/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/edit/ |
H A D | external_annots.cpp | 100 CRef<CSeq_annot> CAnnotGetter::x_GetCompleteSeqAnnot(const CSeq_annot_Handle& annot_handle) in x_GetCompleteSeqAnnot() argument 102 CConstRef<CSeq_annot> annot = annot_handle.GetCompleteSeq_annot(); in x_GetCompleteSeqAnnot() 123 CFeat_CI feat_it(annot_handle); in x_GetCompleteSeqAnnot()
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H A D | apply_object.cpp | 161 const CSeq_annot_Handle& annot_handle = oh.GetAnnot(); in ApplyChange() local 162 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in ApplyChange()
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H A D | cds_fix.cpp | 441 const CSeq_annot_Handle& annot_handle = f->GetAnnot(); in AdjustForCDSPartials() local 442 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in AdjustForCDSPartials() 996 const CSeq_annot_Handle& annot_handle = orig_feat.GetAnnot(); in DemoteCDSToNucSeq() local 997 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in DemoteCDSToNucSeq() 1016 CSeq_annot_EditHandle old_annot = annot_handle.GetEditHandle(); in DemoteCDSToNucSeq()
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H A D | loc_edit.cpp | 845 const CSeq_annot_Handle& annot_handle = fh.GetAnnot(); in ApplyPolicyToFeature() local 846 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in ApplyPolicyToFeature()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/edit/ |
H A D | external_annots.cpp | 100 CRef<CSeq_annot> CAnnotGetter::x_GetCompleteSeqAnnot(const CSeq_annot_Handle& annot_handle) in x_GetCompleteSeqAnnot() argument 102 CConstRef<CSeq_annot> annot = annot_handle.GetCompleteSeq_annot(); in x_GetCompleteSeqAnnot() 123 CFeat_CI feat_it(annot_handle); in x_GetCompleteSeqAnnot()
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H A D | apply_object.cpp | 161 const CSeq_annot_Handle& annot_handle = oh.GetAnnot(); in ApplyChange() local 162 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in ApplyChange()
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H A D | cds_fix.cpp | 441 const CSeq_annot_Handle& annot_handle = f->GetAnnot(); in AdjustForCDSPartials() local 442 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in AdjustForCDSPartials() 996 const CSeq_annot_Handle& annot_handle = orig_feat.GetAnnot(); in DemoteCDSToNucSeq() local 997 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in DemoteCDSToNucSeq() 1016 CSeq_annot_EditHandle old_annot = annot_handle.GetEditHandle(); in DemoteCDSToNucSeq()
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H A D | loc_edit.cpp | 845 const CSeq_annot_Handle& annot_handle = fh.GetAnnot(); in ApplyPolicyToFeature() local 846 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in ApplyPolicyToFeature()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/writers/ |
H A D | bed_writer.cpp | 550 CSeq_annot_Handle annot_handle, in xWriteFeature() argument 557 if ( ! track.Assign(*(annot_handle.GetCompleteSeq_annot())) ) { in xWriteFeature() 574 const auto& annot_handle = feat_it.GetAnnot(); in xWriteFeature() local 580 if ( ! track.Assign(*(annot_handle.GetCompleteSeq_annot())) ) { in xWriteFeature()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/edit/ |
H A D | external_annots.hpp | 62 static CRef<CSeq_annot> x_GetCompleteSeqAnnot(const CSeq_annot_Handle& annot_handle);
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/edit/ |
H A D | external_annots.hpp | 62 static CRef<CSeq_annot> x_GetCompleteSeqAnnot(const CSeq_annot_Handle& annot_handle);
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/writers/ |
H A D | bed_writer.hpp | 127 CSeq_annot_Handle annot_handle,
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objmgr/impl/ |
H A D | annot_collector.hpp | 201 const CSeq_annot_Handle& annot_handle); 203 const CSeq_annot_Handle& annot_handle, 206 CAnnotObject_Ref(const CSeq_annot_Handle& annot_handle,
