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Searched refs:TAlignmentAlgorithm (Results 1 – 15 of 15) sorted by relevance

/dports/biology/seqan/seqan-library-2.4.0/include/seqan/align_parallel/
H A Ddp_parallel_scout_simd.h110 template<typename TAlignmentAlgorithm, typename TBuffer, typename TThreadContext>
111 struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm,
117 template<typename TAlignmentAlgorithm, typename TBuffer, typename TThreadContext, typename TTraits>
118 struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm,
H A Ddp_parallel_scout.h134 template<typename TAlignmentAlgorithm, typename TThreadContext, typename TBuffer>
135 struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm, DPScoutState_<DPTiled<TBuffer, TThreadC…
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align_parallel/
H A Ddp_parallel_scout_simd.h110 template<typename TAlignmentAlgorithm, typename TBuffer, typename TThreadContext>
111 struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm,
117 template<typename TAlignmentAlgorithm, typename TBuffer, typename TThreadContext, typename TTraits>
118 struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm,
H A Ddp_parallel_scout.h134 template<typename TAlignmentAlgorithm, typename TThreadContext, typename TBuffer>
135 struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm, DPScoutState_<DPTiled<TBuffer, TThreadC…
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/align/
H A Ddp_scout.h172 template <typename TAlignmentAlgorithm>
175 typedef If<HasTerminationCriterium_<TAlignmentAlgorithm>,
H A Ddp_algorithm_impl.h1378 … typename TScoreScheme, typename TBandSwitch, typename TAlignmentAlgorithm, typename TTraceFlag>
1387 DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag> const & dpProfile) in _computeAlignment() argument
1395 typedef typename DefaultScoreMatrixSpec_<TAlignmentAlgorithm>::Type TScoreMatrixSpec; in _computeAlignment()
1403 typedef typename ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm>::Type TDPScoutSpec; in _computeAlignment()
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/align/
H A Ddp_scout.h137 template <typename TAlignmentAlgorithm, typename TScoutState>
140 typedef If<HasTerminationCriterium_<TAlignmentAlgorithm>,
H A Ddp_algorithm_impl.h1263 … typename TAlignmentAlgorithm, typename TGapScheme, typename TTraceFlag, typename TExecPolicy>
1271 … DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag, TExecPolicy> const & /*dpProfile*/) in SEQAN_FUNC_ENABLE_IF()
1282 … typename TAlignmentAlgorithm, typename TGapScheme, typename TTraceFlag, typename TExecPolicy>
1290 … DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag, TExecPolicy> const & dpProfile) in SEQAN_FUNC_ENABLE_IF()
1319 … typename TAlignmentAlgorithm, typename TGapScheme, typename TTraceFlag, typename TExecPolicy>
1327 … DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag, TExecPolicy> const & dpProfile) in SEQAN_FUNC_ENABLE_IF()
1347 … typename TAlignmentAlgorithm, typename TGapScheme, typename TTraceFlag, typename TExecPolicy>
1356 … DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag, TExecPolicy> const & dpProfile) in _computeAlignment() argument
1359 typedef typename DefaultScoreMatrixSpec_<TAlignmentAlgorithm>::Type TScoreMatrixSpec; in _computeAlignment()
1371 …typedef typename ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm, TScoutState>::Type TDPScoutS… in _computeAlignment()
H A Ddp_scout_simd.h117 template<typename TAlignmentAlgorithm>
118 struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm, DPScoutState_<SimdAlignEqualLength> >
123 template<typename TAlignmentAlgorithm, typename TTraits>
124 struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm, DPScoutState_<SimdAlignVariableLength<T…
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align/
H A Ddp_scout.h137 template <typename TAlignmentAlgorithm, typename TScoutState>
140 typedef If<HasTerminationCriterium_<TAlignmentAlgorithm>,
H A Ddp_algorithm_impl.h1263 … typename TAlignmentAlgorithm, typename TGapScheme, typename TTraceFlag, typename TExecPolicy>
1271 … DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag, TExecPolicy> const & /*dpProfile*/) in SEQAN_FUNC_ENABLE_IF()
1282 … typename TAlignmentAlgorithm, typename TGapScheme, typename TTraceFlag, typename TExecPolicy>
1290 … DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag, TExecPolicy> const & dpProfile) in SEQAN_FUNC_ENABLE_IF()
1319 … typename TAlignmentAlgorithm, typename TGapScheme, typename TTraceFlag, typename TExecPolicy>
1327 … DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag, TExecPolicy> const & dpProfile) in SEQAN_FUNC_ENABLE_IF()
1347 … typename TAlignmentAlgorithm, typename TGapScheme, typename TTraceFlag, typename TExecPolicy>
1356 … DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag, TExecPolicy> const & dpProfile) in _computeAlignment() argument
1359 typedef typename DefaultScoreMatrixSpec_<TAlignmentAlgorithm>::Type TScoreMatrixSpec; in _computeAlignment()
1371 …typedef typename ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm, TScoutState>::Type TDPScoutS… in _computeAlignment()
H A Ddp_scout_simd.h117 template<typename TAlignmentAlgorithm>
118 struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm, DPScoutState_<SimdAlignEqualLength> >
123 template<typename TAlignmentAlgorithm, typename TTraits>
124 struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm, DPScoutState_<SimdAlignVariableLength<T…
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/seeds/
H A Dbanded_chain_alignment_impl.h1156 … typename TScoreScheme, typename TBandSwitch, typename TAlignmentAlgorithm, typename TTraceFlag>
1164 DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag> const & dpProfile) in _computeAlignment() argument
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/seeds/
H A Dbanded_chain_alignment_impl.h1250 … typename TScoreScheme, typename TBandSwitch, typename TAlignmentAlgorithm, typename TTraceFlag,
1259 … DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag, TExecPolicy> const & dpProfile) in _computeAlignment() argument
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/seeds/
H A Dbanded_chain_alignment_impl.h1250 … typename TScoreScheme, typename TBandSwitch, typename TAlignmentAlgorithm, typename TTraceFlag,
1259 … DPProfile_<TAlignmentAlgorithm, TGapScheme, TTraceFlag, TExecPolicy> const & dpProfile) in _computeAlignment() argument