NCBI C++ ToolKit
Enumerations | Functions
njn_ioutil.hpp File Reference
#include <corelib/ncbistl.hpp>
#include <sstream>
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Enumerations

enum  Format {
  HUMAN , MACHINE , FORMAT , GENERAL ,
  SYMMETRIC , FORMAT
}
 

Functions

char getTerminator ()
 
void setTerminator (char t_)
 
char clearTerminator ()
 
Format getFormat ()
 
void setFormat (Format format_)
 
Format clearFormat ()
 
void abort ()
 
void abort (const std::string &s_)
 
void abort (const char *s_)
 
std::istream & getLine (std::istream &in_, std::string &str_, const char t_=getTerminator())
 
template<typename T >
std::istream & getString (std::istream &in_, T &value_, std::string &line_, const char t_=getTerminator())
 
std::istream & getLine (std::istream &in_, std::stringstream &sstr_, const char t_=getTerminator())
 
std::istream & in (std::istream &in_, double &x_)
 
std::ostream & operator<< (std::ostream &ostr_, Njn::IoUtil::Format format_)
 
std::istream & operator>> (std::istream &istr_, Njn::IoUtil::Format format_)
 

Enumeration Type Documentation

◆ Format

enum Format
Enumerator
HUMAN 
MACHINE 
FORMAT 
GENERAL 
SYMMETRIC 
FORMAT 

Definition at line 52 of file njn_ioutil.hpp.

Function Documentation

◆ abort() [1/3]

void abort ( )

