| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/writers/ |
| H A D | src_writer.hpp | 108 ILineErrorListener* = 0);
119 ILineErrorListener* = 0);
135 virtual bool xGatherId(CBioseq_Handle, ILineErrorListener* =0);
136 virtual bool xGatherGi(CBioseq_Handle, ILineErrorListener* =0);
137 virtual bool xGatherLocalId(CBioseq_Handle, ILineErrorListener* = 0);
138 virtual bool xGatherBankitId(CBioseq_Handle, ILineErrorListener* = 0);
139 virtual bool xGatherDefline(CBioseq_Handle, ILineErrorListener* =0);
140 virtual bool xTryDefaultId(const string& id, ILineErrorListener* =0);
144 virtual bool xGatherTaxname(const CBioSource&, const string&, ILineErrorListener* =0);
147 virtual bool xGatherOrigin(const CBioSource&, const string&, ILineErrorListener* =0);
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/readers/ |
| H A D | reader_base.hpp | 50 class ILineErrorListener;
137 ILineErrorListener* pErrors=0 );
249 ILineErrorListener*);
254 ILineErrorListener*);
307 ILineErrorListener*);
327 ILineErrorListener* );
332 ILineErrorListener* );
337 ILineErrorListener* );
342 ILineErrorListener* );
347 ILineErrorListener*);
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| H A D | bed_reader.hpp | 172 ILineErrorListener*);
180 ILineErrorListener*);
185 ILineErrorListener*);
190 ILineErrorListener*);
195 ILineErrorListener*);
200 ILineErrorListener*);
206 ILineErrorListener*);
212 ILineErrorListener*);
218 ILineErrorListener*);
224 ILineErrorListener*);
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| H A D | readfeat.hpp | 52 class ILineErrorListener;
81 ILineErrorListener* pErrors=0);
89 CRef<CSerialObject> ReadObject (ILineReader &lr, ILineErrorListener *pErrors) override;
99 ILineErrorListener* pMessageListener=0,
105 ILineErrorListener* pMessageListener=0,
112 ILineErrorListener* pMessageListener=0,
119 ILineErrorListener* pMessageListener=0,
127 ILineErrorListener* pMessageListener=0,
133 ILineErrorListener* pMessageListener=0,
140 ILineErrorListener* pMessageListener = 0,
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| H A D | fasta.hpp | 69 class ILineErrorListener;
141 virtual CRef<CSeq_entry> ReadOneSeq(ILineErrorListener * pMessageListener = 0);
223 ILineErrorListener* pMessageListener);
232 virtual void ParseDefLine (const TStr& s, ILineErrorListener * pMessageListener);
251 virtual void AssembleSeq (ILineErrorListener * pMessageListener);
252 virtual void AssignMolType (ILineErrorListener * pMessageListener);
256 ILineErrorListener * pMessageListener) const;
257 virtual void PostWarning(ILineErrorListener * pMessageListener,
275 void CloseGap(bool atStartOfLine=true, ILineErrorListener * pMessageListener = 0) { in CloseGap()
314 ILineErrorListener* pMessageListener);
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| H A D | gff3_reader.hpp | 108 ILineErrorListener* pErrors=nullptr) override;
130 ILineErrorListener*) override;
140 ILineErrorListener*);
144 ILineErrorListener*);
150 ILineErrorListener*);
156 ILineErrorListener*);
162 ILineErrorListener*);
168 ILineErrorListener*);
174 ILineErrorListener*);
222 ILineErrorListener*) override;
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| H A D | fasta_reader_utils.hpp | 99 ILineErrorListener* pMessageListener);
109 ILineErrorListener* pMessageListener);
113 ILineErrorListener* listener)>;
122 ILineErrorListener* pMessageListener);
127 ILineErrorListener* pMessageListener,
133 ILineErrorListener* pMessageListener);
140 ILineErrorListener* pMessageListener,
156 ILineErrorListener* listener);
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| H A D | gvf_reader.hpp | 56 ILineErrorListener* pEC = nullptr): in CGvfReadRecord()
73 ILineErrorListener* mpMessageListener;
93 ILineErrorListener* = nullptr ) override;
110 ILineErrorListener*) override;
122 ILineErrorListener*);
155 ILineErrorListener*);
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| H A D | gff2_reader.hpp | 92 ILineErrorListener* =nullptr) override;
97 ILineErrorListener* =nullptr) override;
103 ILineErrorListener* =nullptr) override;
109 ILineErrorListener* =nullptr) override;
140 ILineErrorListener*);
189 ILineErrorListener* =0);
194 ILineErrorListener* =0);
314 ILineErrorListener* m_pErrors;
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| H A D | idmapper.hpp | 72 ILineErrorListener* pErrors = 0 );
119 ILineErrorListener* m_pErrors;
245 ILineErrorListener* pErrors = 0);
249 ILineErrorListener* pErrors = 0);
291 ILineErrorListener* pErrors = 0 );
329 ILineErrorListener* pErrors = 0) in CIdMapperDatabase()
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/readers/ |
| H A D | reader_base.hpp | 50 class ILineErrorListener;
137 ILineErrorListener* pErrors=0 );
249 ILineErrorListener*);
254 ILineErrorListener*);
307 ILineErrorListener*);
327 ILineErrorListener* );
332 ILineErrorListener* );
337 ILineErrorListener* );
342 ILineErrorListener* );
347 ILineErrorListener*);
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| H A D | bed_reader.hpp | 172 ILineErrorListener*);
180 ILineErrorListener*);
185 ILineErrorListener*);
190 ILineErrorListener*);
195 ILineErrorListener*);
200 ILineErrorListener*);
206 ILineErrorListener*);
212 ILineErrorListener*);
218 ILineErrorListener*);
224 ILineErrorListener*);
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| H A D | readfeat.hpp | 52 class ILineErrorListener;
81 ILineErrorListener* pErrors=0);
89 CRef<CSerialObject> ReadObject (ILineReader &lr, ILineErrorListener *pErrors) override;
99 ILineErrorListener* pMessageListener=0,
105 ILineErrorListener* pMessageListener=0,
112 ILineErrorListener* pMessageListener=0,
119 ILineErrorListener* pMessageListener=0,
127 ILineErrorListener* pMessageListener=0,
133 ILineErrorListener* pMessageListener=0,
140 ILineErrorListener* pMessageListener = 0,
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| H A D | fasta.hpp | 69 class ILineErrorListener;
141 virtual CRef<CSeq_entry> ReadOneSeq(ILineErrorListener * pMessageListener = 0);
223 ILineErrorListener* pMessageListener);
232 virtual void ParseDefLine (const TStr& s, ILineErrorListener * pMessageListener);
251 virtual void AssembleSeq (ILineErrorListener * pMessageListener);
252 virtual void AssignMolType (ILineErrorListener * pMessageListener);
256 ILineErrorListener * pMessageListener) const;
257 virtual void PostWarning(ILineErrorListener * pMessageListener,
275 void CloseGap(bool atStartOfLine=true, ILineErrorListener * pMessageListener = 0) { in CloseGap()
314 ILineErrorListener* pMessageListener);
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| H A D | gff3_reader.hpp | 108 ILineErrorListener* pErrors=nullptr);
126 ILineErrorListener*);
136 ILineErrorListener*);
140 ILineErrorListener*);
146 ILineErrorListener*);
152 ILineErrorListener*);
158 ILineErrorListener*);
164 ILineErrorListener*);
170 ILineErrorListener*);
218 ILineErrorListener*);
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| H A D | fasta_reader_utils.hpp | 99 ILineErrorListener* pMessageListener);
109 ILineErrorListener* pMessageListener);
113 ILineErrorListener* listener)>;
122 ILineErrorListener* pMessageListener);
127 ILineErrorListener* pMessageListener,
133 ILineErrorListener* pMessageListener);
140 ILineErrorListener* pMessageListener,
156 ILineErrorListener* listener);
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| H A D | gvf_reader.hpp | 56 ILineErrorListener* pEC = 0): in CGvfReadRecord()
73 ILineErrorListener* mpMessageListener;
93 ILineErrorListener* = nullptr );
110 ILineErrorListener*);
122 ILineErrorListener*);
155 ILineErrorListener*);
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| H A D | gff2_reader.hpp | 92 ILineErrorListener* =nullptr);
97 ILineErrorListener* =nullptr);
103 ILineErrorListener* =nullptr);
