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Searched defs:TDPCell (Results 1 – 19 of 19) sorted by relevance

/dports/biology/seqan/seqan-library-2.4.0/include/seqan/align/
H A Ddp_scout.h169 _scoutBestScore(DPScout_<TDPCell, TSpec> & dpScout, in _scoutBestScore()
185 _scoutBestScore(DPScout_<TDPCell, TSpec> & dpScout, in _scoutBestScore()
196 _scoutBestScore(DPScout_<TDPCell, TSpec> & dpScout, in _scoutBestScore()
210 maxScore(DPScout_<TDPCell, TScoutSpec> const & dpScout) in maxScore()
222 maxHostPosition(DPScout_<TDPCell, TScoutSpec> const & dpScout) in maxHostPosition()
244 terminateScout(DPScout_<TDPCell, Terminator_<TSpec> > & scout) in terminateScout()
278 _preInitScoutVertical(DPScout_<TDPCell, TSpec> const & /*scout*/) in _preInitScoutVertical()
301 _nextHorizontalEndPos(DPScout_<TDPCell, TSpec> const & /*scout*/) in _nextHorizontalEndPos()
312 _nextVerticalEndPos(DPScout_<TDPCell, TSpec> const & /*scout*/) in _nextVerticalEndPos()
323 _incHorizontalPos(DPScout_<TDPCell, TSpec> const & /*scout*/) in _incHorizontalPos()
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H A Ddp_algorithm_impl.h449 using TDPCell = std::decay_t<decltype(value(dpScoreMatrixNavigator))>; in _computeTrack() local
463 _computeAlignmentHelperCheckTerminate(DPScout_<TDPCell, TSpec > const & /**/) in _computeAlignmentHelperCheckTerminate()
470 _computeAlignmentHelperCheckTerminate(DPScout_<TDPCell,Terminator_<TSpec> > const & s) in _computeAlignmentHelperCheckTerminate()
980 typedef typename Value<TDPScoreMatrixNavigator>::Type TDPCell; in _computeHammingDistance() typedef
H A Ddp_matrix_navigator_score_matrix.h387 _preInitCacheDiagonal(TDPCell & /*cacheDiagonal*/, in _preInitCacheDiagonal() argument
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align/
H A Ddp_scout.h169 _scoutBestScore(DPScout_<TDPCell, TSpec> & dpScout, in _scoutBestScore()
185 _scoutBestScore(DPScout_<TDPCell, TSpec> & dpScout, in _scoutBestScore()
196 _scoutBestScore(DPScout_<TDPCell, TSpec> & dpScout, in _scoutBestScore()
210 maxScore(DPScout_<TDPCell, TScoutSpec> const & dpScout) in maxScore()
222 maxHostPosition(DPScout_<TDPCell, TScoutSpec> const & dpScout) in maxHostPosition()
244 terminateScout(DPScout_<TDPCell, Terminator_<TSpec> > & scout) in terminateScout()
278 _preInitScoutVertical(DPScout_<TDPCell, TSpec> const & /*scout*/) in _preInitScoutVertical()
301 _nextHorizontalEndPos(DPScout_<TDPCell, TSpec> const & /*scout*/) in _nextHorizontalEndPos()
312 _nextVerticalEndPos(DPScout_<TDPCell, TSpec> const & /*scout*/) in _nextVerticalEndPos()
323 _incHorizontalPos(DPScout_<TDPCell, TSpec> const & /*scout*/) in _incHorizontalPos()
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H A Ddp_algorithm_impl.h449 using TDPCell = std::decay_t<decltype(value(dpScoreMatrixNavigator))>; in _computeTrack() local
463 _computeAlignmentHelperCheckTerminate(DPScout_<TDPCell, TSpec > const & /**/) in _computeAlignmentHelperCheckTerminate()
470 _computeAlignmentHelperCheckTerminate(DPScout_<TDPCell,Terminator_<TSpec> > const & s) in _computeAlignmentHelperCheckTerminate()
980 typedef typename Value<TDPScoreMatrixNavigator>::Type TDPCell; in _computeHammingDistance() typedef
H A Ddp_matrix_navigator_score_matrix.h387 _preInitCacheDiagonal(TDPCell & /*cacheDiagonal*/, in _preInitCacheDiagonal() argument
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/align/
H A Ddp_scout.h204 _scoutBestScore(DPScout_<TDPCell, TSpec> & dpScout, in _scoutBestScore()
221 _scoutBestScore(DPScout_<TDPCell, TSpec> & dpScout, in _scoutBestScore()
233 _scoutBestScore(DPScout_<TDPCell, TSpec> & dpScout, in _scoutBestScore()
247 maxScore(DPScout_<TDPCell, TScoutSpec> const & dpScout) in maxScore()
259 maxHostPosition(DPScout_<TDPCell, TScoutSpec> const & dpScout) in maxHostPosition()
270 _terminationCriteriumIsMet(DPScout_<TDPCell, Terminator_<TSpec> > const & scout) in _terminationCriteriumIsMet()
281 terminateScout(DPScout_<TDPCell, Terminator_<TSpec> > & scout) in terminateScout()
H A Ddp_algorithm_impl.h429 _computeAlignmentHelperCheckTerminate(DPScout_<TDPCell, TSpec > const & /**/) in _computeAlignmentHelperCheckTerminate()
436 _computeAlignmentHelperCheckTerminate(DPScout_<TDPCell,Terminator_<TSpec> > const & s) in _computeAlignmentHelperCheckTerminate()
1199 typedef typename Value<TDPScoreMatrixNavigator>::Type TDPCell; in _computeHammingDistance() typedef
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/tests/align/
