#include <stdio.h>#include <stdlib.h>#include <errno.h>#include <string.h>#include <ctype.h>#include <unistd.h>#include "lmdb.h"
Include dependency graph for mdb_load.c:
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Classes | |
| struct | flagbit |
Macros | |
| #define | PRINT 1 |
| #define | NOHDR 2 |
| #define | Z "z" |
| #define | STRLENOF(s) (sizeof(s)-1) |
| #define | S(s) s, STRLENOF(s) |
Typedefs | |
| typedef struct flagbit | flagbit |
Functions | |
| static void | readhdr (void) |
| static void | badend (void) |
| static int | unhex (unsigned char *c2) |
| static int | readline (MDB_val *out, MDB_val *buf) |
| static void | usage (void) |
| int | main (int argc, char *argv[]) |
Variables | |
| static int | mode |
| static char * | subname = NULL |
| static size_t | lineno |
| static int | version |
| static int | flags |
| static char * | prog |
| static int | Eof |
| static MDB_envinfo | info |
| static MDB_val | kbuf |
| static MDB_val | dbuf |
| flagbit | dbflags [] |
Macro Definition Documentation
◆ NOHDR
| #define NOHDR 2 |
Definition at line 23 of file mdb_load.c.
| #define PRINT 1 |
Definition at line 22 of file mdb_load.c.
◆ S
Definition at line 55 of file mdb_load.c.
◆ STRLENOF
| #define STRLENOF | ( | s | ) | (sizeof(s)-1) |
Definition at line 47 of file mdb_load.c.
◆ Z
| #define Z "z" |
Definition at line 44 of file mdb_load.c.
Typedef Documentation
◆ flagbit
Function Documentation
◆ badend()
|
static |
Definition at line 157 of file mdb_load.c.
References lineno, prog, and Z.
Referenced by readline().
◆ main()
Definition at line 285 of file mdb_load.c.
References data, dbuf, env, lmdb::env_close(), Eof, exit(), EXIT_FAILURE, EXIT_SUCCESS, flags, getopt, i, info, kbuf, ncbi::grid::netcache::search::fields::key, lineno, malloc(), MDB_CREATE, mdb_cursor_open(), mdb_cursor_put(), mdb_dbi_close(), mdb_env_close(), mdb_env_create(), mdb_env_get_maxkeysize(), mdb_env_open(), mdb_env_set_mapsize(), mdb_env_set_maxdbs(), mdb_env_set_maxreaders(), MDB_FIXEDMAP, MDB_KEYEXIST, MDB_NODUPDATA, MDB_NOOVERWRITE, MDB_NOSUBDIR, mdb_open, mdb_strerror(), mdb_txn_abort(), mdb_txn_begin(), mdb_txn_commit(), MDB_VERSION_STRING, MDB_envinfo::me_mapaddr, MDB_envinfo::me_mapsize, MDB_envinfo::me_maxreaders, mode, MDB_val::mv_data, MDB_val::mv_size, NOHDR, NULL, optarg, optind, PRINT, prog, readhdr(), readline(), strdup, strerror(), subname, lmdb::txn_abort(), usage(), and Z.
◆ readhdr()
|
static |
Definition at line 67 of file mdb_load.c.
References flagbit::bit, dbflags, dbuf, exit(), EXIT_FAILURE, flags, free(), i, info, flagbit::len, lineno, MDB_envinfo::me_mapaddr, MDB_envinfo::me_mapsize, MDB_envinfo::me_maxreaders, mode, MDB_val::mv_data, MDB_val::mv_size, flagbit::name, NULL, PRINT, prog, strdup, STRLENOF, util::strncmp(), subname, version, and Z.
Referenced by main().
◆ readline()
Definition at line 177 of file mdb_load.c.
References badend(), buf, Eof, isxdigit(), len, lineno, mode, NOHDR, NULL, out(), PRINT, prog, STRLENOF, util::strncmp(), unhex(), and Z.
Referenced by extend_inputline(), and main().
◆ unhex()
Definition at line 163 of file mdb_load.c.
Referenced by readline().
◆ usage()
|
static |
Definition at line 279 of file mdb_load.c.
References exit(), EXIT_FAILURE, and prog.
Referenced by main().
Variable Documentation
◆ dbflags
| flagbit dbflags[] |
Definition at line 57 of file mdb_load.c.
Referenced by readhdr().
◆ dbuf
|
static |
Definition at line 39 of file mdb_load.c.
Referenced by compressor_header(), main(), and readhdr().
◆ Eof
|
static |
Definition at line 35 of file mdb_load.c.
Referenced by main(), and readline().
◆ flags
|
static |
Definition at line 31 of file mdb_load.c.
◆ info
|
static |
Definition at line 37 of file mdb_load.c.
Referenced by _blk_get_col_data(), _ct_process_return_status(), _PSISaveCDDiagnostics(), _PSISaveDiagnostics(), CDisambiguator::Add(), SChunkInfo::Add(), CSeq_annot_Info::Add(), CSeqsRange::Add(), CPSGBioseqCache::Add(), CAnnotPieces::Add(), CObjectIndex::Add(), CCDDBlobCache::Add(), CBioseq_Base_Info::AddAnnot(), CBlob_Annot_Info::AddAnnotInfo(), CTSE_Default_Assigner::AddAssemblyInfo(), CException::AddBacklog(), CBAMDataLoader_Impl::AddBamFile(), CLDS2_ObjectParser::AddBioseq(), CWGSMasterDescrSetter::AddChunksToWait(), CBamUIDataSource::AddDataLoader(), CLBLASTObjectLoader::AddDataLoader(), CTSE_Default_Assigner::AddDescInfo(), CBioseq_set_Info::AddEntry(), CArchiveZip::AddEntryFromFileSystem(), CArchiveZip::AddEntryFromMemory(), CSeq_annot_Info::AddFeatId(), CFeatTree::AddFeature(), CLDS2_Database::AddFile(), CSNPDataLoader_Impl::AddFixedFileOnce(), CBioseq_ScopeInfo::AddId(), SAnnotObjectsIndex::AddInfo(), AddMember(), CSelectionEvent::AddObjectSelection(), CPluginArgSet::AddOptionalArgument(), CPluginCache::AddPlugin(), CNcbiResourceInfoFile::AddResourceInfo(), dtl::Ses< elem >::addSequence(), CBuildDatabase::AddSequences(), CDefaultSpotIdDetector::AddSpotId(), CBAMDataLoader_Impl::AddSrzDef(), CDataSource::AddStaticTSE(), OpenGLRenderer::AddTransparentSphere(), CDataSource::AddTSE(), AddVariant(), SMakeProjectT::AnalyzeMakeIn(), CChoiceTypeInfo::Assign(), CClassTypeInfo::Assign(), CChoiceTypeInfoFunctions::AssignDefault(), CClassTypeInfo::AssignMemberDefault(), variation::CHgvsParser::AsVariation(), variation_ref::CHgvsParser::AsVariationFeat(), CBlobSplitterImpl::AttachToSkeleton(), CDataSource_ScopeInfo::AttachTSE(), BEGIN_NAMED_BASE_CHOICE_INFO(), BEGIN_NAMED_BASE_CLASS_INFO(), BEGIN_NAMED_BASE_IMPLICIT_CLASS_INFO(), BEGIN_NAMED_CHOICE_INFO(), BEGIN_NAMED_CLASS_INFO(), CPdf::BeginDocument(), BlastHSPMappingInfoFree(), BlastHSPPipeNew(), BOOST_AUTO_TEST_CASE(), ColumnResidueProfile::calcInformationContent(), ResidueProfiles::calcInformationContent(), CRelocateCallback::Callback(), CSeq_loc_CI_Impl::CanBeBond(), CSeq_loc_CI_Impl::CanBeInterval(), CSeq_loc_CI_Impl::CanBePacked_pnt(), CSeq_loc_CI_Impl::CanBePoint(), CSeqUtils::CanHavePlacements(), CTestProtProd::CanTest(), CBamException::CBamException(), CBioseq_Info::CBioseq_Info(), CBioseq_set_Info::CBioseq_set_Info(), CBlast_SAM_Formatter::CBlast_SAM_Formatter(), CBLASTParams::CBLASTParams(), CBlobStateException::CBlobStateException(), CCSraDb_Impl::CCSraDb_Impl(), CErrnoTemplExceptionEx< CBDB_Exception, CBDB_StrErrAdapt::GetErrCode, CBDB_StrErrAdapt::GetErrCodeString >::CErrnoTemplExceptionEx(), CException::CException(), CGBProject::CGBProject(), CFeatFindContext::CheckAnnotObject(), CAlignFindContext::CheckAnnotObject(), CGraphFindContext::CheckAnnotObject(), CId2ReaderBase::CId2ReaderBase(), CIdRangeMap::CIdRangeMap(), CClassTypeInfoBase::ClassesById(), CClassTypeInfoBase::ClassesByName(), CSeq_annot_Info::ClearFeatIds(), CObjectHookGuardBase::CObjectHookGuardBase(), CBlobSplitterImpl::CollectPieces(), CReaderServiceConnector::Connect(), ConnNetInfo_AddPath(), ConnNetInfo_AppendArg(), ConnNetInfo_AppendUserHeader(), ConnNetInfo_Clone(), ConnNetInfo_CloneInternal(), ConnNetInfo_CreateInternal(), ConnNetInfo_DeleteAllArgs(), ConnNetInfo_DeleteArg(), ConnNetInfo_DeleteUserHeader(), ConnNetInfo_Destroy(), ConnNetInfo_ExtendUserHeader(), ConnNetInfo_GetArgs(), ConnNetInfo_Log(), ConnNetInfo_OverrideUserHeader(), ConnNetInfo_ParseURL(), ConnNetInfo_PostOverrideArg(), ConnNetInfo_PreOverrideArg(), ConnNetInfo_PreOverrideUserHeader(), ConnNetInfo_PrependArg(), ConnNetInfo_PrependUserHeader(), ConnNetInfo_SetArgs(), ConnNetInfo_SetFrag(), ConnNetInfo_SetPath(), ConnNetInfo_SetTimeout(), ConnNetInfo_SetupStandardArgs(), ConnNetInfo_SetUserHeader(), ConnNetInfo_URL(), ShowHideManager::ConstructShowHideArray(), ContextOffsetsToOffsetArray(), COperationTiming::COperationTiming(), CBlobSplitterImpl::CopyAnnot(), CBlobSplitterImpl::CopySequence(), CBlobSplitterImpl::CopySkeleton(), CORE_SendMailEx(), CParseTemplException< CSeqsetException >::CParseTemplException(), CPluginValue::CPluginValue(), CPoolBalancer::CPoolBalancer(), CPythonDiagHandler::CPythonDiagHandler(), CWindowManager::Create(), CClassInfoHelper< C >::CreateAbstractClassInfo(), CreateAsnStruct(), BlockMultipleAlignment::CreateBlock(), CClassInfoHelper< C >::CreateChoiceInfo(), CClassInfoHelper< C >::CreateClassInfo(), CProjectItemsTree::CreateFrom(), CPluginInfoSet::CreateInfo(), CInterfaceRegistry::CreateInterface(), CGuiObjectInfoSeq_id::CreateObject(), CGuiObjectInfoSeq_loc::CreateObject(), CPluginValueConstraint::CreateProjectItemType(), CStlClassInfo_list< Data >::CreateSetTypeInfo(), CStlClassInfo_vector< Data >::CreateSetTypeInfo(), CAsnViewContext::CreateTooltipWindow(), CSixFramesTransTrackFactory::CreateTracks(), CStlClassInfo_list< Data >::CreateTypeInfo(), CStlClassInfo_vector< Data >::CreateTypeInfo(), CStlClassInfo_set< Data >::CreateTypeInfo(), CStlClassInfo_multiset< Data >::CreateTypeInfo(), CStlClassInfo_set2< Data, Comparator >::CreateTypeInfo(), CStlClassInfo_multiset2< Data, Comparator >::CreateTypeInfo(), CStlClassInfo_map< Key, Value >::CreateTypeInfo(), CStlClassInfo_multimap< Key, Value >::CreateTypeInfo(), CStlClassInfo_map3< Key, Value, Comparator >::CreateTypeInfo(), CStlClassInfo_multimap3< Key, Value, Comparator >::CreateTypeInfo(), CPrimitiveTypeInfoIntFunctions< T >::CreateTypeInfo(), CPrimitiveTypeInfoBigIntFunctions< T >::CreateTypeInfo(), CReferenceDataType::CreateTypeInfo(), CStdTypeInfo< bool >::CreateTypeInfoNullBool(), CStdTypeInfo< string >::CreateTypeInfoStringStore(), CScopeInfo_Base::CScopeInfo_Base(), CSDB_Exception::CSDB_Exception(), CSeq_annot_Info::CSeq_annot_Info(), CSeq_entry_Info::CSeq_entry_Info(), CSeq_id_Handle::CSeq_id_Handle(), CSeqMap_CI::CSeqMap_CI(), CSNPDb_Impl::CSNPDb_Impl(), CSraException::CSraException(), CTooltipFrame::CTooltipFrame(), CVDBGraphDataLoader_Impl::CVDBGraphDataLoader_Impl(), CVDBGraphDb_Impl::CVDBGraphDb_Impl(), CWGSDataLoader_Impl::CWGSDataLoader_Impl(), dbacolptr(), dbbylist(), dbcolinfo(), DbgPrint(), DbgPrintEx(), DbgPrintNP(), DbgPrintP(), DBLB_GetServer(), dbnumalts(), SCNIDeleter::Delete(), CDataChunkStream::DeserializeSplitInfo(), CNcbiDiag::DiagAssert(), CNcbiDiag::DiagAssertIfSuppressedSystemMessageBox(), CNcbiDiag::DiagFatal(), CNcbiDiag::DiagTrouble(), CNcbiDiag::DiagValidate(), CDisambiguator::Disambiguate(), CServiceDiscovery::DiscoverImpl(), CDemoApp::Dispatch(), DoDbgPrint(), CwxLogDiagHandler::DoLogRecord(), PT::CProjectFolder::DoNewFolder(), CDelayBuffer::DoUpdate(), CAutoColValidatoraccession::DoValidate(), CSeq_id_Which_Tree::DropInfo(), CDataSource::DropStaticTSE(), CDataSource::DropTSE(), DSOCK_RecvMsg(), DSOCK_SendMsg(), DSOCK_WaitMsg(), dumpit(), CChoiceTypeInfo::Equals(), CClassTypeInfo::Equals(), CTreeFiller::Execute(), execute_cpu_id(), CObjectIStream::ExpectedMember(), extractBioseqInfo(), CArchiveZip::ExtractEntryToCallback(), CArchiveZip::ExtractEntryToFileSystem(), CArchiveZip::ExtractEntryToMemory(), CArchive::ExtractFileToCallback(), CArchive::ExtractFileToHeap(), CArchive::ExtractFileToMemory(), CLDS2_UrlHandler_Base::FillInfo(), CAlignFormatUtil::FillScanModeBlastDbInfo(), CBedAnnotAssembler::FinalizeAnnot(), CItemsInfo::Find(), CItemsInfo::FindDeep(), CItemsInfo::FindEmpty(), CWGSFileInfo::FindGi(), CSeq_id_Textseq_Tree::FindInfo(), CSeq_id_Local_Tree::FindInfo(), CSeq_id_General_Tree::FindInfo(), CTSE_LockSet::FindLock(), CSeq_id_Textseq_Tree::FindMatch(), CItemsInfo::FindNextMandatory(), CSeq_id_Textseq_Tree::FindOrCreate(), CSeq_id_Local_Tree::FindOrCreate(), CSeq_id_General_Tree::FindOrCreate(), CSeq_id_Giim_Tree::FindOrCreate(), CSeq_id_Patent_Tree::FindOrCreate(), CSeq_id_PDB_Tree::FindOrCreate(), CWGSFileInfo::FindProtAcc(), CItemsInfo::FindRealTypeInfo(), CSeq_id_Textseq_Tree::FindReverseMatch(), CDataSource::FindTSE_Lock(), FindVersion(), ctll::fixed_string< N >::fixed_string(), CHugeFileProcess::ForEachEntry(), CWriteObjectList::ForgetObjects(), FTP_CreateConnector(), g_IsCuratedRefSeq(), GeneQuals(), CClassTypeStrings::GenerateClassCode(), CClassTypeStrings::GenerateUserHPPCode(), CCDDBlobCache::Get(), CLoadInfoMap< Key, Info >::Get(), get_cpu_features(), CSeq_id::GetAccType(), CScope_Impl::GetAccVer(), CWGSDataLoader_Impl::GetAccVerOnce(), CScope_Impl::GetAccVers(), BlockMultipleAlignment::GetAlignedBlockPosition(), CNCDBIndexFile::GetAllDBFiles(), GetAllSwitchPoints(), CCSraRefSeqIterator::GetAlnOverStarts(), CObjectIStreamAsn::GetAltItemIndex(), CVDBGraphSeqIterator::GetAnnot(), CLDS2_Database::GetAnnotBlobs(), CSNPClient::GetAnnotInfo(), ChemicalGraph::GetAtomInfo(), Residue::GetAtomInfo(), Molecule::GetAtomInfo(), StyleManager::GetAtomStyle(), CEUtils_Request::GetBaseURL(), SRequestBuilder::GetBioIdType(), CWGSSeqIterator::GetBioseq(), CWGSScaffoldIterator::GetBioseq(), CWGSProteinIterator::GetBioseq(), CLDS2_Database::GetBioseqBlobs(), CScope_Impl::GetBioseqHandle(), CTSE_ScopeInfo::GetBioseqInfo(), CWGSClient::GetBioseqInfo(), CTSE_ScopeInfo::GetBioseqLock(), CAlignFormatUtil::GetBlastDbInfo(), CAsnCacheStore::GetBlob(), CHugeAsnDataLoader::GetBlobById(), CAsnCache_DataLoader::GetBlobId(), CHugeAsnDataLoader::GetBlobId(), CCSRADataLoader_Impl::GetBlobIdOnce(), CWGSDataLoader_Impl::GetBlobIdOnce(), CLDS2_Database::GetBlobInfo(), CGBDataLoader_Native::GetBlobs(), CScope_Impl::GetBulkIds(), CGBDataLoader_Native::GetCDDAnnots(), CWGSSeqIterator::GetChunk(), CWGSSeqIterator::GetChunkData(), CWGSSeqIterator::GetChunkDataForVersion(), CWGSSeqIterator::GetChunkForVersion(), CVDBGraphDataLoader_Impl::GetChunkOnce(), CHugeAsnReader::GetClosestDescriptor(), CSeq_table::GetColumn(), CCSraRefSeqIterator::GetCoverageGraph(), CMsvcProjectMakefile::GetCustomBuildInfo(), CMsvcCombinedProjectMakefile::GetCustomBuildInfo(), CMsvcProjectMakefile::GetCustomScriptInfo(), CMsvcCombinedProjectMakefile::GetCustomScriptInfo(), CGBProject::GetData(), CBioseq_set_Info::GetEntryIndex(), CArchiveZip::GetEntryInfo(), CCSraRefSeqIterator::GetEstimatedNumberOfAlignments(), CRR_Row< TTraits >::GetFieldsMetaInfo(), CSNPClient::GetFileInfo(), CLDS2_Database::GetFileInfo(), CWGSDataLoader_Impl::GetFileInfoByAcc(), CWGSDataLoader_Impl::GetFileInfoByGeneral(), CBlastDbFinder::GetFileName(), CFileUtil::GetFileSystemInfo(), CObjectStackFrame::GetFrameInfo(), CObjectStackFrame::GetFrameName(), CFileUtil::GetFreeDiskSpace(), CScope_Impl::GetGi(), CWGSDataLoader_Impl::GetGiOnce(), CScope_Impl::GetGis(), CPSG_NamedAnnotInfo::GetId2AnnotInfoList(), CHugeAsnDataLoader::GetIds(), CScope_Impl::GetIds(), CWGSDataLoader_Impl::GetIdsOnce(), CSeq_annot_SNP_Info::GetIndex(), CDelayBuffer::GetIndex(), CAsnCache::GetIndexEntry(), CAsnCacheStore::GetIndexEntry(), CAsnCacheStoreMany::GetIndexEntry(), CPrimitiveTypeInfo::GetIntegerTypeInfo(), CScope_Impl::GetLabel(), CScope_Impl::GetLabels(), CSeqidlistRead::GetListInfo(), CSeq_table_CI::GetMappedLocation(), CSeqUtils::GetMappingInfo(), CSeqUtils::GetMappingInfoFromLocation(), CAsnCacheStore::GetMultipleBlobs(), CAsnCache::GetMultipleIndexEntries(), CAsnCacheStore::GetMultipleIndexEntries(), CAsnCacheStoreMany::GetMultipleIndexEntries(), CGBDataLoader_Native::GetNamedAnnotAccessions(), CNAUtils::GetNATrackInfo(), GetNucAccOwner(), CSNPDataLoader_Impl::GetOrphanAnnotRecordsOnce(), GetPackedFeatAnnot(), CFeatTree::GetParent(), CBioseq_Handle::GetParentBioseq_set(), CBioseq_set_Handle::GetParentBioseq_set(), CSeq_entry_Handle::GetParentBioseq_set(), CSeq_entry_EditHandle::GetParentBioseq_set(), CBioseq_set_Handle::GetParentEntry(), CBioseq_set_EditHandle::GetParentEntry(), CSeq_entry_Handle::GetParentEntry(), CSeq_entry_EditHandle::GetParentEntry(), CPlugin< PluginType >::GetPluginInfo(), CVDBGraphDataLoader_Impl::GetPossibleAnnotNames(), NMacroUtil::GetPrimitiveObjectInfos(), NMacroUtil::GetPrimitiveObjInfo(), NMacroUtil::GetPrimitiveObjInfosWithContainers(), CBLASTParams::GetProgramLabels(), NMItemData::GetPropertyFromInfo(), GetProtAccOwner(), CWGSDb_Impl::GetProtAccRanges(), CWGSSeqIterator::GetQualityAnnot(), CSeq_feat_Handle::GetRange(), CSeq_loc_CI::GetRangeAsSeq_loc(), CCSraRefSeqIterator::GetRefBioseq(), CFileModules::GetRefInfo(), CCSraRefSeqIterator::GetRefLiterals(), CBamFileInfo::GetRefSeqBlobId(), CBAMDataLoader_Impl::GetRefSeqInfo(), CCSRADataLoader_Impl::GetRefSeqInfo(), CCSRADataLoader_Impl::GetRefSeqIterator(), CClassTypeInfoBase::GetRegisteredClassNames(), CSimpleLoaderMaker< TDataLoader >::GetRegisterInfo(), CParamLoaderMaker< TDataLoader, TParam >::GetRegisterInfo(), CGBDataLoader::CGBLoaderMaker< TDataLoader >::GetRegisterInfo(), CSeqUtils::GetRnaMappingInfo(), CTSE_ScopeInfo::GetScopeLock(), CProcessor_ID1::GetSeq_entry(), CWGSSeqIterator::GetSeq_entry(), CWGSScaffoldIterator::GetSeq_entry(), CWGSProteinIterator::GetSeq_entry(), CWGSSeqIterator::GetSeq_entryData(), CWGSSeqIterator::GetSeq_inst(), CSeq_id_Which_Tree::GetSeqId(), CAsnCacheStore::GetSeqIds(), CVDBGraphDb_Impl::GetSeqInfo(), CSNPDataLoader_Impl::GetSeqInfo(), CVDBGraphDb_Impl::GetSeqInfoAtRow(), CCSraRefSeqIterator::GetSeqLength(), CWGSDataLoader_Impl::GetSequenceHashOnce(), CScope_Impl::GetSequenceLength(), CHugeAsnDataLoader::GetSequenceLength(), CWGSDataLoader_Impl::GetSequenceLengthOnce(), CScope_Impl::GetSequenceLengths(), CScope_Impl::GetSequenceState(), CPSGDataLoader_Impl::GetSequenceStateOnce(), CScope_Impl::GetSequenceStates(), GetSequenceType(), CScope_Impl::GetSequenceType(), CHugeAsnDataLoader::GetSequenceType(), CHugeAsnDataLoader::GetSequenceTypeFound(), CWGSDataLoader_Impl::GetSequenceTypeOnce(), CScope_Impl::GetSequenceTypes(), CCSRADataLoader_Impl::GetShortReadIterator(), CWGSSeqIterator::GetSplitInfoAndVersion(), CWGSSeqIterator::GetSplitInfoDataAndVersion(), CTableDataGBProject::GetStringValue(), GetSwitchPoint(), CScope_Impl::GetSynonyms(), CHugeAsnDataLoader::GetTaxId(), CScope_Impl::GetTaxId(), CWGSDataLoader_Impl::GetTaxIdOnce(), CScope_Impl::GetTaxIds(), CSeqDB::GetTaxInfo(), CSeqDBImpl::GetTaxInfo(), CSeqDBTaxInfo::GetTaxNames(), CFileUtil::GetTotalDiskSpace(), CDataSource_ScopeInfo::GetTSE_Lock(), CScope_Impl::GetTSESetWithAnnots(), CAnnotType_Index::GetTypeIndex(), CStlClassInfo_set2< Data, Comparator >::GetTypeInfo(), CStlClassInfo_multiset2< Data, Comparator >::GetTypeInfo(), CStlClassInfo_map3< Key, Value, Comparator >::GetTypeInfo(), CStlClassInfo_multimap3< Key, Value, Comparator >::GetTypeInfo(), CStdTypeInfo< bool >::GetTypeInfo(), CStdTypeInfo< char >::GetTypeInfo(), CStdTypeInfo< float >::GetTypeInfo(), CStdTypeInfo< double >::GetTypeInfo(), CStdTypeInfo< string >::GetTypeInfo(), CStdTypeInfo< char * >::GetTypeInfo(), CStdTypeInfo< const char * >::GetTypeInfo(), CStdTypeInfo< CBitString >::GetTypeInfo(), CStdTypeInfo< CTime >::GetTypeInfo(), CStdTypeInfo< bool >::GetTypeInfoNullBool(), CStdTypeInfo< string >::GetTypeInfoStringStore(), CFileUtil::GetUsedDiskSpace(), CConnection::GetVersionInfo(), CWGSClient::GetWGSDb(), CWGSDataLoader_Impl::GetWGSFile(), CAlignGroup::GroupBySequenceType(), CScopeInfo_Base::HasObject(), HasWGSMasterMark(), CDelayBuffer::HaveFormat(), CBamDb::IncludeAlignTag(), CSplitContentIndex::IndexChunkContent(), CAgpconvertApplication::Init(), PT::CProjectFolder::Initialize(), CSeq_loc_I::InsertEmpty(), CSeq_loc_I::InsertInterval(), CSeq_loc_I::InsertPoint(), CSeq_loc_CI_Impl::InsertRange(), CSeq_loc_I::InsertWhole(), IsBetterVersion(), wxCheckedListCtrl::IsChecked(), CSGUtils::IsChromosome(), CGuiSeqInfoSeq_id::IsDNA(), CGencollSvc::isGenCollSequence(), CSeq_loc_CI_Impl::IsInBond(), CSGUtils::IsmRNA(), CGuiObjectInfoSeq_align::IsPolyA(), CGuiSeqInfoSeq_id::IsProtein(), CSeqUtils::isQuasiLocal(), CSGUtils::IsRefSeq(), CHugeFileProcess::IsSupported(), CSeq_annot_Info::IsTableFeatPartial(), CSeqUtils::isTopLevel(), CValidError_bioseq::IsTSAAccession(), CValidError_bioseq::IsWGSAccession(), LB_Select(), CProcessor_AnnotInfo::LoadBlob(), CId2ReaderBase::LoadBlobs(), CReader::LoadBlobs(), CId2ReaderBase::LoadBlobSet(), CAsnObjectLoader::LoadFromStream(), CVDBGraphDataLoader_Impl::LoadFullEntry(), CId1Reader::LoadGiBlob_ids(), CCacheReader::LoadSeq_idBlob_ids(), CPubseqReader::LoadSeq_idInfo(), CReader::LoadSeq_idTaxId(), CHugeAsnReader::LoadSeqEntry(), CCleanupHugeAsnReader::LoadSeqEntry(), CReader::LoadSequenceLength(), CReader::LoadSequenceType(), CVDBGraphDataLoader_Impl::LoadSplitEntry(), CSeq_id_InfoLocker::Lock(), CTSE_Lock::Lock(), CScopeInfoLocker::Lock(), main(), CIgBlastnApp::CIgFormatter::Main(), CDB_Exception::MakeException(), MakeId(), CBlobSplitterImpl::MakeID2Chunk(), CSeq_loc_CI_Impl::MakeInterval(), CSeq_loc_CI_Impl::MakeLoc(), CSeq_loc_CI_Impl::MakeLocInterval(), CSeq_loc_CI_Impl::MakeLocOther(), CSeq_loc_CI_Impl::MakeLocPacked_pnt(), CSeq_loc_CI_Impl::MakeLocPoint(), CSeq_loc_CI_Impl::MakePoint(), CSeq_loc_CI_Impl::MakeRangeLoc(), mbedtls_cipher_info_get_block_size(), mbedtls_cipher_info_get_iv_size(), mbedtls_cipher_info_get_key_bitlen(), mbedtls_cipher_info_get_mode(), mbedtls_cipher_info_get_name(), mbedtls_cipher_info_get_type(), mbedtls_cipher_info_has_variable_iv_size(), mbedtls_cipher_info_has_variable_key_bitlen(), mbedtls_ssl_ciphersuite_cert_req_allowed(), mbedtls_ssl_ciphersuite_get_id(), mbedtls_ssl_ciphersuite_get_name(), mbedtls_ssl_ciphersuite_uses_srv_cert(), BlockMultipleAlignment::MoveBlockBoundary(), NCBI_LinearSolution(), NCBI_SingularValueDecomposition(), NCBI_SymmetricEigens(), NcbiIsLocalIPEx(), CInterfaceRegistry::ObjectHasInterface(), odbc_find_last_socket(), odbc_set_return_params(), OffsetArrayToContextOffsets(), CwxPhyloEditDlg::OnButton4Click(), CSeqGraphicWidget::OnDataChanged(), CEventHandler::OnEvent(), CPubseqGatewayApp::OnInfo(), CSmartFileTextToolbar::OnJobNotification(), CPhyloSaveSelectiondlg::OnLeftDown(), CwxPhyloEditDlg::OnListctrl1Selected(), CFileLoadOptionPanel::OnMRUWindowLinkClicked(), CFileLoadPanel::OnMRUWindowLinkClicked(), CwxPhyloEditDlg::OnOkClick(), CGenBankLoadOptionPanel::OnRecentAccClicked(), CProjectLoadOptionPanel::OnRecentListLinkClicked(), CLocationsListCtrl::OnSelected(), CPhyloSaveSelectiondlg::OnSelectionTextUpdated(), CPhyloSaveSelectiondlg::OnSelListctrlSelected(), CLZOCompressionFile::Open(), CBAMDataLoader_Impl::OpenBAMFilesOnce(), CVDBGraphDataLoader_Impl::OpenVDBGraphFileOnce(), CWGSDataLoader_Impl::OpenWGSFileOnce(), FileInfo::operator!