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Searched refs:TSignedSize (Results 1 – 25 of 26) sorted by relevance

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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/misc/
H A Dedit_environment.h171 typedef typename MakeSigned_<TSize>::Type TSignedSize; typedef
172 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
235 typedef typename MakeSigned_<TSize>::Type TSignedSize; typedef
236 typedef StringEnumeratorLevenshteinModifier_<TSignedSize> TModifier;
360 if (_mod.errorPos >= (TSignedSize)(pos - 1)) in _reinit()
367 if (_mod.errorPos >= (TSignedSize)pos) in _reinit()
377 if (_mod.errorPos > (TSignedSize)pos) in _reinit()
677 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
748 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
768 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
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/dports/biology/seqan/seqan-library-2.4.0/include/seqan/misc/
H A Dedit_environment.h171 typedef typename MakeSigned_<TSize>::Type TSignedSize; typedef
172 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
235 typedef typename MakeSigned_<TSize>::Type TSignedSize; typedef
236 typedef StringEnumeratorLevenshteinModifier_<TSignedSize> TModifier;
360 if (_mod.errorPos >= (TSignedSize)(pos - 1)) in _reinit()
367 if (_mod.errorPos >= (TSignedSize)pos) in _reinit()
377 if (_mod.errorPos > (TSignedSize)pos) in _reinit()
677 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
748 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
768 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
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/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/misc/
H A Dedit_environment.h171 typedef typename MakeSigned_<TSize>::Type TSignedSize; typedef
172 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
235 typedef typename MakeSigned_<TSize>::Type TSignedSize; typedef
236 typedef StringEnumeratorLevenshteinModifier_<TSignedSize> TModifier;
360 if (_mod.errorPos >= (TSignedSize)(pos - 1)) in _reinit()
367 if (_mod.errorPos >= (TSignedSize)pos) in _reinit()
377 if (_mod.errorPos > (TSignedSize)pos) in _reinit()
677 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
748 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
768 typedef StringEnumeratorHammingModifier_<TSignedSize> TModifier;
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/dports/biology/seqan1/seqan-1.3.1/seqan/misc/
H A Dedit_environment.h151 typedef typename MakeSigned_<TSize>::Type TSignedSize;
212 typedef typename MakeSigned_<TSize>::Type TSignedSize;
270 typedef typename MakeSigned_<TSize>::Type TSignedSize;
285 typedef typename MakeSigned_<TSize>::Type TSignedSize;
309 typedef typename MakeSigned_<TSize>::Type TSignedSize;
418 typedef typename MakeSigned_<TSize>::Type TSignedSize;
531 if (_mod.errorPos >= (TSignedSize)(pos - 1))
535 if (_mod.errorPos >= (TSignedSize)pos)
542 if (_mod.errorPos > (TSignedSize)pos)
793 typedef typename MakeSigned_<TSize>::Type TSignedSize;
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/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/seeds/
H A Dbanded_chain_alignment_impl.h120 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingBeginHorizontal() typedef
121 if ((TSignedSize) horizontalSeedBeginPos - (TSignedSize) bandExtension <= 0) in _isCrossingBeginHorizontal()
134 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingBeginVertical() typedef
136 if ((TSignedSize) verticalSeedBeginPos - (TSignedSize) bandExtension <= 0) in _isCrossingBeginVertical()
152 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingEndHorizontal() typedef
154 if ((TSignedSize) horizontalSeedEndPos + (TSignedSize) bandSize >= (TSignedSize) length(seqH)) in _isCrossingEndHorizontal()
170 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingEndVertical() typedef
172 if ((TSignedSize) verticalSeedEndPos + (TSignedSize) bandSize >= (TSignedSize) length(seqV)) in _isCrossingEndVertical()
738 typedef typename MakeSigned<TSeedSize>::Type TSignedSize; in _initializeBandedChain() typedef
953 typedef typename MakeSigned<TSize>::Type TSignedSize; in _computeAnchorArea() typedef
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/seeds/
