/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/unit_tests/api/ |
H A D | test_objmgr.cpp | 88 CRef<CSeq_loc> seqloc(new CSeq_loc()); in CreateSSeqLoc() local 105 CRef<CSeq_loc> seqloc(new CSeq_loc()); in CreateSSeqLoc() local 128 CRef<CSeq_loc> seqloc(new CSeq_loc()); in CreateWholeSSeqLoc() local 140 CRef<CSeq_loc> seqloc(new CSeq_loc()); in CreateEmptySSeqLoc() local 152 CRef<CSeq_loc> seqloc(new CSeq_loc()); in CreateBlastSearchQuery() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/unit_tests/api/ |
H A D | test_objmgr.cpp | 88 CRef<CSeq_loc> seqloc(new CSeq_loc()); in CreateSSeqLoc() local 105 CRef<CSeq_loc> seqloc(new CSeq_loc()); in CreateSSeqLoc() local 128 CRef<CSeq_loc> seqloc(new CSeq_loc()); in CreateWholeSSeqLoc() local 140 CRef<CSeq_loc> seqloc(new CSeq_loc()); in CreateEmptySSeqLoc() local 152 CRef<CSeq_loc> seqloc(new CSeq_loc()); in CreateBlastSearchQuery() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/blast_sra_input/ |
H A D | blast_sra_input.cpp | 222 CRef<CSeq_loc> seqloc(new CSeq_loc()); in x_GetNextSeq_loc() local 235 CRef<CSeq_loc> seqloc = x_GetNextSeq_loc(scope); in GetNextSSeqLoc() local 243 CRef<CSeq_loc> seqloc = x_GetNextSeq_loc(scope); in GetNextSequence() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/prosplign/ |
H A D | PSeq.cpp | 46 CSeq_loc seqloc; in BEGIN_SCOPE() local
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/dports/biology/ncbi-toolkit/ncbi/network/wwwblast/Src/ |
H A D | showalignwrap.cpp | 79 CRef<CSeq_loc> seqloc(new CSeq_loc()); in s_BlastFormat_ConvertToCppLoc() local 88 CRef<CSeq_loc> seqloc(new CSeq_loc()); in s_BlastFormat_ConvertToCppLoc() local
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/dports/biology/ncbi-toolkit/ncbi/tools/ |
H A D | vecscrn.c | 170 Print62Notation(SeqLocPtr seqloc, Int4 query_length, CharPtr *buffer) in Print62Notation() 374 SeqLocToPlusStrand(SeqLocPtr seqloc) in SeqLocToPlusStrand() 411 SeqLocPtr seqloc, next_seqloc; in CheckForOverlap() local 472 CombineSeqLoc (SeqLocPtr seqloc) in CombineSeqLoc() 534 GetInterveningSeqLoc (SeqLocPtr seqloc, Int4 distance_permitted, Int4 query_length) in GetInterveningSeqLoc() 625 SeqLocPtr seqloc1=NULL, seqloc2=NULL, seqloc3=NULL, seqloc, seqloc_tmp; in VSMakeSeqLoc() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/seqmasks_io/ |
H A D | mask_writer_seqloc.cpp | 74 CSeq_loc seqloc(const_cast<CSeq_id&>(*id), masked_ranges); in Print() local
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H A D | mask_writer_blastdb_maskinfo.cpp | 157 CRef<CSeq_loc> seqloc(new CSeq_loc(const_cast<CSeq_id&>(id), in Print() local
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/seqmasks_io/ |
H A D | mask_writer_seqloc.cpp | 74 CSeq_loc seqloc(const_cast<CSeq_id&>(*id), masked_ranges); in Print() local
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H A D | mask_writer_blastdb_maskinfo.cpp | 157 CRef<CSeq_loc> seqloc(new CSeq_loc(const_cast<CSeq_id&>(id), in Print() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/prosplign/demo/ |
H A D | prosplign_demo.cpp | 109 … CSeq_loc seqloc(genomic, args["start"].AsInteger(), args["stop"].AsInteger(),eNa_strand_unknown); in Run() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/api/ |
H A D | winmask_filter.cpp | 157 const CSeq_loc & seqloc, in s_BuildMaskedRanges() 289 CConstRef<CSeq_loc> seqloc = query.GetQuerySeqLoc(); in Blast_FindWindowMaskerLoc() local 323 CConstRef<CSeq_loc> seqloc = queries[j].seqloc; in Blast_FindWindowMaskerLoc() local
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H A D | dust_filter.cpp | 93 CConstRef<CSeq_loc> seqloc, in s_CombineDustMasksWithUserProvidedMasks()
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H A D | blast_objmgr_tools.cpp | 349 CConstRef<CSeq_loc> seqloc = GetSeqLoc(i); in GetTitle() local 487 CBlastSeqVectorOM(const CSeq_loc& seqloc, CScope& scope) in CBlastSeqVectorOM()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/api/ |
H A D | winmask_filter.cpp | 157 const CSeq_loc & seqloc, in s_BuildMaskedRanges() 289 CConstRef<CSeq_loc> seqloc = query.GetQuerySeqLoc(); in Blast_FindWindowMaskerLoc() local 323 CConstRef<CSeq_loc> seqloc = queries[j].seqloc; in Blast_FindWindowMaskerLoc() local
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H A D | dust_filter.cpp | 93 CConstRef<CSeq_loc> seqloc, in s_CombineDustMasksWithUserProvidedMasks()
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H A D | blast_objmgr_tools.cpp | 349 CConstRef<CSeq_loc> seqloc = GetSeqLoc(i); in GetTitle() local 487 CBlastSeqVectorOM(const CSeq_loc& seqloc, CScope& scope) in CBlastSeqVectorOM()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/cobalt/unit_test/ |
H A D | cobalt_test_util.cpp | 89 CRef<CSeq_loc> seqloc(new CSeq_loc()); in ReadFastaQueries() local
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H A D | kmer_unit_test.cpp | 94 CSeq_loc seqloc(CSeq_loc::e_Whole); in s_CreateKmerCounts() local
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/algo/blast/api/ |
H A D | sseqloc.hpp | 50 CConstRef<objects::CSeq_loc> seqloc; member 248 CConstRef<objects::CSeq_loc> seqloc; member in CBlastSearchQuery
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/blast/api/ |
H A D | sseqloc.hpp | 50 CConstRef<objects::CSeq_loc> seqloc; member 248 CConstRef<objects::CSeq_loc> seqloc; member in CBlastSearchQuery
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/sample/app/blast/ |
H A D | blast_sample.cpp | 79 CRef<CSeq_loc> seqloc(new CSeq_loc); in x_CreateSSeqLoc() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/cobalt/demo/ |
H A D | cobalt_app_util.cpp | 98 CRef<CSeq_loc> seqloc(new CSeq_loc()); in GetSeqLocFromStream() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/cobalt/ |
H A D | seqalign.cpp | 83 const CSeq_loc& seqloc = *m_tQueries[indices[i]]; in x_GetSeqalign() local
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/proteinkmer/ |
H A D | blastkmerresults.cpp | 73 CRef<CSeq_loc> seqloc(new CSeq_loc); in GetTSL() local
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