=(), CSeqIdCheck::operator()(), CMyNCBIDataCallback::operator()(), operator<<(), SLibInfo::operator=(), CArchiveEntryInfo::operator==(), CTarEntryInfo::operator==(), FileInfo::operator==(), CPubseqGatewayData::PackSiInfo(), CSplitParser::Parse(), CSeq_id_Textseq_Info::ParseCaseVariant(), CFastaDeflineReader::ParseDefline(), CAlnReader::ParseDefline(), CFastaReader::ParseDefLine(), CAbstractProjectItem::PostRead(), CFileModules::PrintASNRefInfo(), PrintErrorArchive(), PrintSAMUnaligned(), PrintTabularUnaligned(), CFileModules::PrintXMLRefInfo(), SDataOnlyCopy::Process(), CAsnvalThreadState::ProcessBSSReleaseFile(), CAsnvalThreadState::ProcessSSMReleaseFile(), CWGSDb_Impl::PutAmbiguityInfo(), CObjectIStream::Read(), CGBReleaseFileImpl::Read(), readhdr(), ReadObject(), CFormatReadHook::ReadObject(), CReadHook_SkipError::ReadObject(), CSoapReadHook::ReadObject(), CObjectIStream::ReadPointer(), CObjectIStreamAsnBinary::ReadPointer(), ReadProject(), CGBReaderCacheManager::RegisterCache(), CInterfaceRegistry::RegisterFactory(), CGBDataLoader::RegisterInObjectManager(), CWriteObjectList::RegisterObject(), CSeqTestManager::RegisterTest(), reinit_results(), CSeq_id_InfoLocker::Relock(), CScopeInfoLocker::Relock(), CObjectIndex::Remove(), CAnnotPieces::Remove(), CSeq_annot_Info::Remove(), CBioseq_Base_Info::RemoveAnnot(), CTSE_ScopeInfo::RemoveAnnot(), CBioseq_set_Info::RemoveEntry(), CTSE_ScopeInfo::RemoveEntry(), CSeq_annot_Info::RemoveFeatId(), CTSE_LockSet::RemoveLock(), CSeq_annot_Info::ReorderFtable(), CSeq_annot_Info::Replace(), CException::Report(), CExceptionReporter::ReportDefault(), CExceptionReporter::ReportDefaultEx(), CScopeInfo_Ref< CSeq_annot_ScopeInfo >::Reset(), CTSE_ScopeInfo::ResetEntry(), CSeq_loc_I::ResetFuzz(), CSeq_loc_I::ResetFuzzFrom(), CSeq_loc_I::ResetFuzzTo(), CObjectHookGuardBase::ResetHook(), CSeq_loc_I::ResetStrand(), Residue::Residue(), RPSLookupTableNew(), CAnnotMetaDataJob::Run(), CHugeFileDemoApp::Run(), CAgpconvertApplication::Run(), CAsnCacheTestApplication::Run(), CObjExtractApp::Run(), CTestSeqId_Biomol::RunTest(), CSeqTestManager::RunTests(), s_AddPSSMWordHits(), s_AddPSSMWordHitsCore(), s_AddServerInfo(), s_AddService(), s_AddSkip(), s_AddSkipInfo(), s_AddWordHits(), s_AddWordHitsCore(), s_Adjust(), s_ApproveCallback(), s_CheckLZOHeader(), s_Close(), s_CollectBestOverlaps(), s_CollectFileInfo(), s_CompressedAddNeighboringWords(), s_CompressedAddWordHits(), s_CompressedAddWordHitsCore(), s_Connect(), s_CreateConnector(), s_CreateMappingInfo(), s_EditFolder(), s_ErrorCallback(), s_ExtractKeys(), s_FakeDnsReturn(), s_FillDbInfoLocally(), s_FormatMessage(), s_FromSize(), s_GetDescription(), s_GetDiskSpace_PANFS(), s_GetFileSystemInfo(), s_gethostbyname(), s_GetNextInfo(), s_GetSeqLabel(), s_GetStrandMatchRule(), s_GetTaxName(), s_GetTopology(), s_GetVcfAttribute(), s_Http_Write(), s_HttpAny_Read(), s_InfoIsValid(), s_InitAPI(), CSeqFeatData::s_InitSubtypesTable(), s_IsGpipe(), s_IsMaster(), s_IsTSAContig(), s_IsUpdateNeeded(), s_IsWGS(), s_IsWGSMaster(), s_LoadSingleService(), s_loadSortedMatrix(), s_LocIdType(), s_LOG_Handler(), s_ModifyUserHeader(), s_Ncbid_Read(), s_Ncbid_Write(), s_Open(), s_OpenIndexDB(), s_ParseResponse(), s_ProcessForStandby(), s_ProgressCallback(), s_ProjectFolderClone(), s_Read(), s_RenderAccList(), LbsmLookup::s_Resolve(), s_ResolveFieldsOfChoice(), s_ResolveFieldsOfClass(), s_ResolveFieldsOfContainer(), s_ResolveFieldsOfPointer(), s_ResolveItems(), s_RPSOffsetArrayToContextOffsets(), s_ScanInfoGetNextInfo(), s_SendRcpt(), s_SeqLocToRangeInfoMap(), s_SeqLocToRangeInfoMapByStrand(), s_SeqLocToTotalRangesInfoMapByStrand(), s_SetFieldsOfChoice(), s_SetFieldsOfClass(), s_SetFieldsOfContainer(), s_SetFieldsOfPointer(), s_SizeOrMajorMinor(), s_StackWalker(), s_Start_GetFields(), s_Start_SetFields(), s_TaxidLinageToString(), s_ThrowHttpStatus(), s_ThrowIoStatus(), s_TraceParams(), impl::s_TransformLoginData(), s_Update(), s_UserGroupAsString(), s_VT_Open(), s_WaitConnected(), s_Write(), s_WriteLZOHeader(), s_x_ReportMissingCitSub(), s_x_ReportMissingPubs(), CWGSSeqIterator::SAmbiguityAccess::SAmbiguityAccess(), CCacheWriter::SaveSeq_idBlob_ids(), CCSraAlignIterator::Select(), SendMailInfo_InitEx(), CVDBGraphSeqIterator::SeqTableIsSmaller(), SERV_AddrOfInfo(), SERV_CopyInfoEx(), SERV_CreateDnsInfoEx(), SERV_CreateFirewallInfoEx(), SERV_CreateHttpInfoEx(), SERV_CreateNcbidInfoEx(), SERV_CreateStandaloneInfoEx(), SERV_DISPD_Open(), SERV_GetInfoP(), SERV_GetInfoSimple(), SERV_GetServers(), SERV_HostOfInfo(), SERV_LBDNS_Open(), SERV_LBSMD_Open(), SERV_LINKERD_Open(), SERV_LOCAL_Open(), SERV_NameOfInfo(), SERV_NAMERD_Open(), SERV_ReadInfoEx(), SERV_ServerPort(), SERV_SizeOfInfo(), SERV_Update(), SERV_WriteInfo(), CStlClassInfoFunctions< Container >::SetAddElementFunctions(), CStlClassInfoFunctions_set< Container >::SetAddElementFunctions(), CStlClassInfoFunctions_multiset< Container >::SetAddElementFunctions(), wxCheckedListCtrl::SetChecked(), CDemoApp::SetChoice(), CDemoApp::SetClass(), CDemoApp::SetContainer(), CStlClassInfoFunctions< Container >::SetCountFunctions(), CStlClassInfoFunctions_vec< Container >::SetCountFunctions(), CGBProject_ver2::SetData(), SetDiagErrCodeInfo(), CDemoApp::SetDispatch(), CTSE_ScopeInfo::SetEditTSE(), CTL_CmdBase::SetExecCntxInfo(), CMySQL_LangCmd::SetExecCntxInfo(), CLZOCompressor::SetFileInfo(), CSeq_loc_I::SetFrom(), CStlClassInfo_list< Data >::SetFunctions(), CStlClassInfo_vector< Data >::SetFunctions(), CSeq_loc_I::SetFuzz(), CSeq_loc_I::SetFuzzFrom(), CSeq_loc_I::SetFuzzTo(), CBlobRecord::SetId2Info(), CFeaturePanel::SetImageInfo(), CPrimitiveTypeInfoIntFunctions< T >::SetInt4Functions(), CPrimitiveTypeInfoIntFunctions< T >::SetInt8Functions(), SetInternalName(), CTimeFunctions::SetIOFunctions(), CPrimitiveTypeFunctions< ncbi::CAnyContentObject >::SetIOFunctions(), CTreeLevelIteratorOne::SetItemInfo(), CConstTreeLevelIteratorOne::SetItemInfo(), CStlClassInfoFunctionsCI< Container >::SetIteratorFunctions(), CStlClassInfoFunctionsI< Container >::SetIteratorFunctions(), CStlClassInfoFunctionsI_set< Container >::SetIteratorFunctions(), CInfoRequestorLock::SetLoadedFor(), CFeatGlyph::SetMappingInfo(), CTimeFunctions::SetMemFunctions(), CPrimitiveTypeFunctions< ncbi::CAnyContentObject >::SetMemFunctions(), CStlClassInfoFunctions< Container >::SetMemFunctions(), SetModuleName(), CPluginArg::SetObject(), CPluginObject::SetObject(), CPluginValue::SetObject(), CSeq_loc_CI_Impl::SetPoint(), CSeq_loc_I::SetPoint(), CDemoApp::SetPointer(), SetPostRead(), SetPostWrite(), SetPreRead(), SetPreWrite(), CDemoApp::SetPrimitive(), CFeatGlyph::SetProjectedMappingInfo(), CSeq_loc_I::SetRange(), CClassInfoHelper< C >::SetReadWriteMemberMethods(), CClassInfoHelper< C >::SetReadWriteMethods(), CClassInfoHelper< C >::SetReadWriteVariantMethods(), CSeq_loc_I::SetSeq_id_Handle(), CSeq_loc_I::SetStrand(), CSeq_loc_I::SetTo(), CTSE_Info::SFeatIdInfo::SFeatIdInfo(), CSeq_loc_CI_Impl::ShouldBePoint(), CLDS2_BioseqSet_Hook::SkipClassMember(), CLDS2_BioseqIds_Hook::SkipClassMember(), CReadInSkipClassMemberHook< Member >::SkipClassMember(), pub_report::CSkipSeqIdHook::SkipClassMember(), CHookBioseq__Seq_id::SkipClassMember(), CHookTax_id::SkipClassMember(), CLDS2_AnnotType_Hook::SkipObject(), CLDS2_AnnotDesc_Hook::SkipObject(), CLDS2_Annot_Hook::SkipObject(), CLDS2_SeqEntry_Hook::SkipObject(), pub_report::CSkipSeqEntryHook::SkipObject(), CReadInSkipObjectHook< Object >::SkipObject(), CObjectEnum< T, Consumer >::SkipObject(), CHookBioseqContext::SkipObject(), SLibInfo::SLibInfo(), CFeatureGenerator::SImplementation::SMapper::SMapper(), SOCK_InitializeAPI(), SOCK_Shutdown(), SOCK_Wait(), CBlobSplitterImpl::SplitBioseq(), BlockMultipleAlignment::SplitBlock(), SQLSetScrollOptions(), CAnnotMapping_Info::Swap(), sx_AddMasterDescr(), tds5_process_dyn_result2(), tds5_process_result(), tds5_process_result2(), tds5_put_params(), tds7_process_compute_result(), tds7_process_result(), tds7_send_execute(), tds_alloc_compute_result(), tds_detach_results(), tds_free_input_params(), tds_iconv_get_info(), tds_process_col_fmt(), tds_process_col_name(), tds_process_colinfo(), tds_process_compute(), tds_process_compute_names(), tds_process_compute_result(), tds_process_dyn_result(), tds_process_nbcrow(), tds_process_param_result(), tds_process_params_result_token(), tds_process_row(), tds_put_params(), tds_set_current_results(), CArchiveZip::TestEntry(), TestMapper_Sequence_Info(), TestMapper_Trimming(), ThrowCMacroExecException(), CScopeInfo_Ref< CSeq_annot_ScopeInfo >::toBase(), CThreadPool_Impl::TryGetExclusiveTask(), CAlnMultiPane::TTHH_GetTooltip(), CSeqGraphicPane::TTHH_GetTooltip(), CSeq_id_InfoLocker::Unlock(), CScopeInfoLocker::Unlock(), CTSEAnnotObjectMapper::Unmap(), CSeqTestManager::UnRegisterTest(), CSeq_annot_Info::Update(), CLDS2_Database::UpdateFile(), CSeq_loc_CI_Impl::UpdateLoc(), CSeq_loc_CI_Impl::UpdatePoint(), CPhyloSaveSelectiondlg::UpdateSelections(), CSeq_annot_Info::UpdateTableFeat(), CSeq_annot_Info::UpdateTableFeatLocation(), CSeq_annot_Info::UpdateTableFeatProduct(), CRowReaderStream_Excel_CSV::Validate(), CRowReaderStream_IANA_CSV::Validate(), CRowReaderStream_IANA_TSV::Validate(), CRowReaderStream_NCBI_TSV::Validate(), CSerialFacet::Validate(), CAsnvalThreadState::ValidateOneHugeBlob(), CValidError_bioseq::ValidateSeqId(), CProcess::Wait(), CProcess::WaitInfinite(), CProcess::WaitTimeout(), CDemoApp::WalkChoice(), CDemoApp::WalkClass(), CDemoApp::WalkContainer(), CDemoApp::WalkPointer(), CDemoApp::WalkPrimitive(), CSeq_loc_CI_Impl::WasPoint(), CMsvcConfigure::WriteBuildVer(), CFtableWriteHook::WriteChoiceVariant(), CDescrWriteHook::WriteClassMember(), WriteObject(), CObjectOStream::WritePointer(), CInfoManager::x_AcquireLoadLock(), CSeq_annot_Info::x_AddAlignIndex(), CSeq_annot_Info::x_AddAlignKeys(), CPhrap_Contig::x_AddAlignRanges(), CTSE_Split_Info::x_AddAssemblyInfo(), CTSE_Chunk_Info::x_AddDescInfo(), CTSE_Split_Info::x_AddDescInfo(), CFeat_CI::x_AddFeatures(), CTSE_Info::x_AddFeaturesById(), x_AddInfo(), CGBDocument::x_AddItems(), CWGSSeqIterator::x_AddQualityChunkInfo(), CID2SNPProcessor_Impl::x_AddSeqIdRequest(), CScope_Impl::x_AddSynonym(), CInfoCache_Base::x_AddToGCQueue(), x_AppendArg(), x_ApplyCmd(), CTSE_Lock::x_Assign(), CFeatTree::x_AssignGenes(), CFeatTree::x_AssignGenesByOverlap(), CInfoManager::x_AssignLoadMutex(), CFeatTree::x_AssignParentByRef(), CFeatTree::x_AssignParents(), CFeatTree::x_AssignParentsByOverlap(), CId2ReaderBase::x_AssignSerialNumbers(), x_BlankInfo(), CBlobCacher::x_CacheMetaRec(), CCSraDb_Impl::x_CalcSeqLength(), CInfoCache_Base::x_Check(), CPSGDataLoader_Impl::x_CheckAnnotCache(), CDataSource