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NCBI C++ ToolKit: CDeflineProcess Class Reference

Search Toolkit Book for CDeflineProcess

#include "process_defline.hpp"
(Private to src/app/streamtest.)

Definition at line 39 of file process_defline.hpp.

◆ CDeflineProcess() [1/3] ◆ CDeflineProcess() [2/3] ◆ CDeflineProcess() [3/3] ◆ ~CDeflineProcess() ◆ IndexedProcess() void CDeflineProcess::IndexedProcess ( ) inline

Definition at line 210 of file process_defline.hpp.

References CBioseq_set_Base::eClass_parts, CBioseq_set_Base::eClass_segset, CSeq_inst_Base::eMol_aa, CSeq_inst_Base::eMol_dna, CSeq_inst_Base::eMol_na, CSeq_inst_Base::eMol_rna, CSeq_inst_Base::eRepr_seg, CSeq_inst_Base::eRepr_virtual, ERR_POST, Error(), gen, CBioseq_set_Base::GetClass(), CBioseq_Base::GetInst(), CSeq_inst_Base::GetMol(), CSeq_inst_Base::GetRepr(), CBioseq_set_Base::IsSetClass(), CBioseq_Base::IsSetInst(), CSeq_inst_Base::IsSetMol(), CSeq_inst_Base::IsSetRepr(), CSeqEntryProcess::m_entry, m_flags, CSeqEntryProcess::m_objectcount, m_out, CScopedProcess::m_scope, m_skip_nucleotide, m_skip_protein, m_skip_segmented, m_skip_virtual, CScopedProcess::m_topseh, VISIT_ALL_BIOSEQS_WITHIN_SEQENTRY, VISIT_ALL_SEQSETS_WITHIN_SEQENTRY, CException::what(), and x_FastaSeqIdWrite().

Referenced by SeqEntryProcess().

◆ ProcessFinalize() void CDeflineProcess::ProcessFinalize ( ) inlinevirtual ◆ ProcessInitialize() void CDeflineProcess::ProcessInitialize ( const CArgs & args ) inlinevirtual

Reimplemented from CSeqEntryProcess.

Definition at line 93 of file process_defline.hpp.

References CDeflineGenerator::fGpipeMode, CDeflineGenerator::fIgnoreExisting, NStr::Find(), CDeflineGenerator::fShowModifiers, m_debug, m_flags, m_gpipe_mode, m_out, m_skip_nucleotide, m_skip_protein, m_skip_segmented, m_skip_virtual, m_timer, NPOS, CScopedProcess::ProcessInitialize(), and CStopWatch::Start().

◆ SeqEntryInitialize() virtual void CDeflineProcess::SeqEntryInitialize ( CRef< CSeq_entry > & se ) inlinevirtual ◆ SeqEntryProcess() void CDeflineProcess::SeqEntryProcess ( ) inlinevirtual ◆ UnindexedProcess() void CDeflineProcess::UnindexedProcess ( ) inline

Definition at line 318 of file process_defline.hpp.

References CBioseq_set_Base::eClass_parts, CBioseq_set_Base::eClass_segset, CSeq_inst_Base::eRepr_virtual, ERR_POST, Error(), gen, CBioseq_set_Base::GetClass(), CBioseq_Base::GetInst(), CBioseq::GetParentEntry(), CSeq_entry::GetParentEntry(), CSeq_inst_Base::GetRepr(), CSeq_entry_Base::GetSet(), CSeq_entry_Base::IsSet(), CBioseq_set_Base::IsSetClass(), CBioseq_Base::IsSetInst(), CSeq_inst_Base::IsSetRepr(), CSeqEntryProcess::m_entry, m_flags, CSeqEntryProcess::m_objectcount, m_out, CScopedProcess::m_scope, m_skip_segmented, m_skip_virtual, VISIT_ALL_BIOSEQS_WITHIN_SEQENTRY, CException::what(), and x_FastaSeqIdWrite().

Referenced by SeqEntryProcess().

◆ x_FastaSeqIdWrite() void CDeflineProcess::x_FastaSeqIdWrite ( const CBioseq & bioseq ) inline ◆ m_debug bool CDeflineProcess::m_debug protected ◆ m_do_indexed bool CDeflineProcess::m_do_indexed protected ◆ m_flags ◆ m_gpipe_mode bool CDeflineProcess::m_gpipe_mode protected ◆ m_out ◆ m_skip_nucleotide bool CDeflineProcess::m_skip_nucleotide protected ◆ m_skip_protein bool CDeflineProcess::m_skip_protein protected ◆ m_skip_segmented bool CDeflineProcess::m_skip_segmented protected ◆ m_skip_virtual bool CDeflineProcess::m_skip_virtual protected ◆ m_timer

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

src/app/streamtest/process_defline.hpp

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