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Searched refs:TTracebackSpec (Results 1 – 12 of 12) sorted by relevance

/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/seeds/
H A Dbanded_chain_alignment_traceback.h62 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…
H A Dbanded_chain_alignment_impl.h267 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()
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/align/
H A Ddp_traceback_impl.h118 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 …]
H A Ddp_profile.h595 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>:
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align/
H A Ddp_traceback_impl.h118 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 …]
H A Ddp_profile.h595 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>:
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/seeds/
H A Dbanded_chain_alignment_traceback.h62 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> …
H A Dbanded_chain_alignment_impl.h283 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
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/seeds/
H A Dbanded_chain_alignment_traceback.h62 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> …
H A Dbanded_chain_alignment_impl.h283 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
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/align/
H A Ddp_traceback_impl.h118 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)
H A Ddp_profile.h417 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>: