/dports/biology/seqan/seqan-library-2.4.0/include/seqan/index/ |
H A D | index_bidirectional_stree.h | 67 typedef Iter<TFwdIndex, VSTree<TopDown<TSpec> > > TFwdIndexIter; 68 typedef Iter<TRevIndex, VSTree<TopDown<TSpec> > > TRevIndexIter; 85 Iter(Iter<TBiIndex, VSTree<TopDown<TSpec2> > > const &_origin): in Iter() 130 …ex<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > & _iter(Iter<Index<TText, BidirectionalIndex<TInd… in _iter() 136 …TText, TIndexSpec>, VSTree<TopDown<TSpec> > > const & _iter(Iter<Index<TText, BidirectionalIndex<T… in _iter() 159 goDown(Iter<Index<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > & it, in goDown() 167 goDown(Iter<Index<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > & it, in goDown() 176 goDown(Iter<Index<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > & it, in goDown() 186 goDown(Iter<Index<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > &, in goDown() 195 goDown(Iter<Index<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > & it, in goDown() [all …]
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H A D | index_fm_right_array_binary_tree_iterator.h | 60 struct Iterator<RightArrayBinaryTree<TChar, TSpec>, TopDown<TIterSpec> > 66 struct Iterator<RightArrayBinaryTree<TChar, TSpec> const, TopDown<TIterSpec> > 103 class Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > 125 class Iter<TTree, RightArrayBinaryTreeIterator<TopDown<ParentLinks<TSpec> > > > : 126 public Iter<TTree, RightArrayBinaryTreeIterator<TopDown<> > > 128 typedef Iter<TTree, RightArrayBinaryTreeIterator<TopDown<> > > TBase; 198 container(Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > & it) 205 container(Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > const & it) 255 getCharacter(Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > const & iter) 305 Iter<TTree, RightArrayBinaryTreeIterator<TopDown<> > > _it(container(it)); [all …]
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H A D | index_sa_truncated.h | 58 class Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec> > > > : 59 public Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<TSpec> > > 63 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; 113 inline bool _isLeaf(Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec> > > > … in _isLeaf() 117 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; in _isLeaf() 123 inline bool isRightTerminal(Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec… in isRightTerminal() 126 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; in isRightTerminal() 133 getEmptyEdges(Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec> > > > const … in getEmptyEdges() 136 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; in getEmptyEdges()
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H A D | index_qgram_bucketrefinement.h | 145 class Iter<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<TSpec> > > 149 typedef Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > TParentLinksIter; 152 typedef typename Iterator<TTopIndex, TopDown<TSpec> >::Type TTopIterator; 155 typedef typename Iterator<TBottomIndex, TopDown<TSpec> >::Type TBottomIterator; 194 class Iter<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<ParentLinks<TSpe… 198 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; 201 typedef typename Iterator<TTopIndex, TopDown<ParentLinks<TSpec> > >::Type TTopIterator; 204 typedef typename Iterator<TBottomIndex, TopDown<ParentLinks<TSpec> > >::Type TBottomIterator; 305 struct Iterator<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<TSpec> > > 307 …typedef Iter<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<TSpec> > > … [all …]
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H A D | index_fm_stree.h | 155 VSTree< TopDown< ParentLinks<TIterSpec> > > > > 256 _getNodeByChar(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > const &… 315 _goDown(Iter<Index<TText, FMIndex<TOccSpec,TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 323 _goDown(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 347 _goDownString(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > &it, 390 _goRight(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 398 _goRight(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 436 _goUp(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it) 446 _goUp(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<ParentLinks<TSpec> > > > & … 477 _historyPush(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec > >, VSTree<TopDown<TSpec> > > & it) [all …]
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H A D | find2_vstree_factory.h | 137 struct Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > : 232 inline typename View<Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > >::Type 233 view(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory) 235 … typename View<Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > >::Type factoryView; 256 setMaxHistoryLength(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory, TSize… 272 setMaxObjects(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory, TSize maxOb… 288 build(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory) 309 inline Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > 310 getObject(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory, TId objectId) 314 …Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > it(_host(factory, typename IsView<TIndex>::Ty…
