
| get the bounding box. More... | |
| bool | IsIn (const TModelPoint &p) const |
| Hit test for points in PARENT COORD. More... | |
| bool | IsIn (TModelUnit x, TModelUnit y) const |
| bool | IsInHor (TModelUnit x) const |
| void | SetRender (IGlyphRenderer *renderer) |
| set customized renderer for this layout objects. More... | |
| void | SetRenderingContext (CRenderingContext *context) |
| Set the rendering context. More... | |
| const CRenderingContext * | GetRenderingContext () const |
| Get the rendering context. More... | |
| void | SetTearline (size_t Tearline) |
| tearline factor – used to limit a list of glyphs More... | |
| size_t | GetTearline () const |
| void | SetTearlineText (const string &sTearlineText) |
| tearline text – if set, is appended to the glyph name (does not naffect processing otherwise) More... | |
| string | GetTearlineText () const |
| void | SetRowNum (size_t cur_row) |
| size_t | GetRowNum () const |
| void | SetVisible (size_t v) |
| size_t | GetVisible () const |
| int | GetLevel () const |
| void | SetLevel (int Level) |
| float | GetFadeFactor () const |
| virtual bool | OnLeftDown (const TModelPoint &) |
| virtual bool | OnLeftUp (const TModelPoint &) |
| virtual bool | OnLeftDblClick (const TModelPoint &) |
| virtual bool | OnContextMenu (wxContextMenuEvent &event) |
| bool | IsSelected () const |
| bool | IsHighlighted () const |
| CRgbaColor * | GetHighlightsColor () const |
| virtual TModelUnit | GetHeight () const |
| virtual TModelUnit | GetWidth () const |
| virtual TModelUnit | GetLeft () const |
| virtual TModelUnit | GetTop () const |
| virtual TModelUnit | GetRight () const |
| virtual TModelUnit | GetBottom () const |
| const TModelPoint & | GetPos () const |
| void | GetPosInWorld (TModelPoint &pos) const |
| Get top left position in world coordinate. More... | |
| const CSeqGlyph * | GetParent (void) const |
| CSeqGlyph * | GetParent (void) |
| ENeighbours | GetNeighbours () const |
| void | SetHighlighted (bool flag) |
| void | SetHighlightsColor (const CRgbaColor &hl_color) |
| void | SetHighlightsColor (const string &hl_color_str) |
| virtual void | SetWidth (TModelUnit w) |
| virtual void | SetHeight (TModelUnit h) |
| virtual void | SetLeft (TModelUnit l) |
| virtual void | SetTop (TModelUnit b) |
| virtual void | SetPos (const TModelPoint &upper_left) |
| void | SetParent (CSeqGlyph *p) |
| CSeqGlyph * | SetParent (void) |
| void | SetNeighbours (ENeighbours neighbours) |
| 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 IObjectBasedGlyph | |
| virtual | ~IObjectBasedGlyph () |
Protected Member Functions | |
| virtual void | x_Draw () const |
| The default renderer for this layout object. More... | |
| virtual void | x_UpdateBoundingBox () |
| Update the bounding box assuming children's sizes are fixed if any. More... | |
| Protected Member Functions inherited from CFeatGlyph | |
| TSeqPos | x_GetProtOffset () const |
| Returns protein translation offset. More... | |
| CRef< objects::CSeq_loc > | x_AdjustFrame (const objects::CSeq_loc &loc, TSeqPos offset) const |
| Adjusts a location to accommodate for the protein translation offset. More... | |
| void | x_DrawRuler (TModelUnit base, bool protein_scale=false) const |
| void | x_DrawProjectedRuler (TModelUnit base, bool protein_scale=false) const |
| void | x_MaybeDrawLabelAbove (TModelUnit &base) const |
| void | x_DrawFeatureBar (TModelUnit &base) const |
| void | x_DrawFeatureBar_sv (TModelUnit base) const |
| void | x_DrawAdditionalInfo (TModelUnit base) const |
| void | x_MaybeDrawLabelOthers (TModelUnit base) const |
| void | x_DrawRNAProductSequence (TModelUnit base) const |
| bool | x_RedundantLabelCheck (const string &label) const |
| void | x_DrawInsertion (TModelUnit SeqPosTriangleMidPointX, TModelUnit BoundaryYLow, TModelUnit BoundaryYHigh, TModelUnit YCenterLine) const |
| void | x_DrawDeletion (TModelUnit SeqPosTriangleMidPointX, TModelUnit BoundaryYLow, TModelUnit BoundaryYHigh) const |