Referenced by _handleBothAlignedSameResidueNoX(), _handleEitherAlignedEitherX(), _handleEitherAlignedNeitherX(), _handleNeitherAligned(), _mm_clmulepi64_si128(), abort(), Abort(), CServer_ConnectionPool::Add(), boost::assertion_failed(), AssignThreadMemMgr(), CBlastDBSeqId::AsString(), bisection(), BLAST_ContextToFrame(), BLAST_PackDNA(), BOOST_AUTO_TEST_CASE(), CException::CException(), map_checker< std::map< string, string, less< string > > >::check(), multimap_checker< std::multimap< time_t, CFileLoadDescriptor, less< time_t > > >::check(), CheckAllocLeaks(), CompressNcbi2na(), CBlastOptionsFactory::Create(), CBlastOptionsFactory::CreateTask(), CBlastSeqSrcIterator::DebugDump(), DoThrowTraceAbort(), EProgramToTaskName(), CDiscontiguousMegablastArgs::ExtractAlgorithmOptions(), CQueryOptionsArgs::ExtractAlgorithmOptions(), CObjMgr_QueryFactory::ExtractScopes(), CObjMgr_QueryFactory::ExtractUserSpecifiedMasks(), ncbi::grpcapi::dbsnp::primary_track::DbSnpPrimaryTrack::WithAsyncMethod_ForSeqId< BaseClass >::ForSeqId(), ncbi::grpcapi::dbsnp::primary_track::DbSnpPrimaryTrack::ExperimentalWithCallbackMethod_ForSeqId< BaseClass >::ForSeqId(), ncbi::grpcapi::dbsnp::primary_track::DbSnpPrimaryTrack::WithGenericMethod_ForSeqId< BaseClass >::ForSeqId(), ncbi::grpcapi::dbsnp::primary_track::DbSnpPrimaryTrack::WithRawMethod_ForSeqId< BaseClass >::ForSeqId(), ncbi::grpcapi::dbsnp::primary_track::DbSnpPrimaryTrack::ExperimentalWithRawCallbackMethod_ForSeqId< BaseClass >::ForSeqId(), ncbi::grpcapi::dbsnp::primary_track::DbSnpPrimaryTrack::WithStreamedUnaryMethod_ForSeqId< BaseClass >::ForSeqId(), FrameNumber2NetworkFrame(), get_results(), CObjMgr_RemoteQueryData::GetBioseqSet(), CBlastnNodeArgs::GetInputStream(), CBlastpNodeArgs::GetInputStream(), CBlastxNodeArgs::GetInputStream(), CRPSBlastNodeArgs::GetInputStream(), CRPSTBlastnNodeArgs::GetInputStream(), CTblastnNodeArgs::GetInputStream(), CStdCmdLineArgs::GetInputStream(), CBlastInput::GetNextSeqBatch(), CBlastInput::GetNextSeqLocBatch(), GetQueryEncoding(), CObjMgr_LocalQueryData::GetQueryInfo(), CObjMgr_RemoteQueryData::GetSeqLocs(), CObjMgr_LocalQueryData::GetSequenceBlk(), CSeqLocInfo::GetStrand(), GetSubjectEncoding(), CObjMgr_QueryFactory::GetTSeqLocVector(), hunt(), Matrix< T >::in(), Vector< T >::in(), integerPower(), CLocalDbAdapter::IsProtein(), LOG_WriteInternal(), main(), CHspStreamWriteThread::Main(), CAsyncDiagThread::Main(), CLocalDbAdapter::MakeSeqInfoSrc(), CLocalDbAdapter::MakeSeqSrc(), mdb_assert_fail(), mod(), NetworkFrame2FrameNumber(), NetworkProgram2BlastProgramType(), newtonRaphson(), Matrix< T >::out(), CPsiBlastValidate::QueryFactory(), CNCBlobStorage::ReleaseCacheData(), map_checker< std::map< string, string, less< string > > >::RLock(), multimap_checker< std::multimap< time_t, CFileLoadDescriptor, less< time_t > > >::RLock(), set< ETranslationFrame >::RLock(), multiset< TIndexKey, PIndexBySecondLess >::RLock(), CBlastFormatterApp::Run(), CBlastFormatterVdbApp::Run(), CVDBBlastnApp::Run(), CVDBTblastnApp::Run(), map_checker< std::map< string, string, less< string > > >::RUnlock(), multimap_checker< std::multimap< time_t, CFileLoadDescriptor, less< time_t > > >::RUnlock(), set< ETranslationFrame >::RUnlock(), multiset< TIndexKey, PIndexBySecondLess >::RUnlock(), s_Abort(), s_AddMask(), s_AddShift(), s_AllocBigPage(), s_AllocMemory(), s_AllocNewPage(), s_Close_(), s_ComputeStartEndContexts(), s_DeallocMemory(), s_DoFatalAbort(), s_DoMmap(), s_FillFromPage(), s_FreeListAddHead(), s_FreeListAddTail(), s_GetCutoffEvalue(), s_GetEffectiveSearchSpaceForContext(), s_GetKeyCacheData(), s_LOG_FileHandler(), CCassQueryCbRef::s_OnFutureCb(), s_ReleaseToFreePages(), s_SeqDbIteratorNext(), CServer_ConnectionPool::SetAllActive(), CException::SetSeverity(), CPssmInputTestData::SetupHenikoffsPositionBasedSequenceWeights(), SetupQueryInfo_OMF(), test(), verify(), map_checker< std::map< string, string, less< string > > >::WLock(), multimap_checker< std::multimap< time_t, CFileLoadDescriptor, less< time_t > > >::WLock(), set< ETranslationFrame >::WLock(), multiset< TIndexKey, PIndexBySecondLess >::WLock(), map_checker< std::map< string, string, less< string > > >::WUnlock(), multimap_checker< std::multimap< time_t, CFileLoadDescriptor, less< time_t > > >::WUnlock(), set< ETranslationFrame >::WUnlock(), multiset< TIndexKey, PIndexBySecondLess >::WUnlock(), CConcurrentMap< Key, Value, Comparator, Allocator, CntChildsInNode, MaxTreeHeight, DeletionDelay, DelStoreCapacity >::x_AddNewRoot(), CBlobCacher::x_CacheMetaRec(), CQuerySplitter::x_ComputeQueryContextsForChunks(), CBlastUsageReport::x_EUsageParmsToString(), x_FTPAbort(), x_FTPCloseCntl(), CBlastDBAliasApp::x_GetDbsToAggregate(), CPssmEngine::x_InitializeScoreBlock(), CObjMgr_QueryFactory::x_MakeLocalQueryData(), CObjMgr_QueryFactory::x_MakeRemoteQueryData(), CBlastFilterTest::x_TestLowerCaseMaskWith(), and SNCCacheData::~SNCCacheData().

◆ abort() [2/3]

void abort ( const char *  s_)
inline

Definition at line 99 of file njn_ioutil.hpp.

References abort(), and string.

◆ abort() [3/3]

void abort ( const std::string s_)

◆ clearFormat()

MatrixIO::Format MatrixIO::clearFormat ( )

Definition at line 69 of file njn_ioutil.cpp.

References FORMAT, and format.

Referenced by Vector< T >::in(), and Vector< T >::out().

◆ clearTerminator()

char IoUtil::clearTerminator ( )

Definition at line 84 of file njn_ioutil.cpp.

References TERMINATOR, and terminator.

◆ getFormat()

MatrixIO::Format MatrixIO::getFormat ( )

Definition at line 59 of file njn_ioutil.cpp.

References format.

Referenced by Vector< T >::in(), and Vector< T >::out().

◆ getLine() [1/2]

std::istream& getLine ( std::istream &  in_,
std::string str_,
const char  t_ = getTerminator() 
)

◆ getLine() [2/2]

std::istream& getLine ( std::istream &  in_,
std::stringstream &  sstr_,
const char  t_ = getTerminator() 
)

◆ getString()

template<typename T >
std::istream & getString ( std::istream &  in_,
T value_,
std::string line_,
const char  t_ = getTerminator () 
)

Definition at line 105 of file njn_ioutil.hpp.