H A Dbanded_chain_alignment_impl.h136 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingBeginHorizontal() typedef
137 if ((TSignedSize) horizontalSeedBeginPos - (TSignedSize) bandExtension <= 0) in _isCrossingBeginHorizontal()
150 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingBeginVertical() typedef
152 if ((TSignedSize) verticalSeedBeginPos - (TSignedSize) bandExtension <= 0) in _isCrossingBeginVertical()
168 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingEndHorizontal() typedef
170 if ((TSignedSize) horizontalSeedEndPos + (TSignedSize) bandSize >= (TSignedSize) length(seqH)) in _isCrossingEndHorizontal()
186 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingEndVertical() typedef
188 if ((TSignedSize) verticalSeedEndPos + (TSignedSize) bandSize >= (TSignedSize) length(seqV)) in _isCrossingEndVertical()
826 typedef typename MakeSigned<TSeedSize>::Type TSignedSize; in _initializeBandedChain() typedef
1046 typedef typename MakeSigned<TSize>::Type TSignedSize; in _computeAnchorArea() typedef
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/dports/biology/seqan/seqan-library-2.4.0/include/seqan/seeds/
H A Dbanded_chain_alignment_impl.h136 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingBeginHorizontal() typedef
137 if ((TSignedSize) horizontalSeedBeginPos - (TSignedSize) bandExtension <= 0) in _isCrossingBeginHorizontal()
150 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingBeginVertical() typedef
152 if ((TSignedSize) verticalSeedBeginPos - (TSignedSize) bandExtension <= 0) in _isCrossingBeginVertical()
168 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingEndHorizontal() typedef
170 if ((TSignedSize) horizontalSeedEndPos + (TSignedSize) bandSize >= (TSignedSize) length(seqH)) in _isCrossingEndHorizontal()
186 typedef typename MakeSigned<TSize>::Type TSignedSize; in _isCrossingEndVertical() typedef
188 if ((TSignedSize) verticalSeedEndPos + (TSignedSize) bandSize >= (TSignedSize) length(seqV)) in _isCrossingEndVertical()
826 typedef typename MakeSigned<TSeedSize>::Type TSignedSize; in _initializeBandedChain() typedef
1046 typedef typename MakeSigned<TSize>::Type TSignedSize; in _computeAnchorArea() typedef
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/dports/biology/seqan/seqan-library-2.4.0/include/seqan/align/
H A Ddp_matrix_navigator_score_matrix_sparse.h84 typedef std::make_signed_t<TSize> TSignedSize; in DPMatrixNavigator_() typedef
100 …_laneLeap = _max(lowerDiagonal(band), 1 - static_cast<TSignedSize>(length(matrix, DPMatrixDimensio… in DPMatrixNavigator_()
H A Ddp_algorithm_impl.h198 typedef typename MakeSigned<typename Size<TSequenceH>::Type>::Type TSignedSize; in _checkBandProperties() typedef
201 if (upperDiagonal(band) < (0 - static_cast<TSignedSize>(length(seqV))) || in _checkBandProperties()
202 lowerDiagonal(band) > static_cast<TSignedSize>(length(seqH))) in _checkBandProperties()
219 …if (upperDiagonal(band) + static_cast<TSignedSize>(length(seqV)) < static_cast<TSignedSize>(length… in _checkBandProperties()
227 …if (lowerDiagonal(band) + static_cast<TSignedSize>(length(seqV)) > static_cast<TSignedSize>(length… in _checkBandProperties()
H A Ddp_matrix_navigator_score_matrix.h87 using TSignedSize = std::make_signed_t<TMatrixSize>; in DPMatrixNavigator_() local
105 int lastPos = _max(-static_cast<TSignedSize>(lengthVertical - 1), lowerDiagonal(band)); in DPMatrixNavigator_()
H A Ddp_matrix_navigator_trace_matrix.h96 using TSignedSize = std::make_signed_t<TMatrixSize>; in DPMatrixNavigator_() local
120 int lastPos = _max(-static_cast<TSignedSize>(lengthVertical - 1), lowerDiagonal(band)); in DPMatrixNavigator_()
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align/
H A Ddp_matrix_navigator_score_matrix_sparse.h84 typedef std::make_signed_t<TSize> TSignedSize; in DPMatrixNavigator_() typedef
100 …_laneLeap = _max(lowerDiagonal(band), 1 - static_cast<TSignedSize>(length(matrix, DPMatrixDimensio… in DPMatrixNavigator_()
H A Ddp_algorithm_impl.h198 typedef typename MakeSigned<typename Size<TSequenceH>::Type>::Type TSignedSize; in _checkBandProperties() typedef
201 if (upperDiagonal(band) < (0 - static_cast<TSignedSize>(length(seqV))) || in _checkBandProperties()