| void | x_DrawRSites (const CRgbaColor &color, TModelUnit BoundaryYLow, TModelUnit BoundaryYHigh) const |
| void | x_DrawLabelWithXPinned (TModelUnit &base) const |
| void | x_DrawLabelWithYPinned (TModelUnit base) const |
| void | x_DrawInnerLabels (TModelUnit base, vector< TModelRange > *labels_range=nullptr, TSeqRange *interval=nullptr) const |
| bool | x_isDrawn () const |
| determines whether the glyph should be drawn or not at all (currently children of unselected parents when m_LinkedFeat is set to "Expandable") More... | |
| bool | x_isExpandable (size_t &nChildren) const |
| returns true if this glyph is expandable i.e. More... | |
| bool | x_isCollapsible () const |
| returns true if this glyph is collapsible i.e. More... | |
| bool | x_IsProjected () const |
| bool | x_CanShowStrand (objects::ENa_strand strand) const |
| Protected Member Functions inherited from CSeqGlyph | |
| virtual void | x_DrawHighlight () const |
| void | x_DrawInnerLabelColumns (TModelUnit base, const string &label, const CRgbaColor &color, const CGlTextureFont &font, bool side_label_visible) const |
| void | x_DrawInnerLabels (TModelUnit base, const string &label, const CRgbaColor &color, const CGlTextureFont &font, bool side_label_visible, bool inside_only, vector< TModelRange > *labels_ranges=nullptr, TSeqRange *interval=nullptr, bool XOR_mode=false) const |
| void | x_DrawTruncatedLabel (const string &label, const CGlTextureFont &font, TModelUnit width, TModelUnit x, TModelUnit y, vector< TModelRange > *labels_ranges=nullptr) const |
| void | x_DrawException () const |
| Draw a shading background to indicate exception. More... | |
| virtual void | x_OnLayoutChanged () |
| update the layout. More... | |
| void | x_Parent2Local (TModelPoint &pnt) const |
| Transform the coordiante from parent coord. to local coord. More... | |
| void | x_Parent2Local (TModelUnit &, TModelUnit &y) const |
| Transform the coordiante from parent coord. to local coord. More... | |
| void | x_Parent2Local (TModelRect &rect) const |
| Transform the coordiante from parent coord. to local coord. More... | |
| void | x_World2Local (TModelPoint &p) const |
| Transform the coordiante from world coord. to local coord. More... | |
| void | x_World2Local (TModelUnit &x, TModelUnit &y) const |
| void | x_Local2World (TModelPoint &p) const |
| Transform the coordiantes from local coord. to world coord. More... | |
| void | x_Local2World (TModelUnit &x, TModelUnit &y) const |
| void | x_InitHTMLActiveArea (CHTMLActiveArea &area) const |
| initialize the basic information for a given active area. More... | |
| bool | x_Visible_V () const |
| is this glyph visible in vertical direction? More... | |
| template<class T > | |
| bool | x_IntersectVisible (const CRange< T > &SeqRange, T &from, T &to) const |
| 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 Attributes | |
| CRef< CCdsConfig > | m_CdsConfig |
| Protected Attributes inherited from CFeatGlyph | |
| objects::CMappedFeat | m_Feature |
| we store a mapped feature object which in turn holds the original feature. More... | |
| CConstRef< objects::CSeq_loc > | m_Location |
| Mapped location in top sequence coordinate. More... | |
| TMappingInfo | m_MappingInfo |
| Feature product sequence mapping info. More... | |
| CProjectedMappingInfo | m_ProjectedMappingInfo |
| TIntervals | m_Intervals |
| intervals (like for features or alignments). More... | |
| CConstRef< CFeatureParams > | m_Config |
| All the configs needed for rendering a feature. More... | |
| bool | m_HideLabel |
| Force to hide the label. More... | |
| bool | m_ProjectedFeat |
| Projected features. More... | |
| bool | m_RSite |
| Flag indicating if this is a restriction site. More... | |
| int | m_RulerType |
| ELinkedFeatDisplay | m_LinkedFeat |
| linkage mode for the track where this glyph is residing More... | |
| string | m_sFilter |
| filter (if any) for the track where this glyph is residing More... | |
| string | m_sTopLabelPrefix |
| Prefix to prepend to labels on top. More... | |
