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Searched refs:CSeq_loc (Results 1 – 25 of 913) sorted by relevance

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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objmgr/util/
H A Dseq_loc_util.hpp46 class CSeq_loc;
166 const CSeq_loc& loc,
274 TSeqPos LocationOffset(const CSeq_loc& outer, const CSeq_loc& inner,
322 int TestForOverlap(const CSeq_loc& loc1,
323 const CSeq_loc& loc2,
356 CSeq_loc* SeqLocRevCmpl(const CSeq_loc& loc, CScope* scope);
362 CSeq_loc* SeqLocRevCmp(const CSeq_loc& loc, CScope* scope) in SeqLocRevCmp()
377 CRef<CSeq_loc> Seq_loc_Merge(const CSeq_loc& loc,
388 CSeq_loc temp; in Seq_locs_Merge()
397 CRef<CSeq_loc> Seq_loc_Add(const CSeq_loc& loc1,
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H A Dautodef_feature_clause.hpp46 …CAutoDefFeatureClause(CBioseq_Handle bh, const CSeq_feat &main_feat, const CSeq_loc &mapped_loc, c…
77 virtual sequence::ECompare CompareLocation(const CSeq_loc& loc) const;
78 virtual void AddToLocation(CRef<CSeq_loc> loc, bool also_set_partials = true);
79 virtual bool SameStrand(const CSeq_loc& loc) const;
81 virtual CRef<CSeq_loc> GetLocation() const;
111 CRef<CSeq_loc> m_ClauseLocation;
134 …CAutoDefGeneClause(CBioseq_Handle bh, const CSeq_feat &main_feat, const CSeq_loc &mapped_loc, cons…
146 …CAutoDefNcRNAClause(CBioseq_Handle bh, const CSeq_feat &main_feat, const CSeq_loc &mapped_loc, con…
170 …CAutoDefSatelliteClause(CBioseq_Handle bh, const CSeq_feat &main_feat, const CSeq_loc &mapped_loc,…
181 …CAutoDefPromoterClause(CBioseq_Handle bh, const CSeq_feat &main_feat, const CSeq_loc &mapped_loc, …
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objmgr/util/
H A Dseq_loc_util.hpp46 class CSeq_loc;
166 const CSeq_loc& loc,
274 TSeqPos LocationOffset(const CSeq_loc& outer, const CSeq_loc& inner,
322 int TestForOverlap(const CSeq_loc& loc1,
323 const CSeq_loc& loc2,
356 CSeq_loc* SeqLocRevCmpl(const CSeq_loc& loc, CScope* scope);
362 CSeq_loc* SeqLocRevCmp(const CSeq_loc& loc, CScope* scope) in SeqLocRevCmp()
377 CRef<CSeq_loc> Seq_loc_Merge(const CSeq_loc& loc,
388 CSeq_loc temp; in Seq_locs_Merge()
397 CRef<CSeq_loc> Seq_loc_Add(const CSeq_loc& loc1,
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/cleanup/
H A Dautogenerated_cleanup.hpp8006 void x_BasicCleanupSeqAnnot_desc_desc_E_E_region_region( CSeq_loc & arg0 );
8007 void x_BasicCleanupSeqAnnot_desc_desc_E_E_region( CSeq_loc & arg0 );
8354 void x_BasicCleanupSeqAnnot_data_ftable_E_E_product( CSeq_loc & arg0 );
8364 void x_BasicCleanupSeqAnnot_data_ftable_E_E_location( CSeq_loc & arg0 );
8783 void x_BasicCleanupSeqAnnot_data_align_E_E_bounds_E_E( CSeq_loc & arg0 );
8784 void x_BasicCleanupSeqAnnot_data_align_E_E_bounds_E( CSeq_loc & arg0 );
8815 void x_BasicCleanupSeqAnnot_data_graph_E_E_loc_loc( CSeq_loc & arg0 );
8816 void x_BasicCleanupSeqAnnot_data_graph_E_E_loc( CSeq_loc & arg0 );
8821 void x_BasicCleanupSeqAnnot_data_locs_E_E_mix_mix_E( CSeq_loc & arg0 );
8829 void x_BasicCleanupSeqAnnot_data_locs_E_E( CSeq_loc & arg0 );
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objmgr/impl/
H A Dseq_loc_cvt.hpp59 class CSeq_loc;
141 bool Convert(const CSeq_loc& src, CRef<CSeq_loc>& dst,
218 CSeq_loc& GetDstLocEmpty(void) in GetDstLocEmpty()
238 void ConvertPacked_int(const CSeq_loc& src, CRef<CSeq_loc>& dst);
239 void ConvertPacked_pnt(const CSeq_loc& src, CRef<CSeq_loc>& dst);
241 void ConvertMix(const CSeq_loc& src, CRef<CSeq_loc>& dst,
243 void ConvertEquiv(const CSeq_loc& src, CRef<CSeq_loc>& dst);
244 void ConvertBond(const CSeq_loc& src, CRef<CSeq_loc>& dst);
260 CRef<CSeq_loc> m_Dst_loc_Empty;
290 CConstRef<CSeq_loc> m_SrcLoc;
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objmgr/impl/
H A Dseq_loc_cvt.hpp59 class CSeq_loc;
141 bool Convert(const CSeq_loc& src, CRef<CSeq_loc>& dst,
218 CSeq_loc& GetDstLocEmpty(void) in GetDstLocEmpty()
238 void ConvertPacked_int(const CSeq_loc& src, CRef<CSeq_loc>& dst);
239 void ConvertPacked_pnt(const CSeq_loc& src, CRef<CSeq_loc>& dst);
241 void ConvertMix(const CSeq_loc& src, CRef<CSeq_loc>& dst,
243 void ConvertEquiv(const CSeq_loc& src, CRef<CSeq_loc>& dst);
244 void ConvertBond(const CSeq_loc& src, CRef<CSeq_loc>& dst);
260 CRef<CSeq_loc> m_Dst_loc_Empty;
290 CConstRef<CSeq_loc> m_SrcLoc;
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objects/seqloc/
H A DSeq_loc.hpp106 CSeq_loc(void);
107 CSeq_loc(E_Choice index);
114 virtual ~CSeq_loc(void);
349 CRef<CSeq_loc> Add(const CSeq_loc& other,
355 CRef<CSeq_loc> Subtract(const CSeq_loc& other,
362 CRef<CSeq_loc> Intersect(const CSeq_loc& other,
373 CSeq_loc(const CSeq_loc&);
374 CSeq_loc& operator= (const CSeq_loc&);
903 CSeq_loc::CSeq_loc(void) in CSeq_loc() function in CSeq_loc
910 CSeq_loc::TRange CSeq_loc::GetTotalRange(void) const in GetTotalRange()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objects/seqloc/
H A DSeq_loc.hpp106 CSeq_loc(void);
107 CSeq_loc(E_Choice index);
114 virtual ~CSeq_loc(void);
349 CRef<CSeq_loc> Add(const CSeq_loc& other,
355 CRef<CSeq_loc> Subtract(const CSeq_loc& other,
362 CRef<CSeq_loc> Intersect(const CSeq_loc& other,
373 CSeq_loc(const CSeq_loc&);
374 CSeq_loc& operator= (const CSeq_loc&);
903 CSeq_loc::CSeq_loc(void) in CSeq_loc() function in CSeq_loc
910 CSeq_loc::TRange CSeq_loc::GetTotalRange(void) const in GetTotalRange()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/id_mapper/unit_test/
H A Dunit_test_id_mapper.cpp71 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
102 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
137 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
163 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
171 CRef<CSeq_loc> Expected(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
246 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
253 CRef<CSeq_loc> Expected(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
461 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
505 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
541 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/edit/
H A Dloc_edit.cpp566 CRef<CSeq_loc> add(new CSeq_loc( in SeqLocExtend()
673 CRef<CSeq_loc> new_loc(new CSeq_loc()); in ConvertToJoin()
682 CRef<CSeq_loc> add(new CSeq_loc()); in ConvertToJoin()
697 CRef<CSeq_loc> new_loc(new CSeq_loc()); in ConvertToOrder()
720 CRef<CSeq_loc> first(new CSeq_loc()); in ConvertToOrder()
725 CRef<CSeq_loc> null_loc(new CSeq_loc()); in ConvertToOrder()
728 CRef<CSeq_loc> add(new CSeq_loc()); in ConvertToOrder()
1141 CRef<CSeq_loc> sub(new CSeq_loc()); in NormalizeLoc()
1164 CRef<CSeq_loc> sub(new CSeq_loc()); in NormalizeLoc()
1833 void SplitLocationForGap(CSeq_loc& loc1, CSeq_loc& loc2, in SplitLocationForGap()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/edit/