H A Dtest_alignment_dp_matrix_navigator.h73 typedef Value<TDPMatrix>::Type TDPCell; in testAlignmentDPMatrixNavigatorScoreMarixInitUnbanded() typedef
93 typedef Value<TDPMatrix>::Type TDPCell; in testAlignmentDPMatrixNavigatorScoreMarixSparseInitUnbanded() typedef
116 typedef Value<TDPMatrix>::Type TDPCell; in testAlignmentDPMatrixNavigatorScoreMarixInitBanded() typedef
170 typedef Value<TDPMatrix>::Type TDPCell; in testAlignmentDPMatrixNavigatorScoreMarixSparseInitBanded() typedef
221 typedef Value<TDPMatrix>::Type TDPCell; in testAlignmentDPMatrixNavigatorScoreMarixGoNextCell() typedef
291 typedef Value<TDPMatrix>::Type TDPCell; in testAlignmentDPMatrixNavigatorScoreMarixSparseGoNextCell() typedef
362 typedef typename Value<TDPMatrix>::Type TDPCell; in testAlignmentDPScoreMatrixNavigatorAssignValue() typedef
384 typedef typename Value<TDPMatrix>::Type TDPCell; in testAlignmentDPScoreMatrixNavigatorValue() typedef
411 typedef typename Value<TDPMatrix>::Type TDPCell; in testAlignmentDPScoreMatrixNavigatorPreviousCellHorizontal() typedef
437 typedef typename Value<TDPMatrix>::Type TDPCell; in testAlignmentDPScoreMatrixNavigatorCoordinate() typedef
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H A Dtest_alignment_dp_cell.h47 typedef DPCell_<int, TGapCosts> TDPCell; in testDPCellValue() typedef
63 typedef DPCell_<int, TGapCosts> TDPCell; in testDPCellReference() typedef
80 typedef DPCell_<int, TGapCosts> TDPCell; in testDPCellDefaultInfinity() typedef
H A Dtest_alignment_dp_formula.h1585 typedef DPCell_<int, DynamicGaps> TDPCell; in SEQAN_DEFINE_TEST() typedef
1674 typedef DPCell_<int, DynamicGaps> TDPCell; in SEQAN_DEFINE_TEST() typedef
1795 typedef DPCell_<int, DynamicGaps> TDPCell; in SEQAN_DEFINE_TEST() typedef
1893 typedef DPCell_<int, DynamicGaps> TDPCell; in SEQAN_DEFINE_TEST() typedef
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/align_split/
H A Ddp_scout_split.h105 _scoutBestScore(DPScout_<TDPCell, SplitAlignmentScout> & dpScout, in _scoutBestScore()
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/align_split/
H A Ddp_scout_split.h106 _scoutBestScore(DPScout_<TDPCell, SplitAlignmentScout> & dpScout, in _scoutBestScore()
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align_split/
H A Ddp_scout_split.h106 _scoutBestScore(DPScout_<TDPCell, SplitAlignmentScout> & dpScout, in _scoutBestScore()
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/align_parallel/
H A Dwavefront_alignment_task.h63 using TDPCell = DPCell_<TScoreValue, TGapType>; member
158 using TDPCell = typename TWatc::TDPCell; in createBlockBuffer() local
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align_parallel/
H A Dwavefront_alignment_task.h63 using TDPCell = DPCell_<TScoreValue, TGapType>; member
158 using TDPCell = typename TWatc::TDPCell; in createBlockBuffer() local
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/seeds/
H A Dbanded_chain_alignment_impl.h257 _verticalCellInitialization(DPScout_<TDPCell, BandedChainAlignmentScout> const & dpScout, in _verticalCellInitialization()
271 _horizontalCellInitialization(DPScout_<TDPCell, BandedChainAlignmentScout> const & dpScout, in _horizontalCellInitialization()
757 typedef typename Value<TInitCell, 3>::Type TDPCell; in _initiaizeBeginningOfBandedChain() typedef
1292 typedef DPCell_<TScoreValue, TGapSpec> TDPCell; in _computeAlignment() typedef
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/seeds/
H A Dbanded_chain_alignment_impl.h257 _verticalCellInitialization(DPScout_<TDPCell, BandedChainAlignmentScout> const & dpScout, in _verticalCellInitialization()
271 _horizontalCellInitialization(DPScout_<TDPCell, BandedChainAlignmentScout> const & dpScout, in _horizontalCellInitialization()
757 typedef typename Value<TInitCell, 3>::Type TDPCell; in _initiaizeBeginningOfBandedChain() typedef
1292 typedef DPCell_<TScoreValue, TGapSpec> TDPCell; in _computeAlignment() typedef
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/seeds/
H A Dbanded_chain_alignment_impl.h241 _verticalCellInitialization(DPScout_<TDPCell, BandedChainAlignmentScout> const & dpScout, in _verticalCellInitialization()
255 _horizontalCellInitialization(DPScout_<TDPCell, BandedChainAlignmentScout> const & dpScout, in _horizontalCellInitialization()
676 typedef typename Value<TInitCell, 3>::Type TDPCell; in _initiaizeBeginningOfBandedChain() typedef
1199 typedef DPCell_<TScoreValue, TGapSpec> TDPCell; in _computeAlignment() typedef