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H A D | index_esa_stree.h | 188 class Iter< TIndex, VSTree< TopDown<TSpec> > > 330 public Iter< TIndex, VSTree< TopDown<> > > 504 struct Iterator< TObject, TopDown<TSpec> > { 505 typedef Iter< TObject, VSTree< TopDown<TSpec> > > Type; 1314 Iter<TIndex, VSTree<TopDown<TTraits> > > temp(it); 1909 Iter< TIndex, VSTree< TopDown<TSpec> > > &node, 1959 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, 1969 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, 1982 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, 1991 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, [all …]
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/index/ |
H A D | index_bidirectional_stree.h | 67 typedef Iter<TFwdIndex, VSTree<TopDown<TSpec> > > TFwdIndexIter; 68 typedef Iter<TRevIndex, VSTree<TopDown<TSpec> > > TRevIndexIter; 85 Iter(Iter<TBiIndex, VSTree<TopDown<TSpec2> > > const &_origin): in Iter() 130 …ex<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > & _iter(Iter<Index<TText, BidirectionalIndex<TInd… in _iter() 136 …TText, TIndexSpec>, VSTree<TopDown<TSpec> > > const & _iter(Iter<Index<TText, BidirectionalIndex<T… in _iter() 159 goDown(Iter<Index<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > & it, in goDown() 167 goDown(Iter<Index<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > & it, in goDown() 176 goDown(Iter<Index<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > & it, in goDown() 186 goDown(Iter<Index<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > &, in goDown() 195 goDown(Iter<Index<TText, TIndexSpec>, VSTree<TopDown<TSpec> > > & it, in goDown() [all …]
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H A D | index_fm_right_array_binary_tree_iterator.h | 60 struct Iterator<RightArrayBinaryTree<TChar, TSpec>, TopDown<TIterSpec> > 66 struct Iterator<RightArrayBinaryTree<TChar, TSpec> const, TopDown<TIterSpec> > 103 class Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > 125 class Iter<TTree, RightArrayBinaryTreeIterator<TopDown<ParentLinks<TSpec> > > > : 126 public Iter<TTree, RightArrayBinaryTreeIterator<TopDown<> > > 128 typedef Iter<TTree, RightArrayBinaryTreeIterator<TopDown<> > > TBase; 198 container(Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > & it) 205 container(Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > const & it) 255 getCharacter(Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > const & iter) 305 Iter<TTree, RightArrayBinaryTreeIterator<TopDown<> > > _it(container(it)); [all …]
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H A D | index_sa_truncated.h | 58 class Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec> > > > : 59 public Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<TSpec> > > 63 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; 113 inline bool _isLeaf(Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec> > > > … in _isLeaf() 117 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; in _isLeaf() 123 inline bool isRightTerminal(Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec… in isRightTerminal() 126 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; in isRightTerminal() 133 getEmptyEdges(Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec> > > > const … in getEmptyEdges() 136 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; in getEmptyEdges()
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H A D | index_qgram_bucketrefinement.h | 145 class Iter<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<TSpec> > > 149 typedef Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > TParentLinksIter; 152 typedef typename Iterator<TTopIndex, TopDown<TSpec> >::Type TTopIterator; 155 typedef typename Iterator<TBottomIndex, TopDown<TSpec> >::Type TBottomIterator; 194 class Iter<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<ParentLinks<TSpe… 198 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; 201 typedef typename Iterator<TTopIndex, TopDown<ParentLinks<TSpec> > >::Type TTopIterator; 204 typedef typename Iterator<TBottomIndex, TopDown<ParentLinks<TSpec> > >::Type TBottomIterator; 305 struct Iterator<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<TSpec> > > 307 …typedef Iter<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<TSpec> > > … [all …]
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H A D | index_fm_stree.h | 155 VSTree< TopDown< ParentLinks<TIterSpec> > > > > 256 _getNodeByChar(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > const &… 315 _goDown(Iter<Index<TText, FMIndex<TOccSpec,TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 323 _goDown(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 347 _goDownString(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > &it, 390 _goRight(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 398 _goRight(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 436 _goUp(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it) 446 _goUp(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<ParentLinks<TSpec> > > > & … 477 _historyPush(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec > >, VSTree<TopDown<TSpec> > > & it) [all …]