::x_CollectBioseqs(), x_ConsistencyCheck(), CWGSSeqIterator::x_CreateBioseq(), CWGSScaffoldIterator::x_CreateBioseq(), CWGSProteinIterator::x_CreateBioseq(), CWGSSeqIterator::x_CreateChunk(), CSGFeatureJob::x_CreateCrossOriginGlyphs(), CWGSSeqIterator::x_CreateDataChunk(), CWGSSeqIterator::x_CreateEntry(), CWGSScaffoldIterator::x_CreateEntry(), CWGSProteinIterator::x_CreateEntry(), CSGFeatureJob::x_CreateFeature1(), CWGSSeqIterator::x_CreateFeaturesChunk(), CFeatureGenerator::SImplementation::x_CreateMrnaFeature(), CWGSSeqIterator::x_CreateProductsChunk(), CWGSSeqIterator::x_CreateQualityChunk(), CPhrap_Contig::x_CreateSeq_align(), CWGSSeqIterator::x_CreateSplit(), CInfoManager::x_DeadLock(), x_DeleteAllArgs(), x_DeleteArg(), x_DestroyNetInfo(), CId2ReaderBase::x_DoneReply(), CDockSplitter::x_DrawSeparator(), CSplitter::x_DrawSeparator(), CTSE_Lock::x_Drop(), CDataSource::x_DropTSE(), CSeq_id_Textseq_Tree::x_Erase(), CPubseqGatewayCacheBioseqInfo::x_ExtractRecord(), CPubseqGatewayCacheBlobProp::x_ExtractRecord(), CPubseqGatewayCacheSi2Csi::x_ExtractRecord(), x_Finalize(), CScope_Impl::x_FindBioseq_Info(), CDataSource::x_ForgetTSE(), CSeqMap_CI::x_Found(), CInfoCache_Base::x_GC(), CWGSMasterDescrSetter::x_GetActualExistingDescrMask(), CNAUtils::x_GetAllNAIds(), CAlnGraphic::x_GetAlnInfo(), CSeq_feat_Handle::x_GetAnnotObject_Info(), CScope_Impl::x_GetBioseqHandleFromTSE(), CScope_Impl::x_GetBioseqHandlesSorted(), CSeqTable_sparse_index::x_GetBitSetCache(), CAsnCacheStore::x_GetBlob(), CFeatTree::x_GetChildren(), CSeqTable_sparse_index::x_GetDeltaCache(), CWriteDB_Impl::x_GetFastaReaderDeflines(), CRowReaderStream_Excel_CSV::x_GetFieldTypesToValidate(), CRowReaderStream_IANA_CSV::x_GetFieldTypesToValidate(), CRowReaderStream_IANA_TSV::x_GetFieldTypesToValidate(), CRowReaderStream_NCBI_TSV::x_GetFieldTypesToValidate(), CSNPDataLoader_Impl::x_GetFileInfo(), CLDS2_Manager::x_GetFileInfo(), CWGSDataLoader_Impl::x_GetFileInfo(), CEutilsClient::x_GetHostName(), CEntrez2ClientApp::x_GetInfo(), CSeqTable_multi_data::x_GetIntDeltaCache(), CInfoRequestor::x_GetLock(), CVDBGraphDataLoader_Impl::x_GetNAFileInfo(), CNAUtils::x_GetNAMetaData(), CFeatTree::x_GetParent(), CWGSSeqIterator::x_GetQualityAnnot(), CGBDataLoader_Native::x_GetRecords(), CTSE_ScopeInfo::x_GetScopeLock(), CSeq_align_Handle::x_GetSeq_align(), CSeq_graph_Handle::x_GetSeq_graph(), CWGSSeqIterator::x_GetSeq_inst(), CSeq_feat_Handle::x_GetSNP_Info(), CScope_Impl::x_GetSynonyms(), CScopeInfo_Base::x_GetTSE_ScopeInfo(), CScope_Impl::x_GetTSESetWithAnnots(), CLDS2_DataLoader::x_GetUrlHandler(), CSeq_id_Textseq_Tree::x_GetVersion(), CNcbiApplicationAPI::x_HonorStandardSettings(), x_HostOfInfo(), CGuiObjectInfoClone::x_IdentifyAccession(), CWriteDB_TaxID::x_IncreaseEnvMapSize(), CWriteDB_LMDB::x_IncreaseEnvMapSize(), CTSE_Info::x_IndexBioseq(), CTSE_ScopeInfo::x_IndexBioseq(), CTSE_Info::x_IndexBioseq_set(), CException::x_Init(), CCgiException::x_Init(), CDB_Exception::x_Init(), CCassandraException::x_Init(), CSeq_annot_Info::x_InitAlignKeys(), CSeq_annot_Info::x_InitAlignList(), CSeq_annot_Info::x_InitAnnotList(), CScope_Impl::x_InitBioseq_Info(), CSeq_annot_Info::x_InitFeatKeys(), CSeq_annot_Info::x_InitFeatList(), CSeq_annot_Info::x_InitFeatTableKeys(), CSeq_annot_Info::x_InitGraphKeys(), CSeq_annot_Info::x_InitGraphList(), CSeqTableInfo::x_Initialize(), CSeq_annot_Info::x_InitLocsKeys(), CSeq_annot_Info::x_InitLocsList(), CTSE_Chunk_Info::x_InitObjectIndexList(), x_InitSNP_Info(), CWGSSeqIterator::x_InitSplit(), CUpwardTreeFiller::x_InitTaxInfo(), x_IsWgsSecondary(), CID2SNPProcessor_Impl::x_LoadBlob(), CID2SNPProcessor_Impl::x_LoadChunk(), CSplitDataLoader::x_LoadData(), CBamRefSeqInfo::x_LoadRangesEstimated(), CFeaturePanel::x_LoadSettings(), CTSE_Lock::x_Lock(), CInfoManager::x_LockInfoMutex(), CFeatTree::x_LookupParentByRef(), CVDBGraphSeqIterator::x_MakeGraph(), CTSE_Handle::x_MakeHandle(), CCSraDb_Impl::x_MakeRefSeq_ids(), x_MakeRemove(), x_MakeReplace(), CVDBGraphSeqIterator::x_MakeTable(), CDataSource::x_Map(), CSeq_annot_Info::x_Map(), CSeq_annot_Info::x_MapAnnotObject(), CSeq_annot_Info::x_MapFeatByGene(), CSeq_annot_Info::x_MapFeatById(), CTSE_Info::x_MapFeatById(), CTSE_Info::x_MapFeatByLocus(), CSeq_annot_Info::x_MapFeatIds(), CAnnot_Collector::x_MatchLimitObject(), SDiagMessage::x_NewWrite(), SDiagMessage::x_OldWrite(), CPSGS_SNPProcessor::x_OnSeqIdResolveFinished(), x_Open(), CLDS2_Manager::x_ParseFile(), x_ParseSNP_Info(), CPSGS_TSEChunkProcessor::x_ParseTSEChunkId2Info(), CScope_Impl::x_PopulateBioseq_HandleSet(), CTaxTreeBrowser::x_PopulateTree(), x_PrependArg(), CBlastDBCmdApp::x_PrintBlastDatabaseTaxInformation(), CBlast_SAM_Formatter::x_ProcessCustomSpec(), CID2SNPProcessor_Impl::x_ProcessGetBlobId(), CId2ReaderBase::x_ProcessGetBlobId(), CID2SNPProcessor_Impl::x_ProcessGetBlobInfo(), CID2SNPProcessor_Impl::x_ProcessGetChunks(), CFastaDeflineReader::x_ProcessIDs(), CSeq_loc_CI_Impl::x_ProcessInterval(), CSeq_loc_CI_Impl::x_ProcessLocation(), CSeq_loc_CI_Impl::x_ProcessPoint(), CID2SNPProcessor_Impl::x_ProcessReplyGetSeqId(), CNetScheduleHandler::x_ProcessStatistics(), CSeqMap_CI::x_Push(), CId2ReaderBase::x_ReceiveID2ReplyStage(), CTSE_Info::x_RegisterBioObject(), CDataSource::x_ReleaseLastLoadLock(), CDataSource::x_ReleaseLastLock(), CInfoManager::x_ReleaseLoadMutex(), CTSE_Lock::x_Relock(), CSeq_annot_Info::x_RemapAnnotObject(), CInfoCache_Base::x_RemoveFromGCQueue(), CHugeFileValidator