202 lowerDiagonal(band) > static_cast<TSignedSize>(length(seqH))) in _checkBandProperties()
219 …if (upperDiagonal(band) + static_cast<TSignedSize>(length(seqV)) < static_cast<TSignedSize>(length… in _checkBandProperties()
227 …if (lowerDiagonal(band) + static_cast<TSignedSize>(length(seqV)) > static_cast<TSignedSize>(length… in _checkBandProperties()
H A Ddp_matrix_navigator_score_matrix.h87 using TSignedSize = std::make_signed_t<TMatrixSize>; in DPMatrixNavigator_() local
105 int lastPos = _max(-static_cast<TSignedSize>(lengthVertical - 1), lowerDiagonal(band)); in DPMatrixNavigator_()
H A Ddp_matrix_navigator_trace_matrix.h96 using TSignedSize = std::make_signed_t<TMatrixSize>; in DPMatrixNavigator_() local
120 int lastPos = _max(-static_cast<TSignedSize>(lengthVertical - 1), lowerDiagonal(band)); in DPMatrixNavigator_()
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/align/
H A Ddp_algorithm_impl.h174 typedef typename MakeSigned<typename Size<TSequenceH>::Type>::Type TSignedSize; in _checkBandProperties() typedef
177 if (upperDiagonal(band) < (0 - static_cast<TSignedSize>(length(seqV))) || in _checkBandProperties()
178 lowerDiagonal(band) > static_cast<TSignedSize>(length(seqH))) in _checkBandProperties()
195 …if (upperDiagonal(band) + static_cast<TSignedSize>(length(seqV)) < static_cast<TSignedSize>(length… in _checkBandProperties()
203 …if (lowerDiagonal(band) + static_cast<TSignedSize>(length(seqV)) > static_cast<TSignedSize>(length… in _checkBandProperties()
H A Ddp_matrix_navigator_score_matrix_sparse.h122 typedef typename MakeSigned<TSize>::Type TSignedSize; in _init() typedef
138 …navigator._laneLeap = _max(lowerDiagonal(band), 1 - static_cast<TSignedSize>(length(dpMatrix, DPMa… in _init()
H A Ddp_matrix_navigator_score_matrix.h122 typedef typename MakeSigned<TMatrixSize>::Type TSignedSize; in _init() typedef
140 int lastPos = _max(-static_cast<TSignedSize>(lengthVertical - 1), lowerDiagonal(band)); in _init()
H A Ddp_matrix_navigator_trace_matrix.h125 typedef typename MakeSigned<TMatrixSize>::Type TSignedSize; in _init() typedef
149 int lastPos = _max(-static_cast<TSignedSize>(lengthVertical - 1), lowerDiagonal(band)); in _init()
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/journaled_string_tree/
H A Ddelta_store.h563 typedef typename MakeSigned<typename Size<TStore>::Type>::Type TSignedSize;
564 return static_cast<TSignedSize>(insertionSize(store, pos, TTag())) -
565 static_cast<TSignedSize>(deletionSize(store, pos, TTag()));
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/journaled_string_tree/
H A Ddelta_store.h563 typedef typename MakeSigned<typename Size<TStore>::Type>::Type TSignedSize;
564 return static_cast<TSignedSize>(insertionSize(store, pos, TTag())) -
565 static_cast<TSignedSize>(deletionSize(store, pos, TTag()));
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/graph_msa/
H A Dgraph_align_tcoffee_library.h807 typedef typename MakeSigned<TSize>::Type TSignedSize; in assureBandedRestriction_() typedef
809 TSignedSize lenH = length(pairSet[0]); in assureBandedRestriction_()
810 TSignedSize lenV = length(pairSet[1]); in assureBandedRestriction_()
811 TSignedSize halfWidth = bandWidth / 2; in assureBandedRestriction_()
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/graph_msa/
H A Dgraph_align_tcoffee_library.h807 typedef typename MakeSigned<TSize>::Type TSignedSize; in assureBandedRestriction_() typedef
809 TSignedSize lenH = length(pairSet[0]); in assureBandedRestriction_()
810 TSignedSize lenV = length(pairSet[1]); in assureBandedRestriction_()
811 TSignedSize halfWidth = bandWidth / 2; in assureBandedRestriction_()
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/index/
H A Dindex_shims.h227 typedef typename MakeSigned<TSize>::Type TSignedSize; in createInvSuffixArray() typedef
235 for (TSignedSize job = 0; job < static_cast<TSignedSize>(length(splitter)); ++job) in createInvSuffixArray()
/dports/biology/seqan/seqan-library-2.4.0/include/seqan/index/
H A Dindex_shims.h227 typedef typename MakeSigned<TSize>::Type TSignedSize; in createInvSuffixArray() typedef
235 for (TSignedSize job = 0; job < static_cast<TSignedSize>(length(splitter)); ++job) in createInvSuffixArray()

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