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H A D | find2_vstree_factory.h | 137 struct Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > : 232 inline typename View<Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > >::Type 233 view(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory) 235 … typename View<Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > >::Type factoryView; 256 setMaxHistoryLength(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory, TSize… 272 setMaxObjects(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory, TSize maxOb… 288 build(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory) 309 inline Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > 310 getObject(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory, TId objectId) 314 …Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > it(_host(factory, typename IsView<TIndex>::Ty…
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H A D | index_esa_stree.h | 188 class Iter< TIndex, VSTree< TopDown<TSpec> > > 330 public Iter< TIndex, VSTree< TopDown<> > > 504 struct Iterator< TObject, TopDown<TSpec> > { 505 typedef Iter< TObject, VSTree< TopDown<TSpec> > > Type; 1314 Iter<TIndex, VSTree<TopDown<TTraits> > > temp(it); 1909 Iter< TIndex, VSTree< TopDown<TSpec> > > &node, 1959 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, 1969 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, 1982 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, 1991 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, [all …]
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/ms/omssa/ |
H A D | msms.cpp | 205 TopDown = false; in CTrypsin() 220 TopDown = false; in CCNBr() 235 TopDown = false; in CFormicAcid() 250 TopDown = false; in CArgC() 265 TopDown = false; in CChymotrypsin() 280 TopDown = false; in CLysC() 295 TopDown = false; in CLysCP() 310 TopDown = false; in CPepsinA() 325 TopDown = false; in CTrypCNBr() 340 TopDown = false; in CTrypChymo() [all …]
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/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/index/ |
H A D | index_fm_right_array_binary_tree_iterator.h | 60 struct Iterator<RightArrayBinaryTree<TChar, TSpec>, TopDown<TIterSpec> > 66 struct Iterator<RightArrayBinaryTree<TChar, TSpec> const, TopDown<TIterSpec> > 103 class Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > 125 class Iter<TTree, RightArrayBinaryTreeIterator<TopDown<ParentLinks<TSpec> > > > : 126 public Iter<TTree, RightArrayBinaryTreeIterator<TopDown<> > > 128 typedef Iter<TTree, RightArrayBinaryTreeIterator<TopDown<> > > TBase; 198 container(Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > & it) 205 container(Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > const & it) 255 getCharacter(Iter<TTree, RightArrayBinaryTreeIterator<TopDown<TIterSpec> > > const & iter) 305 Iter<TTree, RightArrayBinaryTreeIterator<TopDown<> > > _it(container(it)); [all …]
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H A D | index_sa_truncated.h | 58 class Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec> > > > : 59 public Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<TSpec> > > 63 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; 113 inline bool _isLeaf(Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec> > > > … in _isLeaf() 117 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; in _isLeaf() 123 inline bool isRightTerminal(Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec… in isRightTerminal() 126 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; in isRightTerminal() 133 getEmptyEdges(Iter<Index<TText, IndexSa<TIndexSpec> >, VSTree<TopDown<Truncated<TSpec> > > > const … in getEmptyEdges() 136 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; in getEmptyEdges()
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H A D | index_qgram_bucketrefinement.h | 145 class Iter<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<TSpec> > > 149 typedef Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > TParentLinksIter; 152 typedef typename Iterator<TTopIndex, TopDown<TSpec> >::Type TTopIterator; 155 typedef typename Iterator<TBottomIndex, TopDown<TSpec> >::Type TBottomIterator; 194 class Iter<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<ParentLinks<TSpe… 198 typedef Iter<TIndex, VSTree<TopDown<TSpec> > > TBase; 201 typedef typename Iterator<TTopIndex, TopDown<ParentLinks<TSpec> > >::Type TTopIterator; 204 typedef typename Iterator<TBottomIndex, TopDown<ParentLinks<TSpec> > >::Type TBottomIterator; 305 struct Iterator<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<TSpec> > > 307 …typedef Iter<Index<TText, IndexQGram<TShapeSpec, BucketRefinement> >, VSTree<TopDown<TSpec> > > … [all …]