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objmgr/impl/ |
H A D | annot_collector.hpp | 201 const CSeq_annot_Handle& annot_handle); 203 const CSeq_annot_Handle& annot_handle, 206 CAnnotObject_Ref(const CSeq_annot_Handle& annot_handle,
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/edit/unit_test/ |
H A D | unit_test_loc_edit.cpp | 379 CSeq_annot_Handle annot_handle = scope.AddSeq_annot(*(entry->GetAnnot().front())); in BOOST_AUTO_TEST_CASE() local 388 cds = annot_handle.GetCompleteSeq_annot()->GetData().GetFtable().front(); in BOOST_AUTO_TEST_CASE() 396 cds = annot_handle.GetCompleteSeq_annot()->GetData().GetFtable().front(); in BOOST_AUTO_TEST_CASE() 404 cds = annot_handle.GetCompleteSeq_annot()->GetData().GetFtable().front(); in BOOST_AUTO_TEST_CASE() 410 cds = annot_handle.GetCompleteSeq_annot()->GetData().GetFtable().front(); in BOOST_AUTO_TEST_CASE()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objmgr/ |
H A D | annot_collector.cpp | 488 const CSeq_annot_Handle& annot_handle) in CAnnotObject_Ref() argument 489 : m_Seq_annot(annot_handle), in CAnnotObject_Ref() 521 const CSeq_annot_Handle& annot_handle, in CAnnotObject_Ref() argument 524 : m_Seq_annot(annot_handle), in CAnnotObject_Ref() 559 CAnnotObject_Ref::CAnnotObject_Ref(const CSeq_annot_Handle& annot_handle, in CAnnotObject_Ref() argument 562 : m_Seq_annot(annot_handle), in CAnnotObject_Ref()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objmgr/ |
H A D | annot_collector.cpp | 488 const CSeq_annot_Handle& annot_handle) in CAnnotObject_Ref() argument 489 : m_Seq_annot(annot_handle), in CAnnotObject_Ref() 521 const CSeq_annot_Handle& annot_handle, in CAnnotObject_Ref() argument 524 : m_Seq_annot(annot_handle), in CAnnotObject_Ref() 559 CAnnotObject_Ref::CAnnotObject_Ref(const CSeq_annot_Handle& annot_handle, in CAnnotObject_Ref() argument 562 : m_Seq_annot(annot_handle), in CAnnotObject_Ref()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objmgr/util/ |
H A D | feature.cpp | 3935 const CSeq_annot_Handle& annot_handle = orig_feat.GetAnnot(); in PromoteCDSToNucProtSet() local 3936 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in PromoteCDSToNucProtSet() 3967 CSeq_annot_EditHandle old_annot = annot_handle.GetEditHandle(); in PromoteCDSToNucProtSet() 4080 const CSeq_annot_Handle& annot_handle = f->GetAnnot(); in AdjustForCDSPartials() local 4081 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in AdjustForCDSPartials() 4148 const CSeq_annot_Handle& annot_handle = f->GetAnnot(); in RetranslateCDS() local 4149 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in RetranslateCDS()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objmgr/util/ |
H A D | feature.cpp | 3935 const CSeq_annot_Handle& annot_handle = orig_feat.GetAnnot(); in PromoteCDSToNucProtSet() local 3936 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in PromoteCDSToNucProtSet() 3967 CSeq_annot_EditHandle old_annot = annot_handle.GetEditHandle(); in PromoteCDSToNucProtSet() 4080 const CSeq_annot_Handle& annot_handle = f->GetAnnot(); in AdjustForCDSPartials() local 4081 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in AdjustForCDSPartials() 4148 const CSeq_annot_Handle& annot_handle = f->GetAnnot(); in RetranslateCDS() local 4149 CSeq_entry_EditHandle eh = annot_handle.GetParentEntry().GetEditHandle(); in RetranslateCDS()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/misc/discrepancy/ |
H A D | feature_tests.cpp | 2162 CSeq_annot_EditHandle annot_handle = cds_edit_handle.GetAnnot(); in AddmRNAForCDS() local 2163 annot_handle.AddFeat(*new_mRNA); in AddmRNAForCDS() 2201 CSeq_annot_EditHandle annot_handle = GetAnnotHandle(scope, bh); in DISCREPANCY_AUTOFIX() local 2202 annot_handle.AddFeat(*new_mRNA); in DISCREPANCY_AUTOFIX()
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