| map< CLabel::ELabelType, string > | m_Labels |
| Protected Attributes inherited from CSeqGlyph | |
| CSeqGlyph * | m_Parent |
| parent/child relationships for this feature More... | |
| CRenderingContext * | m_Context |
| the rendering context More... | |
| unique_ptr< CRgbaColor > | m_HighlightsColor |
| Highlight color. More... | |
| ENeighbours | m_Neighbours |
| Indicates whether the glyph has neighbours. More... | |
Private Member Functions | |
| void | x_DrawProtSeqWithMapping (TModelUnit trans_y, TModelUnit gen_y, TModelUnit prot_y) const |
| void | x_DrawProjectedProtSeq (TModelUnit trans_y, TModelUnit gen_y, TModelUnit prot_y) const |
| void | x_PutCodon (const string &codon_str, TSeqPos pos, TModelUnit y, bool neg, bool append) const |
| bool | x_WillFit () const |
Additional Inherited Members | |
| Public Types inherited from CFeatGlyph | |
| enum | EFeatureParts { eHead_No , eTail_No , eNeedHead , eNeedTail } |
| enum | EUndefinedBpType { eBp_Outer , eBp_Inner , eBp_Unknown } |
| enum | ERulerType { eNoRuler = 0 , eNtRuler = 0x01 , eAaRuler = 0x02 } |
| typedef vector< CRef< CFeatGlyph > > | TFeatList |
| typedef CSeqUtils::TMappingInfo | TMappingInfo |
| Public Types inherited from CSeqGlyph | |
| enum | ENeighbours { eNghbrs_None = 0x0 , eNghbrs_Left = 0x1 , eNghbrs_Right = 0x2 , eNghbrs_Both = 0x3 } |
| typedef vector< CHTMLActiveArea > | TAreaVector |
| typedef list< CRef< CSeqGlyph > > | TObjects |
| typedef list< CConstRef< CSeqGlyph > > | TConstObjects |
| 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 IObjectBasedGlyph | |
| typedef vector< TSeqRange > | TIntervals |
| Static Public Member Functions inherited from CFeatGlyph | |
| static size_t | GetCustomColorIdx (const objects::CSeq_feat &feat) |
| Get the customized color idx for a given feature. More... | |
| static bool | IsDbVar (const objects::CSeq_feat &feat) |
| Utility to check if a feature is a structural variation. More... | |
| Static Public Member Functions inherited from CSeqGlyph | |
| static bool | PointInRect (const TModelPoint &p, const TModelRect &rc) |
| static bool | PointInRect (TModelUnit x, TModelUnit y, const TModelRect &rc) |
| 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 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... | |
Detailed Description
Definition at line 44 of file cds_glyph.hpp.
Constructor & Destructor Documentation
◆ CCdsGlyph() [1/2]
| CCdsGlyph::CCdsGlyph | ( | const objects::CMappedFeat & | feat | ) |
◆ CCdsGlyph() [2/2]
Member Function Documentation
◆ SetCdsConfig()
|
inline |
CCdsGlyph inline methods.
Definition at line 102 of file cds_glyph.hpp.
References m_CdsConfig, and CRef< C, Locker >::Reset().
Referenced by CGeneModelTrack::x_InitFeature_Recursive().
◆ x_Draw()
|
protectedvirtual |
The default renderer for this layout object.
Reimplemented from CFeatGlyph.
Definition at line 56 of file cds_glyph.cpp.
References IRender::ColorC(), CSeqManip::Complement(), CSeqUtil::e_Iupacna, CBioseq_Handle::eCoding_Iupac, IGlFont::eMetric_FullCharHeight, ctll::empty(), eNa_strand_minus, CFeatureParams::GetBarHeight(), CFeatGlyph::GetFeature(), GetGl(), CSeqGlyph::GetHeight(), CFeatGlyph::GetLocation(), CFeatGlyph::GetMappedFeature(), CFeatGlyph::GetMappingInfo(), IRender::GetMetric(), CSGSequenceDS::GetScope(), CSeqVector::GetSeqData(), CRenderingContext::GetSeqDS(), CSGSequenceDS::GetSeqVector(), CSeqGlyph::GetTop(), CRenderingContext::IsFlippedStrand(), CRenderingContext::IsInVisibleRange(), kVertSpace, m_CdsConfig, CFeatGlyph::m_Config, CSeqGlyph::m_Context, CCdsConfig::m_ProdFont, CCdsConfig::m_SeqProtMismatch, CCdsConfig::m_SeqProtTrans, CCdsConfig::m_TransFont, offset, CSeqVector::size(), IRender::TextHeight(), CRenderingContext::TextOut(), CSeqTranslator::Translate(), CFeatGlyph::x_Draw(), x_DrawProjectedProtSeq(), x_DrawProtSeqWithMapping(), CFeatGlyph::x_GetProtOffset(), CFeatGlyph::x_IsProjected(), and x_WillFit().
◆ x_DrawProjectedProtSeq()
|
private |
Definition at line 231 of file cds_glyph.cpp.
