Inheritance diagram for CSplignJob:

Collaboration diagram for CSplignJob:

Public Member Functions
	CSplignJob (const CSplignParams &params, const TConstScopedObjects &genomic, const TConstScopedObjects &cdna)
	CSplignJob. More...

Public Member Functions inherited from CDataLoadingAppJob
	CDataLoadingAppJob ()
	constructor for derived classes More...

virtual	~CDataLoadingAppJob ()

const CSelectProjectOptions::TData &	GetData () const

const objects::CScope &	GetScope () const

virtual void	GetHTMLResults (wxString &, wxString &)

void	AddProjectItem (objects::CProjectItem &item)

void	AddProjectItem (objects::CProjectItem &item, objects::CLoaderDescriptor &loader)

void	AddDataLoader (objects::CLoaderDescriptor &loader)

void	ClearItems ()

virtual EJobState	Run ()
	Function that does all the useful work, called by the Engine. More...

virtual CRef< CObject >	GetResult ()
	Returns the Job Result. More...

virtual CConstIRef< IAppJobProgress >	GetProgress ()
	implement Run() in derived classes, make sure that exceptions are handled and m_StopRequested flag is respected. More...

Public Member Functions inherited from CAppJob
	CAppJob (const string &descr="AppJob")
	CAppJob. More...

virtual CConstIRef< IAppJobError >	GetError () override
	Returns IAppJobError object describing internal error that caused the Job to fail. More...

virtual string	GetDescr () const override
	Returns a human readable description of the Job (optional) More...

Public Member Functions inherited from CJobCancelable
	CJobCancelable ()

void	SetDataLocker (ILocker *locker)

virtual void	RequestCancel () override
	RequestCancel() is called to notify the Job that it shall exit Run() function ASAP. More...

virtual bool	IsCanceled () const override

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 IAppJob
virtual	~IAppJob ()

virtual bool	BeforeRun ()
	Function will be called on the main thread before execution of Run Should not do any lengthy work returns true to continue job execution on worker thread false to quit execution with status - failed. More...

Static Public Member Functions
static bool	s_SplignInterruptCallback (CNWAligner::SProgressInfo *prog)

static Boolean	s_BlastInterruptCallback (SBlastProgress *prog)

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)

Protected Member Functions
virtual void	x_CreateProjectItems ()
	override this function in derived classes and populate m_Items. More...

Protected Member Functions inherited from CDataLoadingAppJob
virtual void	x_ResetState ()
	prepares job for execution by clearing state variables More...

virtual void	x_Run ()

void	x_SetTextResult (const string &result)

Protected Member Functions inherited from CAppJob
virtual void	x_SetStatusText (const string &text)

Protected Member Functions inherited from CJobCancelable
CLockerGuard	x_GetGuard ()

ICanceled *	x_GetICanceled ()

Protected Member Functions inherited from CObject
virtual void	DeleteThis (void)
	Virtual method "deleting" this object. More...

Protected Attributes
CSplignParams	m_Params

TConstScopedObjects	m_Genomic

TConstScopedObjects	m_cDNA

Protected Attributes inherited from CDataLoadingAppJob
string	m_TextResult

CRef< objects::CScope >	m_Scope

Protected Attributes inherited from CAppJob
CFastMutex	m_Mutex

string	m_Descr
	mutex to sync our internals More...

string	m_Status
	Current status of the Job. More...

CRef< CAppJobError >	m_Error

Additional Inherited Members
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 IAppJob
enum	EJobState { eInvalid , eRunning , eCompleted , eFailed , eCanceled , eSuspended }
	Job states (describe FSM) More...

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...