H A Dloc_edit.cpp566 CRef<CSeq_loc> add(new CSeq_loc( in SeqLocExtend()
673 CRef<CSeq_loc> new_loc(new CSeq_loc()); in ConvertToJoin()
682 CRef<CSeq_loc> add(new CSeq_loc()); in ConvertToJoin()
697 CRef<CSeq_loc> new_loc(new CSeq_loc()); in ConvertToOrder()
720 CRef<CSeq_loc> first(new CSeq_loc()); in ConvertToOrder()
725 CRef<CSeq_loc> null_loc(new CSeq_loc()); in ConvertToOrder()
728 CRef<CSeq_loc> add(new CSeq_loc()); in ConvertToOrder()
1141 CRef<CSeq_loc> sub(new CSeq_loc()); in NormalizeLoc()
1164 CRef<CSeq_loc> sub(new CSeq_loc()); in NormalizeLoc()
1833 void SplitLocationForGap(CSeq_loc& loc1, CSeq_loc& loc2, in SplitLocationForGap()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objmgr/test/
H A Dtest_seqloc_mapper.cpp83 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
85 CRef<CSeq_loc> Result = mapper->Map(*OrigLoc); in BOOST_AUTO_TEST_CASE()
101 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
122 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
127 CRef<CSeq_loc> Expected(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
144 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
146 CRef<CSeq_loc> Result = mapper->Map(*OrigLoc); in BOOST_AUTO_TEST_CASE()
162 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
164 CRef<CSeq_loc> Result = mapper->Map(*OrigLoc); in BOOST_AUTO_TEST_CASE()
185 CRef<CSeq_loc> OrigLoc(new CSeq_loc()); in BOOST_AUTO_TEST_CASE()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/seq/
H A Dseq_loc_reverse_complementer.cpp81 CSeq_loc*
86 auto_ptr<CSeq_loc> rev_loc( new CSeq_loc ); in GetReverseComplement()
91 case CSeq_loc::e_Null: in GetReverseComplement()
92 case CSeq_loc::e_Empty: in GetReverseComplement()
93 case CSeq_loc::e_Whole: in GetReverseComplement()
98 case CSeq_loc::e_Int: in GetReverseComplement()
101 case CSeq_loc::e_Pnt: in GetReverseComplement()
120 case CSeq_loc::e_Mix: in GetReverseComplement()
130 case CSeq_loc::e_Equiv: in GetReverseComplement()
141 case CSeq_loc::e_Bond: in GetReverseComplement()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objects/seq/
H A Dseq_loc_reverse_complementer.cpp81 CSeq_loc*
86 auto_ptr<CSeq_loc> rev_loc( new CSeq_loc ); in GetReverseComplement()
91 case CSeq_loc::e_Null: in GetReverseComplement()
92 case CSeq_loc::e_Empty: in GetReverseComplement()
93 case CSeq_loc::e_Whole: in GetReverseComplement()
98 case CSeq_loc::e_Int: in GetReverseComplement()
101 case CSeq_loc::e_Pnt: in GetReverseComplement()
120 case CSeq_loc::e_Mix: in GetReverseComplement()
130 case CSeq_loc::e_Equiv: in GetReverseComplement()
141 case CSeq_loc::e_Bond: in GetReverseComplement()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/seqloc/
H A DSeq_loc.cpp82 CSeq_loc::CSeq_loc(E_Choice index) in CSeq_loc() function in CSeq_loc
186 CSeq_loc::~CSeq_loc(void) in ~CSeq_loc()
2039 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocBond()
2103 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocPoint()
2160 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocInterval()
2169 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocOther()
2266 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocPacked_pnt()
2287 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocPacked_int()
5060 CRef<CSeq_loc> CSeq_loc::Add(const CSeq_loc& other, in Add()