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H A D | index_fm_stree.h | 155 VSTree< TopDown< ParentLinks<TIterSpec> > > > > 247 _getNodeByChar(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > const &… 272 _goDownChar(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, TCha… 300 _goDown(Iter<Index<TText, FMIndex<TOccSpec,TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 308 _goDown(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 335 _goDownString(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > &it, 377 _goRight(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 385 _goRight(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it, 420 _goUp(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec> >, VSTree<TopDown<TSpec> > > & it) 461 _historyPush(Iter<Index<TText, FMIndex<TOccSpec, TIndexSpec > >, VSTree<TopDown<TSpec> > > & it) [all …]
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H A D | index_esa_stree.h | 66 TTopDownIterator iter = begin(index, TopDown<>()); in SEQAN_CONCEPT_USAGE() 217 class Iter< TIndex, VSTree< TopDown<TSpec> > > 359 public Iter< TIndex, VSTree< TopDown<> > > 533 struct Iterator< TObject, TopDown<TSpec> > { 1343 Iter<TIndex, VSTree<TopDown<TTraits> > > temp(it); 1938 Iter< TIndex, VSTree< TopDown<TSpec> > > &node, 1988 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, 1998 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, 2011 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, 2020 Iter< TIndex, VSTree< TopDown<TSpec> > > &it, [all …]
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H A D | find2_vstree_factory.h | 137 struct Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > : 232 inline typename View<Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > >::Type 233 view(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory) 235 … typename View<Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > >::Type factoryView; 256 setMaxHistoryLength(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory, TSize… 272 setMaxObjects(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory, TSize maxOb… 288 build(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory) 309 inline SEQAN_HOST_DEVICE Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > 310 getObject(Factory<Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > > & factory, TId objectId) 314 …Iter<TIndex, VSTree<TopDown<ParentLinks<TSpec> > > > it(_host(factory, typename IsView<TIndex>::Ty…
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/tests/index/ |
H A D | test_index_fm_stree.h | 317 typedef TopDown<> TIterSpec; in SEQAN_DEFINE_TEST() 318 typedef TopDown<ParentLinks<> > TParentLinksIterSpec; in SEQAN_DEFINE_TEST() 339 typedef TopDown<> TIterSpec; in SEQAN_DEFINE_TEST() 340 typedef TopDown<ParentLinks<> > TParentLinksIterSpec; in SEQAN_DEFINE_TEST() 361 typedef TopDown<> TIterSpec; in SEQAN_DEFINE_TEST() 362 typedef TopDown<ParentLinks<> > TParentLinksIterSpec; in SEQAN_DEFINE_TEST() 383 typedef TopDown<> TIterSpec; in SEQAN_DEFINE_TEST() 384 typedef TopDown<ParentLinks<> > TParentLinksIterSpec; in SEQAN_DEFINE_TEST() 437 typedef TopDown<> TIterSpec; in SEQAN_DEFINE_TEST() 459 typedef TopDown<> TIterSpec; in SEQAN_DEFINE_TEST() [all …]
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H A D | test_stree_iterators.h | 51 Iterator<TIndex, TopDown<> >::Type iterator(index); in SEQAN_DEFINE_TEST() 68 Iterator<TIndex, TopDown<> >::Type iterator(index); in SEQAN_DEFINE_TEST() 92 Iterator<TIndex, TopDown<> >::Type iterator(index); in SEQAN_DEFINE_TEST() 109 typedef Iter<TIndex, VSTree<TopDown<> > > TIter; in SEQAN_DEFINE_TEST() 178 TopDown<> in SEQAN_DEFINE_TEST() 272 Iter<Index<TMulti>, VSTree< TopDown<EmptyEdges> > > it(esa); in SEQAN_DEFINE_TEST() 311 Iter<TIndex1, VSTree< TopDown< ParentLinks<Preorder> > > > it1(index1); in compareTreeIterators() 381 typedef typename Iterator<TIndex, TopDown<> >::Type TIterator; in testSTreeIterators() 723 Iterator< TIndex, TopDown<> >::Type it(index); in SEQAN_DEFINE_TEST() 730 typedef Iterator<TIndex, TopDown<> >::Type TIter; in SEQAN_DEFINE_TEST() [all …]
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/dports/biology/seqan/seqan-library-2.4.0/share/doc/seqan/html/demos/dox/index/ |
H A D | begin_atEnd_representative.cpp | 10 Iterator<TIndex, TopDown<ParentLinks<> > >::Type itDefault; in main() 11 itDefault = begin(index, TopDown<ParentLinks<> >()); in main() 21 Iterator<TIndex, TopDown<ParentLinks<Postorder> > >::Type itPostOrder; in main() 22 itPostOrder = begin(index, TopDown<ParentLinks<Postorder> >()); in main()
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/demos/dox/index/ |
H A D | begin_atEnd_representative.cpp | 10 Iterator<TIndex, TopDown<ParentLinks<> > >::Type itDefault; in main() 11 itDefault = begin(index, TopDown<ParentLinks<> >()); in main() 21 Iterator<TIndex, TopDown<ParentLinks<Postorder> > >::Type itPostOrder; in main() 22 itPostOrder = begin(index, TopDown<ParentLinks<Postorder> >()); in main()
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