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CAnnotCompare_AlignDS Class Reference

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CAnnotCompare_AlignDS. More...

#include <gui/widgets/aln_table/annot_compare_ds.hpp>

+ Inheritance diagram for CAnnotCompare_AlignDS:
+ Collaboration diagram for CAnnotCompare_AlignDS:

Public Member Functions

 CAnnotCompare_AlignDS (objects::CScope &scope, const objects::CSeq_annot &annot)
 
 CAnnotCompare_AlignDS (objects::CScope &scope, const objects::CSeq_align &align)
 
 CAnnotCompare_AlignDS (objects::CScope &scope, const objects::CSeq_align_set &aligns)
 
 CAnnotCompare_AlignDS (objects::CScope &scope, const list< CConstRef< objects::CSeq_align > > &aligns)
 
 ~CAnnotCompare_AlignDS ()
 
void Update ()
 
- Public Member Functions inherited from CAnnotCompareDS
 CAnnotCompareDS ()
 
 CAnnotCompareDS (objects::CScope &scope)
 
void Clear ()
 
objects::CScope & GetScope () const
 
const TRowsGetData () const
 
size_t GetRows (void) const
 
const SRowGetRow (size_t row_idx) const
 
void DumpTextReport (CNcbiOstream &ostr) const
 dump a text report of the comparisons More...
 
void RegisterListener (CEventHandler *listener)
 register a listener to respond to background job completion events More...
 
void OnAJNotification (CEvent *evt)
 handle background job completion events More...
 
float GetProgress () const
 return progress indicator More...
 
void Update ()
 
virtual int GetNumRows () const
 Returns the number of rows in the model. More...
 
virtual int GetNumColumns () const
 Returns the number of columns in the model. More...
 
virtual wxString GetColumnName (int) const
 Returns a default name for the column using spreadsheet conventions: A, B, C, ... More...
 
virtual wxString GetColumnType (int) const
 Tries to extract actual type from row 0 value if it exists. More...
 
virtual wxVariant GetValueAt (int, int) const
 
- 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...
 
CObjectoperator= (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)
 
CPtrToObjectProxyGetPtrProxy (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 TListenersGetListeners (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 CwxAbstractTableModel
 CwxAbstractTableModel ()
 CwxAbstractTableModel. More...
 
virtual void AddTMListener (IwxTableModelListener &aTMEar)
 
virtual void RemoveTMListener (IwxTableModelListener &aTMEar)
 
- Public Member Functions inherited from IwxDecoratedTableModel
virtual ~IwxDecoratedTableModel ()
 
virtual wxString GetColumnTitle (int col_idx) const
 All the same methods of IwxTableModel, plus. More...
 
virtual CIRef< IwxStringFormatGetColumnFormat (int) const
 
virtual wxString GetImageAliasAt (int, int) const
 
virtual wxString GetTooltipTextAt (int, int) const
 
virtual wxColor GetBackgroundColor (int) const
 
- Public Member Functions inherited from IwxTableModel
virtual ~IwxTableModel ()
 
virtual wxString GetTypeAt (int, int col) const
 
virtual bool IsEditableAt (int, int) const
 
virtual void SetValueAt (int, int, const wxVariant &)
 

Private Member Functions

void x_Init ()
 
 CAnnotCompare_AlignDS (const CAnnotCompare_AlignDS &)
 forbidden More...
 
CAnnotCompare_AlignDSoperator= (const CAnnotCompare_AlignDS &)
 

Private Attributes

list< CConstRef< objects::CSeq_align > > m_Alignments
 our original alignments More...
 
CConstRef< objects::CSeq_align > m_Align
 merged alignment from the above More...
 

Additional Inherited Members

- Public Types inherited from CAnnotCompareDS
typedef vector< SRowTRows
 
- 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< Uint8TCounter
 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, TListenersTPools
 
typedef list< AutoPtr< SPostRequest > > TPostRequests
 
typedef std::map< CEventHandler *, intTHandlerToCount
 
typedef void(* FOnPostCallback) ()
 
- 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...
 