5087 CRef<CSeq_loc> CSeq_loc::Subtract(const CSeq_loc& other, in Subtract()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objects/seqloc/
H A DSeq_loc.cpp82 CSeq_loc::CSeq_loc(E_Choice index) in CSeq_loc() function in CSeq_loc
186 CSeq_loc::~CSeq_loc(void) in ~CSeq_loc()
2039 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocBond()
2103 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocPoint()
2160 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocInterval()
2169 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocOther()
2266 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocPacked_pnt()
2287 CRef<CSeq_loc> loc(new CSeq_loc); in MakeLocPacked_int()
5060 CRef<CSeq_loc> CSeq_loc::Add(const CSeq_loc& other, in Add()
5087 CRef<CSeq_loc> CSeq_loc::Subtract(const CSeq_loc& other, in Subtract()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/edit/
H A Dloc_edit.hpp99 static CRef<CSeq_loc> ConvertToJoin(const CSeq_loc& orig_loc, bool &changed);
100 static CRef<CSeq_loc> ConvertToOrder(const CSeq_loc& orig_loc, bool &changed);
103 static bool HasNulls(const CSeq_loc& orig_loc);
105 static bool Is5AtEndOfSeq(const CSeq_loc& loc, CBioseq_Handle bsh);
106 static bool Is3AtEndOfSeq(const CSeq_loc& loc, CBioseq_Handle bsh);
131 NCBI_XOBJEDIT_EXPORT CRef<CSeq_loc>
132 SeqLocExtend(const CSeq_loc& loc, size_t pos, CScope* scope);
138 NCBI_XOBJEDIT_EXPORT void SeqLocAdjustForTrim(CSeq_loc& loc,
145 NCBI_XOBJEDIT_EXPORT void SeqLocAdjustForInsert(CSeq_loc& loc,
167 void SplitLocationForGap(CSeq_loc& loc1, CSeq_loc& loc2,
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/edit/
H A Dloc_edit.hpp99 static CRef<CSeq_loc> ConvertToJoin(const CSeq_loc& orig_loc, bool &changed);
100 static CRef<CSeq_loc> ConvertToOrder(const CSeq_loc& orig_loc, bool &changed);
103 static bool HasNulls(const CSeq_loc& orig_loc);
105 static bool Is5AtEndOfSeq(const CSeq_loc& loc, CBioseq_Handle bsh);
106 static bool Is3AtEndOfSeq(const CSeq_loc& loc, CBioseq_Handle bsh);
131 NCBI_XOBJEDIT_EXPORT CRef<CSeq_loc>
132 SeqLocExtend(const CSeq_loc& loc, size_t pos, CScope* scope);
138 NCBI_XOBJEDIT_EXPORT void SeqLocAdjustForTrim(CSeq_loc& loc,
145 NCBI_XOBJEDIT_EXPORT void SeqLocAdjustForInsert(CSeq_loc& loc,
167 void SplitLocationForGap(CSeq_loc& loc1, CSeq_loc& loc2,
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objmgr/
H A Dseq_loc_cvt.cpp501 CRef<CSeq_loc> dst_loc(new CSeq_loc); in MakeDstMix()
589 CRef<CSeq_loc> mix_loc(new CSeq_loc); in ConvertPacked_int()
603 CRef<CSeq_loc> null_loc(new CSeq_loc); in ConvertPacked_int()
658 CRef<CSeq_loc> mix_loc(new CSeq_loc); in ConvertPacked_pnt()
1432 CRef<CSeq_loc> new_dst(new CSeq_loc); in s_ConvertToMix()
1437 CRef<CSeq_loc> mix_loc(new CSeq_loc); in s_ConvertToMix()
1446 CRef<CSeq_loc> mix_loc(new CSeq_loc); in s_ConvertToMix()
1865 CRef<CSeq_loc> tmp(new CSeq_loc); in ConvertInterval()
1955 CRef<CSeq_loc> dst_int(new CSeq_loc); in ConvertPacked_int()
2033 CRef<CSeq_loc> pnt(new CSeq_loc); in ConvertPacked_pnt()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objmgr/
H A Dseq_loc_cvt.cpp501 CRef<CSeq_loc> dst_loc(new CSeq_loc); in MakeDstMix()
589 CRef<CSeq_loc> mix_loc(new CSeq_loc); in ConvertPacked_int()
603 CRef<CSeq_loc> null_loc(new CSeq_loc); in ConvertPacked_int()
658 CRef<CSeq_loc> mix_loc(new CSeq_loc); in ConvertPacked_pnt()
1432 CRef<CSeq_loc> new_dst(new CSeq_loc); in s_ConvertToMix()
