/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/seeds/ |
H A D | banded_chain_alignment_traceback.h | 62 template <typename TFreeEndGaps, typename TMatrixSpec, typename TTracebackSpec> 64 AffineGaps, TTracebackSpec> > : False{}; 66 template <typename TFreeEndGaps, typename TTracebackSpec> 68 AffineGaps, TTracebackSpec> > : True{}; 238 typename TGapCosts, typename TTracebackSpec> 246 …_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec> const & dpPro… 260 if (IsSameType<TTracebackSpec, TracebackOff>::VALUE) 267 typedef typename IsGapsLeft_<TTracebackSpec>::Type TIsGapsLeft; 359 …ag, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebackSpec> 366 …_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec> const & dpPro…
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H A D | banded_chain_alignment_impl.h | 267 typename TMatrixSpec, typename TGapCosts, typename TTracebackSpec> 273 … DPProfile_<BandedChainAlignment_<TFreeEndGaps, TMatrixSpec>, TGapCosts, TTracebackSpec> const &) in _determineTrackingOptions() 880 …Scheme, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGaps, typename TTracebackSpec> 889 …ChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGaps, TracebackOn<TTracebackSpec> > const & dpP… in _computeGapArea() 939 …Scheme, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGaps, typename TTracebackSpec> 948 …ChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGaps, TracebackOn<TTracebackSpec> > const & dpP… in _computeAnchorArea()
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/dports/biology/seqan/seqan-library-2.4.0/include/seqan/align/ |
H A D | dp_traceback_impl.h | 118 template <typename TAlgorithm, typename TTracebackSpec, typename TExecSpec> 119 struct PreferGapsAtEnd_<DPProfile_<TAlgorithm, AffineGaps, TTracebackSpec, TExecSpec> > : True{}; 495 typename TAlgorithm, typename TGapCosts, typename TTracebackSpec, typename TExecPolicy, 512 SEQAN_IF_CONSTEXPR (IsSameType<TTracebackSpec, TracebackOff>::VALUE) 516 typedef typename IsGapsLeft_<TTracebackSpec>::Type TIsGapsLeft; 555 typename TAlgorithm, typename TGapCosts, typename TTracebackSpec, typename TExecPolicy> 563 DPProfile_<TAlgorithm, TGapCosts, TTracebackSpec, TExecPolicy> const & dpProfile) 584 typename TAlgorithm, typename TGapCosts, typename TTracebackSpec, typename TExecPolicy> 592 DPProfile_<TAlgorithm, TGapCosts, TTracebackSpec, TExecPolicy> const & dpProfile) 603 typename TAlgorithm, typename TGapCosts, typename TTracebackSpec, typename TExecPolicy> [all …]
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H A D | dp_profile.h | 595 template <typename TAlignmentSpec, typename TGapSpec, typename TTracebackSpec, typename TExecPolicy… 596 struct IsFreeEndGap_<DPProfile_<TAlignmentSpec, TGapSpec, TTracebackSpec, TExecPolicy> const, TDPSi… 599 template <typename TAlignmentSpec, typename TGapSpec, typename TTracebackSpec, typename TExecPolicy… 600 struct IsFreeEndGap_<DPProfile_<TAlignmentSpec, TGapSpec, TTracebackSpec, TExecPolicy>, TDPSide>:
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align/ |
H A D | dp_traceback_impl.h | 118 template <typename TAlgorithm, typename TTracebackSpec, typename TExecSpec> 119 struct PreferGapsAtEnd_<DPProfile_<TAlgorithm, AffineGaps, TTracebackSpec, TExecSpec> > : True{}; 495 typename TAlgorithm, typename TGapCosts, typename TTracebackSpec, typename TExecPolicy, 512 SEQAN_IF_CONSTEXPR (IsSameType<TTracebackSpec, TracebackOff>::VALUE) 516 typedef typename IsGapsLeft_<TTracebackSpec>::Type TIsGapsLeft; 555 typename TAlgorithm, typename TGapCosts, typename TTracebackSpec, typename TExecPolicy> 563 DPProfile_<TAlgorithm, TGapCosts, TTracebackSpec, TExecPolicy> const & dpProfile) 584 typename TAlgorithm, typename TGapCosts, typename TTracebackSpec, typename TExecPolicy> 592 DPProfile_<TAlgorithm, TGapCosts, TTracebackSpec, TExecPolicy> const & dpProfile) 603 typename TAlgorithm, typename TGapCosts, typename TTracebackSpec, typename TExecPolicy> [all …]
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H A D | dp_profile.h | 595 template <typename TAlignmentSpec, typename TGapSpec, typename TTracebackSpec, typename TExecPolicy… 596 struct IsFreeEndGap_<DPProfile_<TAlignmentSpec, TGapSpec, TTracebackSpec, TExecPolicy> const, TDPSi… 599 template <typename TAlignmentSpec, typename TGapSpec, typename TTracebackSpec, typename TExecPolicy… 600 struct IsFreeEndGap_<DPProfile_<TAlignmentSpec, TGapSpec, TTracebackSpec, TExecPolicy>, TDPSide>:
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/seeds/ |
H A D | banded_chain_alignment_traceback.h | 62 template <typename TFreeEndGaps, typename TMatrixSpec, typename TTracebackSpec, typename TExecPolic… 64 AffineGaps, TTracebackSpec, TExecPolicy> > : False{}; 66 template <typename TFreeEndGaps, typename TTracebackSpec, typename TExecPolicy> 68 AffineGaps, TTracebackSpec, TExecPolicy> > : True{}; 238 typename TGapCosts, typename TTracebackSpec, typename TExecPolicy> 246 …_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec, TExecPolicy> … 260 SEQAN_IF_CONSTEXPR (IsSameType<TTracebackSpec, TracebackOff>::VALUE) 267 typedef typename IsGapsLeft_<TTracebackSpec>::Type TIsGapsLeft; 363 …reeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebackSpec, typename TExe… 370 …_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec, TExecPolicy> …
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H A D | banded_chain_alignment_impl.h | 283 typename TMatrixSpec, typename TGapCosts, typename TTracebackSpec, typename TExecPolicy> 289 …rofile_<BandedChainAlignment_<TFreeEndGaps, TMatrixSpec>, TGapCosts, TTracebackSpec, TExecPolicy> … in _determineTrackingOptions() argument 969 …Scheme, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGaps, typename TTracebackSpec, 979 …ChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGaps, TracebackOn<TTracebackSpec>, TExecPolicy>… in _computeGapArea() argument 1031 …Scheme, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGaps, typename TTracebackSpec, 1041 …ChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGaps, TracebackOn<TTracebackSpec>, TExecPolicy>… in _computeAnchorArea() argument
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/dports/biology/seqan/seqan-library-2.4.0/include/seqan/seeds/ |
H A D | banded_chain_alignment_traceback.h | 62 template <typename TFreeEndGaps, typename TMatrixSpec, typename TTracebackSpec, typename TExecPolic… 64 AffineGaps, TTracebackSpec, TExecPolicy> > : False{}; 66 template <typename TFreeEndGaps, typename TTracebackSpec, typename TExecPolicy> 68 AffineGaps, TTracebackSpec, TExecPolicy> > : True{}; 238 typename TGapCosts, typename TTracebackSpec, typename TExecPolicy> 246 …_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec, TExecPolicy> … 260 SEQAN_IF_CONSTEXPR (IsSameType<TTracebackSpec, TracebackOff>::VALUE) 267 typedef typename IsGapsLeft_<TTracebackSpec>::Type TIsGapsLeft; 363 …reeEndGaps, typename TDPMatrixLocation, typename TGapCosts, typename TTracebackSpec, typename TExe… 370 …_<BandedChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGapCosts, TTracebackSpec, TExecPolicy> …
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H A D | banded_chain_alignment_impl.h | 283 typename TMatrixSpec, typename TGapCosts, typename TTracebackSpec, typename TExecPolicy> 289 …rofile_<BandedChainAlignment_<TFreeEndGaps, TMatrixSpec>, TGapCosts, TTracebackSpec, TExecPolicy> … in _determineTrackingOptions() argument 969 …Scheme, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGaps, typename TTracebackSpec, 979 …ChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGaps, TracebackOn<TTracebackSpec>, TExecPolicy>… in _computeGapArea() argument 1031 …Scheme, typename TFreeEndGaps, typename TDPMatrixLocation, typename TGaps, typename TTracebackSpec, 1041 …ChainAlignment_<TFreeEndGaps, TDPMatrixLocation>, TGaps, TracebackOn<TTracebackSpec>, TExecPolicy>… in _computeAnchorArea() argument
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/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/align/ |
H A D | dp_traceback_impl.h | 118 template <typename TAlgorithm, typename TTracebackSpec> 119 struct PreferGapsAtEnd_<DPProfile_<TAlgorithm, AffineGaps, TTracebackSpec > > : True{}; 490 typename TBandFlag, typename TAlgorithm, typename TGapCosts, typename TTracebackSpec> 497 DPProfile_<TAlgorithm, TGapCosts, TTracebackSpec> const & dpProfile) 506 if (IsSameType<TTracebackSpec, TracebackOff>::VALUE) 510 typedef typename IsGapsLeft_<TTracebackSpec>::Type TIsGapsLeft; 558 typename TTracebackSpec> 565 DPProfile_<TAlgorithm, TGapCosts, TTracebackSpec> const & dpProfile)
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H A D | dp_profile.h | 417 template <typename TAlignmentSpec, typename TGapSpec, typename TTracebackSpec, typename TDPSide> 418 struct IsFreeEndGap_<DPProfile_<TAlignmentSpec, TGapSpec, TTracebackSpec> const, TDPSide>: 421 template <typename TAlignmentSpec, typename TGapSpec, typename TTracebackSpec, typename TDPSide> 422 struct IsFreeEndGap_<DPProfile_<TAlignmentSpec, TGapSpec, TTracebackSpec>, TDPSide>:
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