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Searched refs:ePlus (Results 1 – 25 of 36) sorted by relevance

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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/gnomon/
H A Dscore.cpp66 if(strand == ePlus) { in isReadingFrameLeftEnd()
75 if(strand == ePlus) { in isReadingFrameRightEnd()
102 … if(strand == ePlus) return (m_dscr[ePlus][i-1] != BadScore()) && (m_ascr[ePlus][j] != BadScore()); in isConsensusIntron()
368 m_seq[ePlus][i] = l; in Init()
633 int otherstrand = (strand == ePlus) ? eMinus : ePlus; in Init()
742 if(strand == ePlus) in Init()
790 if(strand == ePlus) in Init()
1003 if(strand == ePlus) in Init()
1119 if(strand == ePlus) { in Init()
1160 if(strand == ePlus) in Init()
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H A Dparse.cpp342 m_igplus.reserve(m_seqscr.StartNumber(ePlus)+1); in CParse()
345 m_leplus.reserve(m_seqscr.StopNumber(ePlus)+1); in CParse()
346 m_seplus.reserve(m_seqscr.StopNumber(ePlus)+2); in CParse()
370 m_seplus.push_back(CSingleExon(ePlus,0,m_seqscr,exon_params)); in CParse()
376 if(m_seqscr.AcceptorScore(i,ePlus) != BadScore()) in CParse()
387 if(m_seqscr.DonorScore(i,ePlus) != BadScore()) in CParse()
389 s_MakeStep(m_seqscr, exon_params, ePlus,i,m_inplus,m_ieplus); in CParse()
390 s_MakeStep(m_seqscr, exon_params, ePlus,i,m_igplus,m_feplus); in CParse()
398 if(m_seqscr.StartScore(i,ePlus) != BadScore()) in CParse()
413 if(m_seqscr.StopScore(i,ePlus) != BadScore()) in CParse()
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H A Dgnomon_objmgr.cpp211 fill_src.m_strand = ePlus; in CAlignModel()
251 if (Strand() == ePlus) in CAlignModel()
258 if (Strand()==ePlus) in CAlignModel()
274 if(Strand() == ePlus) { in CAlignModel()
287 if(Strand() == ePlus) in CAlignModel()
301 EStrand orientation = (is_product_reversed == minusstrand) ? ePlus : eMinus; in CAlignModel()
311 if (Strand() == ePlus) { in CAlignModel()
610 if (strand == ePlus) { in GetAnnot()
627 (strand == ePlus ? eNa_strand_plus : eNa_strand_minus), id)); in GetAnnot()
641 (strand == ePlus ? eNa_strand_plus : eNa_strand_minus), id)); in GetAnnot()
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H A Dgnomon_seq.cpp53 Convert(src,dst[ePlus]); in Convert()
54 ReverseComplement(dst[ePlus],dst[eMinus]); in Convert()
110 if(strand == ePlus) in IsStartCodon()
125 if(strand == ePlus) { in IsStopCodon()
525 …TSignedSeqPos estart = (m_orientation == ePlus) ? transcript_exons.front().GetFrom() : transcript_… in CAlignMap()
552 if(m_orientation == ePlus) { in CAlignMap()
626 …int l = (m_orientation == ePlus) ? m_edited_ranges.front().GetFrom() : CAlignMap::TargetLen()-m_ed… in EditedSequence()
767 if((m_orientation == ePlus && tp%3 == 0) || (m_orientation == eMinus && tp%3 == 2)) { in ShrinkToRealPoints()
795 if((m_orientation == ePlus && tp%3 == 2) || (m_orientation == eMinus && tp%3==0)) { in ShrinkToRealPoints()
817 if(m_orientation == ePlus) in FShiftedMove()
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H A Daligncollapser.cpp75 if(a.Strand() == ePlus) in GetAlignment()
83 if(a.Strand() == ePlus) { in GetAlignment()
94 if(a.Strand() == ePlus) in GetAlignment()
147 } else if(align.Strand() == ePlus){ in CAlignCommon()
157 if(align.Strand() == ePlus) in CAlignCommon()