- Protected Member Functions inherited from CAnnotCompareDS
 DECLARE_EVENT_MAP ()
 
void x_DeleteAllJobs ()
 
void x_BackgroundJob (IAppJob *job)
 
virtual void x_OnAppJobNotification (CEvent *evt)
 
- 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 SEvtMapGetEventMap () const
 
void x_DeclareDead ()
 Removes itself unavailable for async event delivery. More...
 
void x_AddListenerToPool (CEventHandler *listener, int pool_name)
 
- Protected Member Functions inherited from CwxAbstractTableModel
virtual void x_FireDataChanged ()
 
virtual void x_FireStructureChanged ()
 
virtual void x_FireRowsInserted (int first_row, int last_row=-1)
 
virtual void x_FireRowsUpdated (int first_row, int last_row=-1)
 
virtual void x_FireRowsDeleted (int first_row, int last_row=-1)
 
virtual void x_FireCellUpdated (int row, int col)
 
virtual void x_FireTableChanged (const CwxTableModelNotice &note)
 
- Protected Attributes inherited from CAnnotCompareDS
CRef< objects::CScope > m_Scope
 
TRows m_Rows
 
CAppJobDispatcher::TJobID m_ActiveJob
 control of background loading More...
 
CEventHandlerm_Listener
 
- Protected Attributes inherited from CEventHandler
TPools m_Pools
 
- Protected Attributes inherited from CwxAbstractTableModel
list< IwxTableModelListener * > m_ListenerList
 List of TM Listeners Listeners are just stored, no deletion upon removal. More...
 
- Static Protected Attributes inherited from CEventHandler
static const SEvtMap sm_EvtMap
 

Detailed Description

CAnnotCompare_AlignDS.

Definition at line 159 of file annot_compare_ds.hpp.

Constructor & Destructor Documentation

◆ CAnnotCompare_AlignDS() [1/5]

CAnnotCompare_AlignDS::CAnnotCompare_AlignDS ( objects::CScope &  scope,
const objects::CSeq_annot &  annot 
)

◆ CAnnotCompare_AlignDS() [2/5]

CAnnotCompare_AlignDS::CAnnotCompare_AlignDS ( objects::CScope &  scope,
const objects::CSeq_align &  align 
)

◆ CAnnotCompare_AlignDS() [3/5]

CAnnotCompare_AlignDS::CAnnotCompare_AlignDS ( objects::CScope &  scope,
const objects::CSeq_align_set &  aligns 
)

◆ CAnnotCompare_AlignDS() [4/5]

CAnnotCompare_AlignDS::CAnnotCompare_AlignDS ( objects::CScope &  scope,
const list< CConstRef< objects::CSeq_align > > &  aligns 
)

◆ ~CAnnotCompare_AlignDS()

CAnnotCompare_AlignDS::~CAnnotCompare_AlignDS ( )

Definition at line 770 of file annot_compare_ds.cpp.

◆ CAnnotCompare_AlignDS() [5/5]

CAnnotCompare_AlignDS::CAnnotCompare_AlignDS ( const CAnnotCompare_AlignDS )
private

forbidden

Member Function Documentation

◆ operator=()

CAnnotCompare_AlignDS& CAnnotCompare_AlignDS::operator= ( const CAnnotCompare_AlignDS )
private

◆ Update()

void CAnnotCompare_AlignDS::Update ( void  )

◆ x_Init()

void CAnnotCompare_AlignDS::x_Init ( void  )
private

Member Data Documentation

◆ m_Align

CConstRef<objects::CSeq_align> CAnnotCompare_AlignDS::m_Align
private

merged alignment from the above

Definition at line 183 of file annot_compare_ds.hpp.

Referenced by Update(), and x_Init().

◆ m_Alignments

list< CConstRef<objects::CSeq_align> > CAnnotCompare_AlignDS::m_Alignments
private

our original alignments

Definition at line 180 of file annot_compare_ds.hpp.

Referenced by x_Init().


The documentation for this class was generated from the following files:
Modified on Tue May 21 11:00:13 2024 by modify_doxy.py rev. 669887