1437 CRef<CSeq_loc> mix_loc(new CSeq_loc); in s_ConvertToMix()
1446 CRef<CSeq_loc> mix_loc(new CSeq_loc); in s_ConvertToMix()
1865 CRef<CSeq_loc> tmp(new CSeq_loc); in ConvertInterval()
1955 CRef<CSeq_loc> dst_int(new CSeq_loc); in ConvertPacked_int()
2033 CRef<CSeq_loc> pnt(new CSeq_loc); in ConvertPacked_pnt()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/sequence/
H A Dcompare_feats.hpp117 m_loc1 = CRef<CSeq_loc>(new CSeq_loc); in CCompareSeq_locs()
119 m_loc2 = CRef<CSeq_loc>(new CSeq_loc); in CCompareSeq_locs()
318 FCompareLocs x_CompareInts(const CSeq_loc& loc1, const CSeq_loc& loc2) const;
335 CRef<CSeq_loc> m_loc1;
336 CRef<CSeq_loc> m_loc2;
439 … CRef<CSeq_loc> merged_loc = sequence::Seq_loc_Merge(loc, CSeq_loc::fMerge_SingleRange, NULL); in s_GetLocLabel()
532 CRef<CSeq_loc> t_whole_loc(new CSeq_loc); in CCompareSeqRegions()
540 CRef<CSeq_loc> q_whole_loc(new CSeq_loc); in CCompareSeqRegions()
570 CConstRef<CSeq_loc> x_GetSelfLoc(
571 const CSeq_loc& loc,
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objmgr/util/
H A Dseq_loc_util.cpp91 case CSeq_loc::e_Pnt: in GetLength()
93 case CSeq_loc::e_Int: in GetLength()
95 case CSeq_loc::e_Null: in GetLength()
102 case CSeq_loc::e_Mix: in GetLength()
583 const CSeq_loc& loc) in BadSeqLocSortOrder()
621 const CSeq_loc& loc, in BadSeqLocSortOrder()
678 TSeqPos LocationOffset(const CSeq_loc& outer, const CSeq_loc& inner, in LocationOffset()
970 CSeq_loc* SeqLocRevCmpl(const CSeq_loc& loc, CScope*) in SeqLocRevCmpl()
2098 CRef<CSeq_loc> Seq_loc_Merge(const CSeq_loc& loc, in Seq_loc_Merge()
2107 CRef<CSeq_loc> Seq_loc_Add(const CSeq_loc& loc1, in Seq_loc_Add()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objmgr/util/
H A Dseq_loc_util.cpp91 case CSeq_loc::e_Pnt: in GetLength()
93 case CSeq_loc::e_Int: in GetLength()
95 case CSeq_loc::e_Null: in GetLength()
102 case CSeq_loc::e_Mix: in GetLength()
583 const CSeq_loc& loc) in BadSeqLocSortOrder()
621 const CSeq_loc& loc, in BadSeqLocSortOrder()
678 TSeqPos LocationOffset(const CSeq_loc& outer, const CSeq_loc& inner, in LocationOffset()
970 CSeq_loc* SeqLocRevCmpl(const CSeq_loc& loc, CScope*) in SeqLocRevCmpl()
2098 CRef<CSeq_loc> Seq_loc_Merge(const CSeq_loc& loc, in Seq_loc_Merge()
2107 CRef<CSeq_loc> Seq_loc_Add(const CSeq_loc& loc1, in Seq_loc_Add()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/format/items/
H A Dgene_finder.hpp77 const CConstRef<CSeq_loc> & feat_loc,
106 const CSeq_loc &location,
116 const CSeq_loc& loc,
122 CRef<CSeq_loc> &loc,
126 CRef<CSeq_loc> &cleaned_loc_this_iteration,
127 CRef<CSeq_loc> &candidate_feat_loc,
136 CRef<CSeq_loc> &cleaned_loc,
137 CRef<CSeq_loc> &candidate_feat_loc,
198 CBioseq_Handle &bioseq_handle, const CSeq_loc &location );
210 CRef<CSeq_loc> &loc, const TSeqPos circular_length,
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/format/items/
H A Dgene_finder.hpp77 const CConstRef<CSeq_loc> & feat_loc,
106 const CSeq_loc &location,
116 const CSeq_loc& loc,
122 CRef<CSeq_loc> &loc,
126 CRef<CSeq_loc> &cleaned_loc_this_iteration,
127 CRef<CSeq_loc> &candidate_feat_loc,
136 CRef<CSeq_loc> &cleaned_loc,
137 CRef<CSeq_loc> &candidate_feat_loc,
198 CBioseq_Handle &bioseq_handle, const CSeq_loc &location );
210 CRef<CSeq_loc> &loc, const TSeqPos circular_length,
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