339 SIntron intron_notoriented_nosig(a, b, ePlus, false, ""); in isGoodIntron()
2149 left_src.m_strand = ePlus; in FillGapsInAlignmentAndAddToGenomicGaps()
2156 right_src.m_strand = ePlus; in FillGapsInAlignmentAndAddToGenomicGaps()
2195 src.m_strand = ePlus; in FillGapsInAlignmentAndAddToGenomicGaps()
2310 if(a.Strand() == ePlus) { in AddAlignment()
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H A Dchainer.cpp4123 if(algn.Strand() == ePlus) { in GoodCDNAScore()
4715 if(Strand() == ePlus) { in RestoreReasonableConfirmedStart()
4800 if(Strand() == ePlus) in RestoreReasonableConfirmedStart()
5119 if(Strand() == ePlus) in ValidPolyA()
5131 if(Strand() == ePlus) { in ValidPolyA()
5543 if(Strand() == ePlus) in ClipLowCoverageUTR()
5693 if(Strand() == ePlus) in CalculateDropLimits()
5707 if(Strand() == ePlus) in CalculateDropLimits()
5728 if(Strand() == ePlus) in CalculateDropLimits()
5742 if(Strand() == ePlus) in CalculateDropLimits()
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H A Dgnomon_model.cpp102 if(Orientation() == ePlus) in TranscriptExon()
109 if(Orientation() == ePlus) in TranscriptExon()
121 if(Orientation() == ePlus) { in TranscriptLimits()
164 if (Strand() == ePlus) { in isNMD()
184 SetStrand(Strand() == ePlus ? eMinus : ePlus); in ReverseComplementModel()
1328 if (Strand()==ePlus) in RealCdsLimits()
2038 if(a.Strand() == ePlus) in printGFF3()
2120 if(a.Strand() == ePlus) { in printGFF3()
2183 if (a.Strand()==ePlus) in printGFF3()
2263 a.SetStrand(ePlus); in readGFF3()
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H A Dasn1.cpp357 ENa_strand strand = model.Strand()==ePlus?eNa_strand_plus:eNa_strand_minus; in create_packed_int_seqloc()
711 se->SetGenomic_strand(e.m_source.m_strand==ePlus?eNa_strand_plus:eNa_strand_minus); in spliced_exon()
727 if (strand==ePlus) { in spliced_exon()
735 if (strand==ePlus) { in spliced_exon()
782 spliced_seg.SetGenomic_strand(model.Strand()==ePlus?eNa_strand_plus:eNa_strand_minus); in AlignModelToSeqalign()
892 if(model.Orientation() == ePlus) in AlignModelToSeqalign()
H A Dgnomon_engine.cpp119 EResidue c = m_data->m_ds[ePlus][i]; in ResetRange()
H A Dvariations.cpp263 CGeneModel a(ePlus, 0, CGeneModel::eSR); in GetVariationAlignList()
282 CGeneModel a(ePlus, 0, CGeneModel::eSR); in GetVariationAlignList()
308 CGeneModel a(ePlus, 0, CGeneModel::eSR); in GetVariationAlignList()
H A Dannot.cpp575 if(nested.back().Strand() == ePlus) in Predict()
663 FindPartials(models, aligns, ePlus); in Predict()
H A Dhmm.hpp280 bool isPlus() const { return (m_strand == ePlus); } in isPlus()
/dports/devel/csmith/csmith-2.3.0/src/
H A DFunctionInvocationUnary.cpp133 case ePlus: in get_type()
185 case ePlus: out << "+"; break; in OutputStandardFuncName()
244 case ePlus: in Output()
282 case ePlus: in indented_output()
H A DFunctionInvocation.h62 ePlus, enumerator
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/gnomon/
H A Dgnomon_model.hpp65 enum EStrand { ePlus, eMinus}; enumerator
66 inline EStrand OtherStrand(EStrand s) { return (s == ePlus ? eMinus : ePlus); } in OtherStrand()
104 SSource() : m_strand(ePlus) {} in SSource()
396 CGeneModel(EStrand s = ePlus, Int8 id = 0, int type = 0) : in CGeneModel()
464 bool plusstrand = Strand() == ePlus; in Orientation()