::x_ReportMissingCitSubs(), CHugeFileValidator::x_ReportMissingPubs(), CTSE_Info::x_ResetBioseq_setId(), CTSE_Info::x_ResetBioseqId(), CTSE_ScopeInfo::x_RestoreAdded(), CArchive::x_RestoreAttrs(), CTar::x_RestoreAttrs(), x_Return(), COligoSpecificityCheck::x_SavePrimerInfo(), CTSE_ScopeInfo::x_SaveRemoved(), CId2ReaderBase::x_SendID2Packet(), CPSGS_SNPProcessor::x_SendSplitInfo(), CVDBGraphSeqIterator::x_SeqTableIsSmaller(), CSeq_annot_Handle::x_Set(), CBioseq_Base_Info::x_SetAnnot(), x_SetArgs(), CTSE_Info::x_SetBioseq_setId(), CTSE_Info::x_SetBioseqId(), CTSE_Info::x_SetBioseqIds(), CBioseq_set_Info::x_SetChunkBioseqs2(), CFastaReader::x_SetDeflineParseInfo(), CValidator::x_SetEntryInfo(), CFeatTree::x_SetGene(), CFeatTree::x_SetGeneRecursive(), x_SetHostPort(), CSeq_loc_CI_Impl::x_SetId(), CInfoCache_Base::x_SetInfo(), CInfoRequestorLock::x_SetLoadedFor(), CFeatTree::x_SetNoParent(), CBioseq_Info::x_SetObject(), CSeq_annot_Info::x_SetObject(), CSeq_entry_Info::x_SetObject(), CBioseq_set_Info::x_SetObject(), CFeatTree::x_SetParent(), CSeq_loc_I::x_SetSeq_id_Handle(), CScopeInfo_Base::x_SetTSE_Lock(), CInfoCache_Base::x_SetUnused(), x_SetupFromNamerd(), x_SetupHttpProxy(), x_SetupSystemHttpProxy(), CInfoCache_Base::x_SetUsed(), CNetScheduleHandler::x_StatisticsNew(), CSeq_id_int_Tree::x_Unindex(), CSeq_id_Gi_Tree::x_Unindex(), CSeq_id_Textseq_Tree::x_Unindex(), CSeq_id_Local_Tree::x_Unindex(), CSeq_id_General_Tree::x_Unindex(), CSeq_id_Giim_Tree::x_Unindex(), CSeq_id_Patent_Tree::x_Unindex(), CSeq_id_PDB_Tree::x_Unindex(), CTSE_ScopeInfo::x_UnindexBioseq(), CTSE_Lock::x_Unlock(), CDataSource::x_Unmap(), CSeq_annot_Info::x_UnmapAnnotObject(), CTSE_Info::x_UnmapAnnotObject(), CSeq_annot_Info::x_UnmapFeatByGene(), CSeq_annot_Info::x_UnmapFeatById(), CTSE_Info::x_UnmapFeatById(), CTSE_Info::x_UnmapFeatByLocus(), CSeq_annot_Info::x_UnmapFeatIds(), CTSE_Info::x_UnregisterBioObject(), CSNPDb_Impl::x_Update(), CTSE_Chunk_Info::x_UpdateAnnotIndexContents(), CCDDBlobCache::x_UpdateDeadline(), x_UpdateHost(), CSeqGraphicWidget::x_UpdateMarkerInfo(), CSeq_annot_Info::x_UpdateObjectKeys(), x_UpdatePort(), CFeatTree::x_VerifyLinkedToRoot(), CInfoManager::x_WaitForOtherLoader(), CVcfWriter::x_WriteFeatureInfo(), CVcfReader::xProcessMetaLineFilter(), CVcfReader::xProcessMetaLineFormat(), and CVcfReader::xProcessMetaLineInfo().
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Definition at line 39 of file mdb_load.c.
Referenced by BDB_batch_delete_recs(), BDB_iterate_file(), and main().
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Definition at line 28 of file mdb_load.c.
Referenced by badend(), Blast_PerrorEx(), BlastScoreBlkProteinMatrixRead(), main(), readhdr(), readline(), s_ApproxEqual(), SMessageOriginNew(), x_FTPFeatCB(), x_FTPHelpCB(), x_FTPMlsdCB(), x_FTPMlstCB(), x_FTPNegotiateCB(), x_FTPParseReply(), x_FTPRetrieveCB(), x_FTPStatCB(), and xx_LoadLocalIPs().
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Definition at line 24 of file mdb_load.c.
Referenced by main(), readhdr(), and readline().
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Definition at line 33 of file mdb_load.c.
Referenced by badend(), BlastHitList2SeqAlign_OMF(), BOOST_AUTO_TEST_CASE(), CheckMTByQueries_QuerySize(), main(), OffsetArrayToContextOffsets(), PackedSeqLocToMaskedQueryRegions(), PhiBlastResults2SeqAlign_OMF(), CAppPopup::PopupFile(), readhdr(), readline(), CRedoAlignmentTestFixture::runRedoAlignmentCoreUnitTest(), s_AddMask(), s_AdjustFirstContext(), s_BLAST_OneSubjectResults2CSeqAlign(), CBLASTSeqToolJob::s_BlastInterrupt(), CProSplignJob::s_BlastInterrupt(), s_BlastInterruptCallback(), CSplignJob::s_BlastInterruptCallback(), s_BlastResults2SeqAlignDatabaseSearch_OMF(), s_BlastResults2SeqAlignSequenceCmp_OMF(), s_ImportQueries(), s_ImportSearchStrategy(), s_RunBlast2NASeq(), CSplignJob::s_SplignInterruptCallback(), SetupQueries(), SetupQueries_OMF(), SetupQueryInfo(), SetupQueryInfo_OMF(), setupQueryInfoForOffsetTranslation(), setupQueryStructures(), SetupSubjects(), SetupSubjects_OMF(), CMultipleAssemblyProgramPanel::SetValue(), usage(), CFindOverlapJob::x_BlastInterruptCallback(), CConvert2BlastMaskApplication::x_GetWriter(), CSequenceDataTester::x_Init(), CBlastAppArgs::x_IssueWarningsForIgnoredOptions(), and CSplitQueryTestFixture::x_PrepareBlastQueryStructures().
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Definition at line 26 of file mdb_load.c.
Referenced by CNewCleanup_imp::BiosourceBC(), COrgMod::COrgMod(), CFlatOrgModQVal::Format(), CFlatSubSourceQVal::Format(), GetIsStructuredVoucher(), CWriteUtil::GetOrgModSubType(), main(), SRemoveNamedStrain::operator()(), CNewCleanup_imp::OrgmodBC(), CBiosampleChkApp::ProcessOneDirectory(), readhdr(), s_CleanupLatLon(), s_CleanupOrgModAndSubSourceOther_helper(), s_ConvertGtLt(), s_HtmlizeLatLon(), s_ParseValues(), s_ShortenLatLon(), s_TitleFromBioSource(), s_TitleFromSegment(), s_TruncateLatLon(), CValidError_imp::ValidateBioSource(), CAsnvalApp::ValidateOneDirectory(), CValidError_imp::ValidateOrgName(), CValidError_imp::ValidateOrgRef(), CValidError_imp::ValidateSubSource(), CNewCleanup_imp::x_CleanupOrgModAndSubSourceOther(), CAssignQueryTreeGetArgs::x_GetFieldForSubname(), CDeflineGenerator::x_GetModifiers(), CNewCleanup_imp::x_OrgnameModBC(), and CDescrModApply::x_SetOrgMod().
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Definition at line 29 of file mdb_load.c.
Referenced by readhdr().