References _ASSERT, IRender::ColorC(), CBioseq_Handle::eCoding_Iupac, COpenRange< Position >::Empty(), eNa_strand_minus, CSeqTranslator::fIs5PrimePartial, CProjectedMappingInfo::GetAlignmentDataSource(), IScoringAlignment::GetAnchor(), CProjectedMappingInfo::GetAnchorSequence(), CScope::GetBioseqHandle(), GetCDSForProduct(), CFeatGlyph::GetFeature(), GetGl(), COpenRange< Position >::GetLength(), CFeatGlyph::GetLocation(), CSeq_feat_Base::GetLocation(), CFeatGlyph::GetMappedFeature(), GetProduct(), CSeqVector::GetSeqData(), CRenderingContext::IntersectVisible(), CRenderingContext::IsFlippedStrand(), CRenderingContext::IsInVisibleRange(), m_CdsConfig, CSeqGlyph::m_Context, CCdsConfig::m_ProdFont, CFeatGlyph::m_ProjectedMappingInfo, CCdsConfig::m_SeqProtMismatch, CCdsConfig::m_SeqProtTrans, round(), CSeqVector::size(), CRenderingContext::TextOut(), CSeqTranslator::Translate(), CFeatGlyph::x_GetProtOffset(), and x_PutCodon().
Referenced by x_Draw().
◆ x_DrawProtSeqWithMapping()
|
private |
Definition at line 412 of file cds_glyph.cpp.
References _ASSERT, IRender::ColorC(), CSeqUtil::e_Iupacna, CBioseq_Handle::eCoding_Iupac, ctll::empty(), COpenRange< Position >::Empty(), eNa_strand_minus, CSeqTranslator::fIs5PrimePartial, bm::gap_length(), CScope::GetBioseqHandle(), CSeqFeatData_Base::GetCdregion(), GetCDSForProduct(), CSeq_feat_Base::GetData(), CFeatGlyph::GetFeature(), CCdregion_Base::GetFrame(), CRange_Base::GetFrom(), CSeq_interval_Base::GetFrom(), GetGl(), COpenRange< Position >::GetLength(), CFeatGlyph::GetLocation(), CSeq_feat_Base::GetLocation(), CFeatGlyph::GetMappedFeature(), CFeatGlyph::GetMappingInfo(), GetProduct(), CSeqVector::GetSeqData(), CRenderingContext::GetSeqDS(), CSGSequenceDS::GetSeqVector(), CRange_Base::GetTo(), CSeq_interval_Base::GetTo(), CSeq_loc::GetTotalRange(), CRenderingContext::IntersectVisible(), CRenderingContext::IsFlippedStrand(), CRenderingContext::IsInVisibleRange(), CCdregion_Base::IsSetFrame(), m_CdsConfig, CSeqGlyph::m_Context, CFeatGlyph::m_Intervals, CCdsConfig::m_ProdFont, CCdsConfig::m_SeqProtMismatch, CCdsConfig::m_SeqProtTrans, min(), MSerial_AsnText, CConstRef< C, Locker >::Reset(), CSeqManip::ReverseComplement(), CSeqVector::size(), string, IRender::TextHeight(), CRenderingContext::TextOut(), CSeqTranslator::Translate(), CFeatGlyph::x_DrawInsertion(), and x_PutCodon().
Referenced by x_Draw().
◆ x_PutCodon()
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private |
Definition at line 686 of file cds_glyph.cpp.
References append(), len, m_CdsConfig, CSeqGlyph::m_Context, CCdsConfig::m_ProdFont, and CRenderingContext::TextOut().
Referenced by x_DrawProjectedProtSeq(), and x_DrawProtSeqWithMapping().
◆ x_UpdateBoundingBox()
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protectedvirtual |
Update the bounding box assuming children's sizes are fixed if any.
Reimplemented from CFeatGlyph.
Definition at line 215 of file cds_glyph.cpp.
References IGlFont::eMetric_FullCharHeight, GetGl(), CSeqGlyph::GetHeight(), IRender::GetMetric(), kVertSpace, m_CdsConfig, CCdsConfig::m_ProdFont, CCdsConfig::m_TransFont, CSeqGlyph::SetHeight(), IRender::TextHeight(), CFeatGlyph::x_UpdateBoundingBox(), and x_WillFit().
◆ x_WillFit()
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private |
Definition at line 197 of file cds_glyph.cpp.
References CProjectedMappingInfo::GetAlignmentDataSource(), IScoringAlignment::GetBaseWidth(), CFeatGlyph::GetFeature(), CRenderingContext::GetScale(), kSequenceLevel, CSeqGlyph::m_Context, CFeatGlyph::m_ProjectedMappingInfo, CRenderingContext::WillSeqLetterFit(), and CFeatGlyph::x_IsProjected().
Referenced by x_Draw(), and x_UpdateBoundingBox().
Member Data Documentation
◆ m_CdsConfig
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protected |
Definition at line 71 of file cds_glyph.hpp.
Referenced by SetCdsConfig(), x_Draw(), x_DrawProjectedProtSeq(), x_DrawProtSeqWithMapping(), x_PutCodon(), and x_UpdateBoundingBox().
The documentation for this class was generated from the following files:
- include/gui/widgets/seq_graphic/cds_glyph.hpp
- src/gui/widgets/seq_graphic/cds_glyph.cpp