465 return (notreversed == plusstrand) ? ePlus : eMinus; in Orientation()
503 bool LeftComplete() const { return Strand() == ePlus ? HasStart() : HasStop(); } in LeftComplete()
516 return (Strand() == ePlus ? OpenLeftEnd() : OpenRightEnd()); in Open5primeEnd()
626 CAlignMap(TSignedSeqPos orig_a, TSignedSeqPos orig_b) : m_orientation(ePlus) { in CAlignMap()
923 if(algn.Strand() == ePlus) in GetAlignParts()
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/dports/math/hs-Agda/Agda-2.6.2/src/full/Agda/Syntax/
H A DIdiomBrackets.hs23 ePlus a b = App r (App r (Ident qPlus) (defaultNamedArg a)) (defaultNamedArg b) function
30 return $ foldr1 ePlus es'
/dports/science/jdftx/jdftx-1.6.0/jdftx/electronic/
H A DTetrahedralDOS.cpp461 auto eIterPlus = eIter; eIterPlus++; double ePlus = *eIterPlus; in mergeLsplines() local
462 startScale[e] = (ePlus-e) / (ePlus-eMinus); in mergeLsplines()
470 auto eIterPlus = eIter; eIterPlus++; double ePlus = *eIterPlus; in mergeLsplines() local
471 stopScale[e] = (e-eMinus) / (ePlus-eMinus); in mergeLsplines()
/dports/science/clhep/2.4.1.0/CLHEP/Evaluator/src/
H A DsetSystemOfUnits.cc367 const double ePlus = e_SI * C; // positron charge in setSystemOfUnits() local
368 const double eV = ePlus * V; in setSystemOfUnits()
/dports/biology/sra-tools/sra-tools-2.11.0/tools/kqsh/
H A Dkqsh-open.c87 case ePlus: in kqsh_open_row()
/dports/biology/sra-tools/sra-tools-2.11.0/ncbi-vdb/interfaces/klib/
H A Dtoken.h112 ePlus, eMinus, eAssign, eFwdSlash, eBackSlash, ePipe, enumerator
/dports/biology/ncbi-vdb/ncbi-vdb-2.11.0/interfaces/klib/
H A Dtoken.h112 ePlus, eMinus, eAssign, eFwdSlash, eBackSlash, ePipe, enumerator
/dports/science/openbabel/openbabel-3.1.1/src/formats/libinchi/
H A Dichirvr6.c1140 int aN, aC, i1, i2, ePlus; in FixRestoredStructureStereo() local
1171 if ( 0 > (ePlus = pVA[aN].nCPlusGroupEdge-1) || in FixRestoredStructureStereo()
1172 (pePlus = pBNS->edge + ePlus)->flow || /* must be (+) charged */ in FixRestoredStructureStereo()
H A Dichirvr2.c2722 int ret, ePlus, eMinus; in RearrangePlusMinusEdgesFlow() local
2732 ePlus = pVA[i].nCPlusGroupEdge - 1; in RearrangePlusMinusEdgesFlow()
2733 num_tot += (eMinus >= 0) + (ePlus >= 0); in RearrangePlusMinusEdgesFlow()
2734 if ( eMinus >= 0 && ePlus >= 0 ) { in RearrangePlusMinusEdgesFlow()
2735 pPlus = pBNS->edge + ePlus; in RearrangePlusMinusEdgesFlow()
2751 ePlus = pVA[i].nCPlusGroupEdge - 1; in RearrangePlusMinusEdgesFlow()
2752 num_tot += (eMinus >= 0) + (ePlus >= 0); in RearrangePlusMinusEdgesFlow()
2753 if ( eMinus >= 0 && ePlus >= 0 ) { in RearrangePlusMinusEdgesFlow()
2754 pPlus = pBNS->edge + ePlus; in RearrangePlusMinusEdgesFlow()
2782 if ( ePlus >= 0 ) { in RearrangePlusMinusEdgesFlow()
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/dports/biology/sra-tools/sra-tools-2.11.0/ncbi-vdb/libs/vdb/
H A Dschema-expr.c1353 case ePlus: in const_expr()
1575 case ePlus: in fact_value()
1602 case ePlus: in old_fact_value()
1948 case ePlus: in expression()
/dports/biology/ncbi-vdb/ncbi-vdb-2.11.0/libs/vdb/
H A Dschema-expr.c1353 case ePlus: in const_expr()
1575 case ePlus: in fact_value()
1602 case ePlus: in old_fact_value()
1948 case ePlus: in expression()

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