References getLine(), str(), and string.

◆ getTerminator()

char IoUtil::getTerminator ( )

Definition at line 74 of file njn_ioutil.cpp.

References terminator.

◆ in()

std::istream& in ( std::istream &  in_,
double &  x_ 
)
Examples
/home/coremake/doxygen/cxx/include/corelib/ncbimisc.hpp.

Referenced by _mm_rcp_ps(), _mm_rsqrt_ps(), _mm_rsqrt_ss(), _mm_sqrt_ps(), _mm_sqrt_ss(), CStlClassInfoFunctions< Container >::AddElementIn(), CStlClassInfoFunctions_set< Container >::AddElementIn(), CStlClassInfoFunctions_multiset< Container >::AddElementIn(), CMSPeak::AddHit(), CSubjectMap_Factory_TBase::AddSequenceChunk(), CLinkUtils::AddSequenceLinks(), CBAMDataLoader_Impl::AddSrzDef(), alp_data::alp_data(), CChunkFile::Append(), CSeqIdChunkFile::Append(), ArgToSeq_id(), CTmpFile::AsInputFile(), CDirectCGIExec::Ask(), Asn2gnbkCompressSpaces(), CObjectIStream::AsnIo::AsnIo(), CMSMatchedPeak::Assign(), CDiscrepancyContext::AutofixFile(), std::begin(), ASNParser::BeginComponentsDefinition(), BOOST_AUTO_TEST_CASE(), CObjectIStream::ByteBlock::ByteBlock(), CBAMDataLoader_Impl::CBAMDataLoader_Impl(), CCompressionDictionary::CCompressionDictionary(), DeBruijn::CDBGraph::CDBGraph(), CObjectIStream::CharBlock::CharBlock(), alp_data::check_out_file(), CheckStreamState(), CIStreamClassMemberIterator::CIStreamClassMemberIterator(), CIStreamContainerIterator::CIStreamContainerIterator(), CIStreamObjectIterator< TRoot, TObject >::CIStreamObjectIterator(), CIStreamStdIterator< TRoot, TObject >::CIStreamStdIterator(), CleanAndCompress(), CMsvcMetaMakefile::CMsvcMetaMakefile(), CMsvcSite::CMsvcSite(), CNcbiResourceInfoFile::CNcbiResourceInfoFile(), CObjectIStreamAsn::CObjectIStreamAsn(), CObjectIStreamAsnBinary::CObjectIStreamAsnBinary(), CObjectIStreamJson::CObjectIStreamJson(), CObjectIStreamXml::CObjectIStreamXml(), CFile::CompareTextContents(), CSeqMatch::CompNcbi8na(), ComputeFileChecksum_deprecated(), convert(), CPepXML::ConvertAA(), CObjectOStreamJson::CopyAnyContentObject(), CObjectOStreamXml::CopyAnyContentObject(), CObjectOStreamAsn::CopyBitString(), CObjectOStreamAsnBinary::CopyBitString(), CObjectOStreamXml::CopyBitString(), CInsertAnnotHookId::CopyClassMember(), CInsertAnnotHookAnnot::CopyClassMember(), CObjectOStreamAsn::CopyEnum(), CObjectOStreamAsnBinary::CopyEnum(), CObjectOStreamJson::CopyEnum(), CObjectOStreamXml::CopyEnum(), CObjectOStream::CopyGi(), CObjectOStreamAsn::CopyString(), CObjectOStreamAsnBinary::CopyString(), CObjectOStreamJson::CopyString(), CObjectOStreamXml::CopyString(), CObjectOStreamAsn::CopyStringStore(), CObjectOStreamAsnBinary::CopyStringStore(), CObjectOStreamJson::CopyStringStore(), CObjectOStreamXml::CopyStringStore(), CObjectOStreamAsnBinary::CopyStringValue(), createAnnot(), CreateConfigurableFile(), DTDParser::CreateEntityLexer(), WSDLParser::CreateEntityLexer(), XSDParser::CreateEntityLexer(), CPSG_Blob_Task::CreateLoadedChunks(), CreateMapperFromSeq_locs(), Threader::CreateRcxPtl(), CDirEntry::CreateTmpFile(), CMSResponse::CSVString(), CWriteDB_ConsolidateAliasFiles(), CWriteDB_IsamKey< T >::CWriteDB_IsamKey(), CNcbiEncryptApp::Decrypt(), CReadObjectHook::DefaultRead(), CSkipObjectHook::DefaultRead(), CSkipClassMemberHook::DefaultRead(), CSkipChoiceVariantHook::DefaultRead(), CReadChoiceVariantHook::DefaultRead(), CReadClassMemberHook::DefaultRead(), CReadObjectHook::DefaultSkip(), CSkipObjectHook::DefaultSkip(), CReadChoiceVariantHook::DefaultSkip(), CReadClassMemberHook::DefaultSkip(), CSkipClassMemberHook::DefaultSkip(), CDataChunkStream::DeserializeSplitInfo(), CMatrix4< T >::Determinant(), CRemoteCgiJob::Do(), CPSG_LoadChunk_Task::DoExecute(), CDelayBuffer::DoUpdate(), DSOCK_Bind(), DTDEntityLexer::DTDEntityLexer(), CProcessor_ID2::DumpDataAsText(), CNcbiEncryptApp::Encrypt(), std::end(), CRemoteAppLauncher::ExecRemoteApp(), CPipe::ExecWait(), CPsiBlastArgs::ExtractAlgorithmOptions(), CPhiBlastArgs::ExtractAlgorithmOptions(), ExtractBlast4Request(), CDiagFilter::Fill(), CAlignCollapser::FilterAlignments(), CFormatGuess::Format(), FromArrayString(), CWsdlTypeStrings::GenerateClassCode(), CCodeGenerator::GenerateCvsignore(), std::get(), CRemoteAppVersion::Get(), CProjectsLstFileFilter::GetAllowedTagsInfo(), CPSGDataLoader_Impl::GetBlobDataStream(), CPSGDataLoader_Impl::GetCDDAnnotsOnce(), CLDS2_DataLoader::GetChunk(), CReadBlastApp::getCoreDataType(), CSeqDB::GetDate(), CShowBlastDeflineTest::GetDeflineInfo(), CLDS2_UrlHandler_Base::GetFileFormat(), CNCServer::GetHostLocation(), CNCServer::GetHostRole(), CPSG_NamedAnnotInfo::GetId2AnnotInfoList(), pub_report::CPubReportApp::GetInputStream(), GetIStream(), CDictionaryUtil::GetMetaphone(), CType< C >::GetParent(), CType_Base::GetParentObjectPtr(), CBlastSeqidlistFile::GetSeqidlistInfo(), CDictionaryUtil::GetSoundex(), CAlignFormatUtil::GetURLFromRegistry(), grep_or_recurse(), GroupByTest(), IdentifySlnGUID(), CCdFromFasta::ImportAlignmentData(), inflate(), inflate_fast(), inflate_fast_chunk_(), inflateSync(), CTbl2AsnApp::Init(), CProjectsLstFileFilter::InitFromFile(), CInsertAnnotHookAnnot::InsertAnnot(), iosbase2BDB(), IsIStreamEmpty(), IsProducedByDatatool(), CSeqMatch::IupacToNcbi8na(), DeBruijn::CKmerCountTemplate< LargeInt< 1 >, LargeInt< 2 >, LargeInt< 4 >, LargeInt< 8 >, LargeInt< 16 > >::Load(), bm::load_vector(), CSeq_id::LoadAccessionGuide(), LoadAligns(), LoadBVDump(), bm::LoadBVector(), CCodeGenerator::LoadConfig(), LoadDataOnly(), CAlnVwrApp::LoadDenseg(), CProjBulderApp::LoadDepGraph(), CFileLoader::LoadFile(), CGBDocument::LoadFile(), CSimpleMakeFileContents::LoadFrom(), CMultiReader::LoadGFF3Fasta(), CPubseqReader::LoadGiSeq_ids(), CSimpleMakeFileContents::SParser::LoadInclude(), CAlnTestApp::LoadInputAlns(), CAlnBuildApp::LoadInputAlns(), CAlnMrgApp::LoadInputAlns(), CPairwiseAlnApp::LoadInputAlns(), CProjBulderApp::LoadProjectTags(), CRedoAlignmentTestFixture::loadPssmFromFile(), LoadRegistry(), CStdAnnotTypes::LoadTypes(), main(), mbedtls_ssl_check_dtls_clihlo_cookie(), MD4Transform(), MD5Transform(), MergeAnnot(), MergeExternal(), MergeFromFile(), CFileCode::ModifiedByUser(), CMonitoredProcessWatcher::MonitorRun(), NCBI_PARAM_DEF_EX(), odbc_find_last_socket(), odbc_read_login_info(), CMacroFlowEditor::OnSaveCopies(), CGenBankUIDataSource::Open(), CLZOCompressionFile::Open(), CBDB_ExtBlobStore< TBV >::Open(), CGeneFileUtils::OpenBinaryInputFile(), CMultiReader::OpenFile(), CSeqIdChunkFile::OpenForRead(), CChunkFile::OpenForRead(), CLDS2_UrlHandler_File::OpenStream(), CLDS2_UrlHandler_GZipFile::OpenStream(), CGeneFileUtils::OpenTextInputFile(), CMSHit::operator=(), operator>>(), CSeq_annot_SNP_Info_Reader::Parse(), CDiagLexParser::Parse(), CDiagSyntaxParser::Parse(), CSeq_annot_SNP_Info_Reader::ParseAnnot(), SDiagMessage::ParseDiagStream(), CNcbiResourceInfoFile::ParsePlainTextFile(), CMakefilePatch::PatchTreeMakefiles(), pcregrep(), CSeq_graph::CReserveHook::PreReadChoiceVariant(), CSeqTable_multi_data::CReserveHook::PreReadChoiceVariant(), CHttpSessionApp::PrintResponse(), CDiagContext::PrintStart(), SDataOnlyCopy::Process(), CSplitCacheApp::Process(), ProcessBigFile(), CAsnvalThreadState::ProcessBSSReleaseFile(), CDataTool::ProcessData(), CBam2GraphApp::ProcessFile(), subfuse::CSubmissionCollector::ProcessFile(), CCgiRequestProcessor::ProcessHelpRequest(), CCassConnectionFactory::ProcessParams(), CAsnvalThreadState::ProcessSSMReleaseFile(), ProcessStream(), PromoteIfDifferent(), DTDParser::PushEntityLexer(), SBamHeaderRefInfo::Read(), SBamAlignInfo::Read(), CBamIndex::Read(), CPhrap_Seq::Read(), CPhrap_Read::Read(), CPhrap_Contig::Read(), SBamIndexBinInfo::Read(), SBamIndexRefIndex::Read(), CGFFReader::Read(), CSoapMessage::Read(), Read(), CVoidTypeFunctions::Read(), CTimeFunctions::Read(), CNullFunctions::Read(), CPrimitiveTypeFunctions< ncbi::CAnyContentObject >::Read(), CStringFunctions< string >::Read(), CStringStoreFunctions::Read(), CCharVectorFunctions< Char >::Read(), CAnyContentFunctions::Read(), CNullBoolFunctions::Read(), CConversionApp::Read(), CJson_Document::Read(), CBDB_Cache::Read(), Ctbl_seg::Read(), Ctbl_feat::Read(), Ctbl::Read(), bm::read_dump_file(), read_login_info(), alp_data::read_RR(), alp_data::read_smatr(), CAliasTypeInfoFunctions::ReadAliasDefault(), ReadASNFromFile(), CAutoPointerTypeInfo::ReadAutoPtr(), CPhrap_Contig::ReadBaseQualities(), CPhrap_Contig::ReadBaseSegment(), ReadCD(), CChoiceTypeInfoFunctions::ReadChoiceDefault(), CChoiceTypeInfoFunctions::ReadChoiceSimple(), CPackStringChoiceHook::ReadChoiceVariant(), CPreReadChoiceVariantHook::ReadChoiceVariant(), CReadSeqSetHook::ReadClassMember(), CSkipReadClassMemberHook::ReadClassMember(), CAsnvalThreadState::ReadClassMember(), CBiosampleChkApp::ReadClassMember(), CDenseSegReserveStartsHook::ReadClassMember(), CDenseSegReserveLensHook::ReadClassMember(), CDenseSegReserveStrandsHook::ReadClassMember(), CReadSharedScoreIdHook::ReadClassMember(), CPackStringClassHook::ReadClassMember(), CGBReleaseFileImpl::ReadClassMember(), CPreReadClassMemberHook::ReadClassMember(), CReadSetHook::ReadClassMember(), CReadBioseqsetClassHook::ReadClassMember(), CReadSubmitBlockHook::ReadClassMember(), CReadCMHook_Date_std__year::ReadClassMember(), CClassTypeInfo::ReadClassRandom(), CClassTypeInfo::ReadClassSequential(), CSearchHelper::ReadCompleteSearch(), CObjectInfo::ReadContainer(), CContainerTypeInfo::ReadContainer(), CPhrap_Seq::ReadData(), CColumnarVCFReader::ReadData(), CVariantInfoFunctions::ReadDelayedVariant(), CPhrap_Read::ReadDS(), CEnumeratedTypeInfo::ReadEnum(), ReadFasta(), ReadFastaSeqsFromFile(), CGeneFileUtils::ReadGeneInfo(), CColumnarVCFReader::ReadHeader(), CImageIO::ReadImage(), CImageIO::ReadImageInfo(), CClassTypeInfo::ReadImplicitMember(), CVariantInfoFunctions::ReadInlineVariant(), ReadLine(), CMemberInfoFunctions::ReadLongMember(), CReadClassMemberHook::ReadMissingClassMember(), CMemberInfoFunctions::ReadMissingParentClass(), CMemberInfoFunctions::ReadMissingSimpleMember(), CRelation::ReadObject(), CFormatReadHook::ReadObject(), CReadHook_SkipError::ReadObject(), CReadEntryHook::ReadObject(), CCleanupReadBioseqSetHook::ReadObject(), COffsetReadHook::ReadObject(), CSoapReadHook::ReadObject(), CLambdaReadHook< _T >::ReadObject(), CSerial_FilterReadObjectsHook< TObject >::ReadObject(), CPreReadHook::ReadObject(), CPostReadHook::ReadObject(), CObjectIStreamIterator< TRoot, TChild >::x_CObjectIStreamIteratorReadHook< TR >::ReadObject(), CDemoHook::ReadObject(), TestUtil::ReadObject(), CVariantInfoFunctions::ReadObjectPointerVariant(), COctetStringTypeInfo::ReadOctetString(), COldAsnTypeInfo::ReadOldAsnStruct(), CMemberInfoFunctions::ReadParentClass(), CReadBlastApp::ReadParents(), ReadPhrap(), CPointerTypeInfo::ReadPointer(), CVariantInfoFunctions::ReadPointerVariant(), CReadBlastApp::ReadPreviousAcc(), CPhrap_Read::ReadQuality(), CPhrap_Contig::ReadReadLocation(), CGeneFileUtils::ReadRecord(), CCDDClient::ReadReply(), CRPCClient< CGBenchServiceRequest, CGBenchServiceReply >::ReadReply(), CID2Client::ReadReply(), CSearchHelper::ReadSearchRequest(), CSequenceOfTypeInfoFunctions::ReadSequence(), UpdateViewer::ReadSequencesFromFile(), ReadSequencesToBlast(), CReadSharedObjectIdHookBase::ReadSharedObject_id(), CMemberInfoFunctions::ReadSimpleMember(), ReadStdSigned(), ReadStdUnsigned(), CPackString::ReadString(), CVariantInfoFunctions::ReadSubclassVariant(), CImageIO::ReadSubImage(), CPhrap_Read::ReadTag(), CPhrap_Contig::ReadTag(), CPhrap_Sequence::ReadTag(), CReadBlastApp::ReadTagMap(), ReadTestData(), CColumnarVCFReader::ReadVariantsForChrs(), CMemberInfoFunctions::ReadWithDefaultMemberX(), CMemberInfoFunctions::ReadWithSetFlagMember(), FileMessenger::ReceiveCommands(), RecoverSearchStrategy(), CLayoutTrack::RegisterIconImage(), CHugeFileValidator::RegisterReaderHooks(), CPIDGuard::Release(), CMetaRegistry::SEntry::Reload(), CCassConnectionFactory::ReloadConfig(), CReadresult::Run(), CNcbiApplogApp::Run(), pub_report::CPubReportApp::Run(), CCompartmentFinder< THit >::Run(), CReleaseFilePresenter::Run(), CAVApp::Run(), CBlastInputDemoApplication::Run(), CTest::Run(), CId2FetchApp::Run(), CDemoApp::Run(), CReadBlastApp::Run(), CSampleAlnmgrApplication::Run(), CSampleObjectsApplication::Run(), CBssInfoApp::Run(), CProcessHighestSeObjs::Run(), CAsn2Asn::RunAsn2Asn(), CDbapiTestSpeedApp::RunSample(), CMacroFlowEditor::RunScriptStandalone(), s_Accept(), s_BlastKmerLoadBadMers(), s_Connect_(), s_CopyVector(), s_CreateListening(), s_CreateOnTop(), s_EscapeColon(), s_GetMakefileIncludes(), s_GetTaxIDList(), variation::CHgvsParser::s_hgvsaa2ncbieaa(), s_ImportSearchStrategy(), s_InitializeStructuredCommentRules(), s_IsIStreamEmpty(), s_LoadConfFile(), s_LookForOidlistInAliasFile(), s_ParsePDB(), s_Read(), s_ReadAAIndex(), s_ReadFilePos(), s_ReadFileRange(), s_ReadInt32(), s_ReadLinesFromFile(), s_ReadMagic(), s_ReadString(), s_ReadUInt32(), s_ReadUInt64(), s_RemoveAliasComponents(), s_RestoreColon(), CAlignShadow::s_RunLengthDecode(), CAlignShadow::s_RunLengthEncode(), s_Tee(), s_TestStdSegGaps(), s_UpdateVolumesInAliasFile(), CLDS2_UrlHandler_GZipFile::SaveChunks(), search_interface_file(), CPushback_Streambuf::seekoff(), CRWStreambuf::seekoff(), CConn_Streambuf::seekoff(), SeqAnnotSet_Pre(), Serial_FilterObjects(), Serial_FilterSkip(), Serial_FilterStdObjects(), compile_time_bits::bitset_traits< _Ty, _Size, u_type >::set_bits(), CDenseSegReserveStartsHook::SetHook(), CDenseSegReserveLensHook::SetHook(), CDenseSegReserveStrandsHook::SetHook(), CReadSharedScoreIdHook::SetHook(), CCgiRequestProcessor::SetInputStream(), CFeatureCreateDialog::SetIO(), CVariantInfo::SetPathReadHook(), CMemberInfo::SetPathReadHook(), CObjectTypeInfoMI::SetPathReadHook(), CTypeInfo::SetPathReadHook(), CVariantInfo::SetPathSkipHook(), CMemberInfo::SetPathSkipHook(), CTypeInfo::SetPathSkipHook(), CDense_seg::SetReserveHooks(), CProcessor::SetSeqEntryReadHooks(), CProcessor::SetSNPReadHooks(), NuclWordFinderTextFixture::setupSequenceOffsets(), CVoidTypeFunctions::Skip(), CTimeFunctions::Skip(), CNullFunctions::Skip(), CPrimitiveTypeFunctions< ncbi::CAnyContentObject >::Skip(), CNullBoolFunctions::Skip(), CStringFunctions< string >::Skip(), CStringStoreFunctions::Skip(), CCharVectorFunctionsBase::Skip(), CAnyContentFunctions::Skip(), CAliasTypeInfoFunctions::SkipAliasDefault(), CAutoPointerTypeInfo::SkipAutoPtr(), CChoiceTypeInfoFunctions::SkipChoiceDefault(), CChoiceTypeInfoFunctions::SkipChoiceSimple(), CDemoHook::SkipChoiceVariant(), CLDS2_BioseqSet_Hook::SkipClassMember(), CLDS2_BioseqIds_Hook::SkipClassMember(), CReadInSkipClassMemberHook< Member >::SkipClassMember(), pub_report::CSkipSeqIdHook::SkipClassMember(), CDemoHook::SkipClassMember(), CClassTypeInfo::SkipClassRandom(), CClassTypeInfo::SkipClassSequential(), CContainerTypeInfo::SkipContainer(), CEnumeratedTypeInfo::SkipEnum(), CClassTypeInfo::SkipImplicitMember(), CMemberInfoFunctions::SkipMissingParentClass(), CMemberInfoFunctions::SkipMissingSimpleMember(), CVariantInfoFunctions::SkipNonObjectVariant(), CLDS2_Seq_id_Hook::SkipObject(), CLDS2_AnnotType_Hook::SkipObject(), CLDS2_AnnotDesc_Hook::SkipObject(), CLDS2_Annot_Hook::SkipObject(), CLDS2_SeqEntry_Hook::SkipObject(), pub_report::CSkipPubJournalHook::SkipObject(), pub_report::CSkipSeqEntryHook::SkipObject(), pub_report::CSkipPubUnpublishedHook::SkipObject(), CDemoHook::SkipObject(), CHookSeq_annot__Seq_annot::SkipObject(), CHookSeq_annot__Seq_id::SkipObject(), CHookSeq_entry__Skip::SkipObject(), CHookSeq_entry__Skip__Seq_annot::SkipObject(), CHookSeq_entry__Skip__Seq_id::SkipObject(), CReadInSkipObjectHook< Object >::SkipObject(), CInsertAnnotHookCopy::SkipObject(), CSerial_FilterObjectsHook< TObject >::SkipObject(), CObjectIStreamIterator< TRoot >::CData::x_CObjectIStreamIteratorHook< TR >::SkipObject(), CVariantInfoFunctions::SkipObjectPointerVariant(), COctetStringTypeInfo::SkipOctetString(), CMemberInfoFunctions::SkipParentClass(), CPointerTypeInfo::SkipPointer(), CMemberInfoFunctions::SkipSimpleMember(), CMemberInfoFunctions::SkipWithDefaultMemberX(), sReadAA_I(), sReadAA_M(), string_to_datetime(), CParamParser< TDescription, TParam >::StringToValue(), UnalignedSegReader::subtractSeg(), sx_AddAnnotBytes(), sx_AddDescrBytes(), CCompartmentFinder< THit >::sx_XFilter(), tds_get_locale(), tds_read_conf_section(), tds_read_conf_sections(), tds_try_conf_file(), test_chr21(), test_kmers(), TestMapper_ExonPartsOrder(), TestMapper_Fuzz(), TestMapper_Sequence_Info(), TestMapper_Trimming(), TestMapper_TruncatedMix(), TestMapping_AlignmentsToParts(), TestMapping_Dendiag(), TestMapping_Denseg(), TestMapping_Graph(), TestMapping_Merging(), TestMapping_NucToProt(), TestMapping_Order(), TestMapping_ProtToNuc(), TestMapping_Scores(), TestMapping_Simple(), TestMapping_Spliced(), TestMapping_ThroughAlignments(), TestMapping_ThroughMix(), TestMappingSeq_align(), TestMappingSeq_align_Exception(), TestMappingSeq_graph(), TestMappingSeq_graph_Exception(), TestMappingSeq_loc(), TestMappingSeq_loc_Exception(), TestSimpleAlignment(), CMacroPanelLoader::ToArrayString(), ToArrayString(), CNetCacheWriter::TransmitImpl(), ttbi(), UncomressAndCreate(), CMemberInfo::UpdateDelayedBuffer(), CVariantInfo::UpdateDelayedBuffer(), CPIDGuard::UpdatePID(), CJson_Schema::Validate(), VCF_des_test(), CVecscreenTest::VecscreenDisplay(), CJson_Document::Walk(), CMsvcConfigure::WriteBuildVer(), CFileDataProvider::WriteData(), CMsvcConfigure::WriteNcbiconfMsvcSite(), WSDLEntityLexer::WSDLEntityLexer(), CObjectIStreamIterator< TRoot >::CData::x_AcceptData(), CTar::x_AppendFile(), CAsn2FastaApp::x_BatchProcess(), CLDS2_Database::x_BlobToSeq_id(), CBlastUsageReport::x_CheckRunEnv(), x_CleanAndCompress(), CCompression::x_CompressFile(), CDataMiningPanel::x_CreateFeature(), CBDB_Cache::x_CreateOverflowReader(), CAsn2FlatApp::x_GenerateBatchMode(), CBlastDBAliasApp::x_GetDbsToAggregate(), CWriteDB_IsamKey< T >::x_GetNextKey(), CSDB_ConnectionParam::x_GetPassword(), CBamUILoadManager::x_GetSrzRefSeqs(), CBlastVdbCmdApp::x_InitApplicationData(), CUnicodeToAsciiTranslation::x_Initialize(), CLDS2_Manager::x_IsGZipFile(), SAccGuide::x_Load(), CLDS2_DataLoader::x_LoadFastaTSE(), CGBProjectTool::x_LoadGeneralData(), CNcbiEncrypt::x_LoadKeys(), seqmasks_io_fixture::x_LoadMaskedBioseq(), CBamRefSeqInfo::x_LoadRangesCov(), CLDS2_DataLoader::x_LoadTSE(), CProjectService::x_LoadWorkspace(), CCgiApplication::x_OnEvent(), SourceFile::x_Open(), CTar::x_Open(), CArg_InputFile::x_Open(), CArg_IOFile::x_Open(), CProcessor_ID2::x_OpenDataStream(), CRowReader< TTraits >::x_OpenFile(), CLDS2_Manager::x_ParseFile(), CDiscRepApp::x_ProcessFile(), CCleanupApp::x_ProcessOneFile(), CCompartApp::x_RankAndStore(), CCgiWatchFile::x_Read(), CCompoundRWRegistry::x_Read(), CGeneFileWriter::x_ReadAndProcessFile(), CPSGDataLoader_Impl::x_ReadBlobData(), CPSGDataLoader_Impl::x_ReadCDDChunk(), CProcessor_ID2::x_ReadData(), CGFFReader::x_ReadFastaSequences(), CGapStatsApplication::x_ReadFileOrAccn(), CAppHitFilter::x_ReadInputHits(), CRPCClient< CGBenchServiceRequest, CGBenchServiceReply >::x_ReadReply(), CId1Reader::x_ReceiveReply(), CId2Reader::x_ReceiveReply(), CWorkspaceAutoSaver::x_RestoreWorkspace(), CHugeAsnReader::x_SetBioseqHooks(), CCleanupHugeAsnReader::x_SetBioseqHooks(), CReadEntryHook::x_SetBioseqsetHook(), CHugeAsnReader::x_SetBioseqSetHooks(), CCleanupHugeAsnReader::x_SetBioseqSetHooks(), CHugeAsnReader::x_SetFeatIdHooks(), CHugeAsnReader::x_SetHooks(), CCleanupHugeAsnReader::x_SetSeqFeatHooks(), CJson_WalkHandler::x_SetSource(), CBLASTDatabases::x_UpdateDbMap(), CMakeProfileDBApp::x_WrapUpDelta(), CMultiReader::xGetAnnotLoader(), seqsubmit_split::CSeqSubSplitter::xInitInputStream(), and XSDEntityLexer::XSDEntityLexer().

◆ operator<<()

std::ostream & operator<< ( std::ostream &  ostr_,
Njn::IoUtil::Format  format_ 
)
inline

Definition at line 130 of file njn_ioutil.hpp.

References setFormat().

◆ operator>>()

std::istream & operator>> ( std::istream &  istr_,
Njn::IoUtil::Format  format_ 
)
inline

Definition at line 136 of file njn_ioutil.hpp.

References setFormat().

◆ setFormat()

void MatrixIO::setFormat ( Format  format_)

Definition at line 64 of file njn_ioutil.cpp.

References format.

Referenced by operator<<(), and operator>>().

◆ setTerminator()

void IoUtil::setTerminator ( char  t_)

Definition at line 79 of file njn_ioutil.cpp.

References terminator.

Modified on Wed Apr 17 13:10:34 2024 by modify_doxy.py rev. 669887