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Searched refs:IsMismatch (Results 1 – 23 of 23) sorted by relevance

/dports/devel/upp/upp/uppsrc/Core/SSH/
H A DHosts.h14 …bool IsMismatch() const { return status == LIBSSH2_KNOWNHOST_CHECK_MISMATC… in IsMismatch() function
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/alnmgr/
H A Dalntext.cpp340 if (chunk.IsDiag() || chunk.IsMatch() || chunk.IsMismatch()) { in CProteinAlignText()
346 } else if (chunk.IsMismatch()) { in CProteinAlignText()
352 if (chunk.IsMismatch()) { in CProteinAlignText()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/alnmgr/
H A Dalntext.cpp340 if (chunk.IsDiag() || chunk.IsMatch() || chunk.IsMismatch()) { in CProteinAlignText()
346 } else if (chunk.IsMismatch()) { in CProteinAlignText()
352 if (chunk.IsMismatch()) { in CProteinAlignText()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/gnomon/
H A Dgnomon_model.hpp117 …int InDelEnd() const { return ((IsInsertion() || IsMismatch()) ? Loc()+Len() : Loc()); } // first… in InDelEnd()
120 bool IsMismatch() const { return m_type == eMism; } in IsMismatch() function in CInDelInfo
124 ((IsInsertion() || IsMismatch()) && Loc() <= b && a <= Loc()+Len()-1); in IntersectingWith()
156 if((IsDeletion() || IsMismatch()) && GetInDelV().empty()) in Init()
635 if(fsi_begin->Loc() == orig_a && !fsi_begin->IsMismatch()) { in CAlignMap()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/gnomon/
H A Dgnomon_seq.cpp424 … for( ;fsi != fsi_end && fsi->Loc() == orig_a && !fsi->IsMismatch(); ++fsi ) { // first left end in InsertIndelRangesForInterval()
435 for( ; fsi != fsi_end && fsi->IsMismatch() && fsi->Loc() == orig_a+(int)mism.size(); ++fsi) in InsertIndelRangesForInterval()
446 for( ;fsi != fsi_end && fsi->Loc() == bb && !fsi->IsMismatch(); ++fsi ) { // right end in InsertIndelRangesForInterval()
472 for( ; fsi != fsi_end && fsi->IsMismatch() && fsi->Loc() == orig_a+(int)mism.size(); ++fsi) in InsertIndelRangesForInterval()
516 if(!f->IsMismatch()) in CAlignMap()
H A Dgnomon_objmgr.cpp234 …if(!mismstatus.empty() && (chunk.IsProduct_ins() || chunk.IsGenomic_ins() || chunk.IsMismatch())) { in CAlignModel()
266 } else if (chunk.IsMismatch()) { in CAlignModel()
341 } else if(!indl->IsMismatch() && !indl_next->IsMismatch()) { // tandem indels in CAlignModel()
H A Dgnomon_model.cpp66 if(!i->IsMismatch()) in GetInDels()
72 if(i->IsMismatch() || i->Len()%3 == 0) // skip mismatches and full codons in GetInDels()
78 …ifts().end() && (++e)->Limits().NotEmpty() && next->Loc() == e->GetFrom() && !next->IsMismatch()) { in GetInDels()
890 _ASSERT(indl->IsMismatch()); in RemoveExtraFShifts()
903 _ASSERT(indels.back().IsMismatch()); in RemoveExtraFShifts()
H A Dannot.cpp683 if(((i->IsInsertion() || i->IsMismatch()) && Include(fullcds,i->Loc())) || in Predict()
H A Dvariations.cpp235 if(indl->IsMismatch()) { in AddAlignment()
H A Dasn1.cpp821 if(indel.IsMismatch()) { in AlignModelToSeqalign()
H A Daligncollapser.cpp954 if(indl->IsMismatch() || !indl->IntersectingWith(a, b)) in TotalFrameShift()
2255 if(i->IsMismatch()) { in AddAlignment()
H A Dchainer.cpp7625 if(i->IsMismatch()) { in MapModelsToOrigContig()
7943 if(indl->IsMismatch()) { in SetGenomic()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/sequence/
H A Dproject_exons.cpp796 : chunk.IsMismatch() ? chunk.GetMismatch() in ProjectExon_oldlogic()
801 bool is_diag = chunk.IsMatch() || chunk.IsMismatch() || chunk.IsDiag(); in ProjectExon_oldlogic()
954 : chunk.IsMismatch() ? chunk.GetMismatch() in SBlocks()
961 || chunk.IsMismatch() in SBlocks()
1745 : chunk.IsMismatch() ? chunk.GetMismatch()
1751 bool current_is_diag = chunk.IsMatch() || chunk.IsDiag() || chunk.IsMismatch();
/dports/devel/upp/upp/uppsrc/Core/SSH/src.tpp/
H A DUpp_Ssh_Hosts_en-us.tpp130 [s5;:Upp`:`:SshHosts`:`:Info`:`:IsMismatch`(`)const: [@(0.0.255) bool]_[* IsMismatch]()_[@(0.0.255)…
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/prosplign/
H A DInfo.cpp676 if (chunk.IsDiag() || chunk.IsMatch() || chunk.IsMismatch()) { in CAliChunk()
682 } else if (chunk.IsMismatch()) { in CAliChunk()
783 if (chunk.IsDiag() || chunk.IsMatch() || chunk.IsMismatch()) { in TestExonLength()
789 } else if (chunk.IsMismatch()) { in TestExonLength()
839 } else if (new_chunk->IsMismatch()) { in SplitChunk()
H A Dprosplign.cpp1255 } else if (chunk.IsMismatch()) { in HasStartOnNuc()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/seqalign/
H A DSpliced_seg.cpp336 } else if (part.IsMismatch()) { in s_ExonToDenseg()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/util/
H A Dbest_placement.cpp373 } else if(chunk->IsMismatch()) { in s_GetIdentOdds_nucSS()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objects/seqalign/
H A DSpliced_seg.cpp336 } else if (part.IsMismatch()) { in s_ExonToDenseg()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/seqqa/
H A Dsingle_aln_tests.cpp806 } else if (part.IsMismatch()) { in s_ExonToDenseg()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/misc/hgvs/
H A Dobjcoords.cpp352 } else if (part.IsMismatch()) { in x_CheckExonGap()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/seq/
H A Dseq_loc_mapper_base.cpp2006 if ( part.IsMatch() || part.IsMismatch() || part.IsDiag() ) { in x_IterateExonParts()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objects/seq/
H A Dseq_loc_mapper_base.cpp2006 if ( part.IsMatch() || part.IsMismatch() || part.IsDiag() ) { in x_IterateExonParts()