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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/classCBedCoverageGraph.html below:

NCBI C++ ToolKit: CBedCoverageGraph Class Reference

Search Toolkit Book for CBedCoverageGraph

#include <gui/widgets/seq_graphic/bed_coverage_graph.hpp>

CBedCoverageGraph (const string &cache_key) CBedCoverageGraph (const CBedCoverageGraph &data) virtual ~CBedCoverageGraph () void Init (TGraphCachePool &icache_pool) void Save (TGraphCachePool &icache_pool) void GetData (CHistogramGlyph::TMap &data) size_t GetEstimatedFeatureCount (const TSeqRange &range, int &max_count) bool IsSummary () const 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...
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 ◆ TSparseVector ◆ CBedCoverageGraph() [1/2] CBedCoverageGraph::CBedCoverageGraph ( const string & cache_key )

Definition at line 78 of file bed_coverage_graph.cpp.

References _ASSERT, CChecksum::AddLine(), eCIT_String, CChecksum::eMD5, eUnknown, CCompoundIDPool::FromString(), CCompoundID::GetFirst(), CChecksum::GetHexSum(), kMinBinSize, m_BedId, m_DataBinCount, m_DataKey, m_LastModified, m_RemotePath, m_SeqId, m_SeqLen, NCBI_THROW, and NStr::NumericToString().

◆ CBedCoverageGraph() [2/2] ◆ ~CBedCoverageGraph() ◆ GetCacheKey() ◆ GetData()

Definition at line 336 of file bed_coverage_graph.cpp.

References _ASSERT, data, bm::sparse_vector< Val, BV >::decode(), i, len, m_Data, m_DataBinCount, m_DataMutex, m_SeqLen, r(), and val.

◆ GetEstimatedFeatureCount() size_t CBedCoverageGraph::GetEstimatedFeatureCount ( const TSeqRange & range, int & max_count )

Definition at line 383 of file bed_coverage_graph.cpp.

References bm::sparse_vector< Val, BV >::decode(), CRange_Base::GetFrom(), COpenRange< Position >::GetLength(), CRange_Base::GetTo(), i, len, m_Data, m_DataBinCount, m_DataMutex, and m_SeqLen.

◆ GetStorageName() ◆ Init()

Definition at line 155 of file bed_coverage_graph.cpp.

References BM_DECLARE_TEMP_BLOCK, bm::sparse_vector< Val, BV >::empty(), ERR_POST, Error(), m_Data, m_DataBinCount, m_DataKey, m_DataMutex, NcbiEmptyString, s_ReadData(), and x_InitData().

◆ IsSummary() bool CBedCoverageGraph::IsSummary ( ) const ◆ Save() ◆ x_CreateDataKey() void CBedCoverageGraph::x_CreateDataKey ( string & cache_key ) protected ◆ x_InitData() void CBedCoverageGraph::x_InitData ( ICache & icache ) protected

Definition at line 291 of file bed_coverage_graph.cpp.

References _ASSERT, bm::sparse_vector< Val, BV >::import(), m_BedId, m_Data, m_DataBinCount, m_RemotePath, m_SeqLen, NStr::NumericToString(), bm::sparse_vector< Val, BV >::resize(), s_GetBigBedSummary(), and x_SaveData().

Referenced by Init().

◆ x_SaveData() void CBedCoverageGraph::x_SaveData ( ICache & icache ) protected

Definition at line 278 of file bed_coverage_graph.cpp.

References bm::sparse_vector_serial_layout< SV >::buf(), eUnknown, CRWStreambuf::fOwnWriter, ICache::GetWriteStream(), m_Data, m_DataBinCount, m_DataKey, NCBI_THROW, NcbiEmptyString, bm::sparse_vector< Val, BV >::optimize(), bm::sparse_vector_serial_layout< SV >::size(), and bm::sparse_vector_serialize().

Referenced by Save(), and x_InitData().

◆ kMinBinSize const int CBedCoverageGraph::kMinBinSize = 2500 static ◆ m_BedId string CBedCoverageGraph::m_BedId protected ◆ m_Data ◆ m_DataBinCount int CBedCoverageGraph::m_DataBinCount = 100000 protected ◆ m_DataKey string CBedCoverageGraph::m_DataKey protected ◆ m_DataMutex mutex CBedCoverageGraph::m_DataMutex protected ◆ m_LastModified string CBedCoverageGraph::m_LastModified protected ◆ m_RemotePath string CBedCoverageGraph::m_RemotePath protected ◆ m_SeqId string CBedCoverageGraph::m_SeqId protected ◆ m_SeqLen size_t CBedCoverageGraph::m_SeqLen = 0 protected

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

include/gui/widgets/seq_graphic/bed_coverage_graph.hpp
src/gui/widgets/seq_graphic/bed_coverage_graph.cpp

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