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Searched defs:seqloc (Results 1 – 25 of 82) sorted by relevance

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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/unit_tests/api/
H A Dtest_objmgr.cpp88 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
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/unit_tests/api/
H A Dtest_objmgr.cpp88 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
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/blast_sra_input/
H A Dblast_sra_input.cpp222 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
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/prosplign/
H A DPSeq.cpp46 CSeq_loc seqloc; in BEGIN_SCOPE() local
/dports/biology/ncbi-toolkit/ncbi/network/wwwblast/Src/
H A Dshowalignwrap.cpp79 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
/dports/biology/ncbi-toolkit/ncbi/tools/
H A Dvecscrn.c170 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
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/seqmasks_io/
H A Dmask_writer_seqloc.cpp74 CSeq_loc seqloc(const_cast<CSeq_id&>(*id), masked_ranges); in Print() local
H A Dmask_writer_blastdb_maskinfo.cpp157 CRef<CSeq_loc> seqloc(new CSeq_loc(const_cast<CSeq_id&>(id), in Print() local
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/seqmasks_io/
H A Dmask_writer_seqloc.cpp74 CSeq_loc seqloc(const_cast<CSeq_id&>(*id), masked_ranges); in Print() local
H A Dmask_writer_blastdb_maskinfo.cpp157 CRef<CSeq_loc> seqloc(new CSeq_loc(const_cast<CSeq_id&>(id), in Print() local
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/prosplign/demo/
H A Dprosplign_demo.cpp109 … CSeq_loc seqloc(genomic, args["start"].AsInteger(), args["stop"].AsInteger(),eNa_strand_unknown); in Run() local
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/api/
H A Dwinmask_filter.cpp157 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
H A Ddust_filter.cpp93 CConstRef<CSeq_loc> seqloc, in s_CombineDustMasksWithUserProvidedMasks()
H A Dblast_objmgr_tools.cpp349 CConstRef<CSeq_loc> seqloc = GetSeqLoc(i); in GetTitle() local
487 CBlastSeqVectorOM(const CSeq_loc& seqloc, CScope& scope) in CBlastSeqVectorOM()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/api/
H A Dwinmask_filter.cpp157 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
H A Ddust_filter.cpp93 CConstRef<CSeq_loc> seqloc, in s_CombineDustMasksWithUserProvidedMasks()
H A Dblast_objmgr_tools.cpp349 CConstRef<CSeq_loc> seqloc = GetSeqLoc(i); in GetTitle() local
487 CBlastSeqVectorOM(const CSeq_loc& seqloc, CScope& scope) in CBlastSeqVectorOM()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/cobalt/unit_test/
H A Dcobalt_test_util.cpp89 CRef<CSeq_loc> seqloc(new CSeq_loc()); in ReadFastaQueries() local
H A Dkmer_unit_test.cpp94 CSeq_loc seqloc(CSeq_loc::e_Whole); in s_CreateKmerCounts() local
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/algo/blast/api/
H A Dsseqloc.hpp50 CConstRef<objects::CSeq_loc> seqloc; member
248 CConstRef<objects::CSeq_loc> seqloc; member in CBlastSearchQuery
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/blast/api/
H A Dsseqloc.hpp50 CConstRef<objects::CSeq_loc> seqloc; member
248 CConstRef<objects::CSeq_loc> seqloc; member in CBlastSearchQuery
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/sample/app/blast/
H A Dblast_sample.cpp79 CRef<CSeq_loc> seqloc(new CSeq_loc); in x_CreateSSeqLoc() local
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/cobalt/demo/
H A Dcobalt_app_util.cpp98 CRef<CSeq_loc> seqloc(new CSeq_loc()); in GetSeqLocFromStream() local
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/cobalt/
H A Dseqalign.cpp83 const CSeq_loc& seqloc = *m_tQueries[indices[i]]; in x_GetSeqalign() local
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/proteinkmer/
H A Dblastkmerresults.cpp73 CRef<CSeq_loc> seqloc(new CSeq_loc); in GetTSL() local

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