109 ILineErrorListener* =nullptr);
140 ILineErrorListener*);
189 ILineErrorListener* =0);
194 ILineErrorListener* =0);
314 ILineErrorListener* m_pErrors;
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/readers/ |
| H A D | reader_base.cpp | 221 ILineErrorListener* pEL) in ReadSeqAnnot()
272 ILineErrorListener* pEL) in xGuardedGetData()
294 ILineErrorListener* pEL) in xGuardedProcessData()
380 ILineErrorListener* ) in ReadSeqEntry() argument
391 ILineErrorListener* pContainer ) in ProcessError()
413 ILineErrorListener* pContainer ) in ProcessWarning()
431 ILineErrorListener* pContainer ) in ProcessError()
603 ILineErrorListener* pML) in xAddConversionInfo()
655 ILineErrorListener* pProgress) in xReportProgress()
789 ILineErrorListener* pEL) in xProcessReaderMessage()
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| H A D | fasta_reader_utils.cpp | 55 static void s_PostError(ILineErrorListener* pMessageListener, in s_PostError()
85 static void s_PostWarning(ILineErrorListener* pMessageListener, in s_PostWarning()
126 ILineErrorListener* pMessageListener) in ParseDefline()
139 ILineErrorListener* pMessageListener) in ParseDefline()
149 ILineErrorListener* pMessageListener, in ParseDefline()
233 ILineErrorListener * pMessageListener) in ParseRange()
279 CIdErrorReporter(ILineErrorListener* pMessageListener, bool ignoreGeneralParsingError=false);
288 ILineErrorListener* m_pMessageListener = nullptr;
337 ILineErrorListener* pMessageListener, in x_ProcessIDs()
415 ILineErrorListener* pMessageListener) in ParseIDs()
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/readers/ |
| H A D | reader_base.cpp | 221 ILineErrorListener* pEL) in ReadSeqAnnot()
272 ILineErrorListener* pEL) in xGuardedGetData()
294 ILineErrorListener* pEL) in xGuardedProcessData()
380 ILineErrorListener* ) in ReadSeqEntry() argument
391 ILineErrorListener* pContainer ) in ProcessError()
413 ILineErrorListener* pContainer ) in ProcessWarning()
431 ILineErrorListener* pContainer ) in ProcessError()
603 ILineErrorListener* pML) in xAddConversionInfo()
655 ILineErrorListener* pProgress) in xReportProgress()
789 ILineErrorListener* pEL) in xProcessReaderMessage()
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| H A D | fasta_reader_utils.cpp | 55 static void s_PostError(ILineErrorListener* pMessageListener, in s_PostError()
85 static void s_PostWarning(ILineErrorListener* pMessageListener, in s_PostWarning()
126 ILineErrorListener* pMessageListener) in ParseDefline()
139 ILineErrorListener* pMessageListener) in ParseDefline()
149 ILineErrorListener* pMessageListener, in ParseDefline()
292 ILineErrorListener * pMessageListener) in ParseRange()
338 CIdErrorReporter(ILineErrorListener* pMessageListener, bool ignoreGeneralParsingError=false);
347 ILineErrorListener* m_pMessageListener = nullptr;
396 ILineErrorListener* pMessageListener, in x_ProcessIDs()
474 ILineErrorListener* pMessageListener) in ParseIDs()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/table2asn/ |
| H A D | fasta_ex.hpp | 16 class ILineErrorListener;
31 void AssignMolType(objects::ILineErrorListener * pMessageListener) override;
32 void AssembleSeq(objects::ILineErrorListener * pMessageListener) override;
33 … virtual CRef<objects::CSeq_entry> ReadDeltaFasta(objects::ILineErrorListener * pMessageListener);
44 void Open(CHugeFile* file, objects::ILineErrorListener * pMessageListener) override;
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| H A D | src_quals.hpp | 14 class ILineErrorListener;
31 ILineErrorListener* pEC,
48 CMemorySrcFileMap(ILineErrorListener* pEC) in CMemorySrcFileMap()
63 ILineErrorListener* m_pEC;
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/misc/hgvs/ |
| H A D | hgvs_reader.hpp | 74 ILineErrorListener* =0 );
79 ILineErrorListener* =0 );
85 ILineErrorListener* =0 );
91 ILineErrorListener* =0 );
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