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/dports/biology/seqan/seqan-library-2.4.0/include/seqan/index/
H A Dindex_bidirectional_stree.h67 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 …]
H A Dindex_fm_right_array_binary_tree_iterator.h60 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 …]
H A Dindex_sa_truncated.h58 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()
H A Dindex_qgram_bucketrefinement.h145 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 …]
H A Dindex_fm_stree.h155 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 …]
H A Dfind2_vstree_factory.h137 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…
H A Dindex_esa_stree.h188 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,
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/dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/index/
H A Dindex_bidirectional_stree.h67 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 …]
H A Dindex_fm_right_array_binary_tree_iterator.h60 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));
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H A Dindex_sa_truncated.h58 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()
H A Dindex_qgram_bucketrefinement.h145 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 …]
H A Dindex_fm_stree.h155 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 …]
H A Dfind2_vstree_factory.h137 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…
H A Dindex_esa_stree.h188 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,
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/ms/omssa/
H A Dmsms.cpp205 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 …]
/dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/index/
H A Dindex_fm_right_array_binary_tree_iterator.h60 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 …]
H A Dindex_sa_truncated.h58 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()
H A Dindex_qgram_bucketrefinement.h145 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 …]
H A Dindex_fm_stree.h155 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 …]
H A Dindex_esa_stree.h66 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,
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H A Dfind2_vstree_factory.h137 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…
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/tests/index/
H A Dtest_index_fm_stree.h317 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()
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H A Dtest_stree_iterators.h51 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 …]
/dports/biology/seqan/seqan-library-2.4.0/share/doc/seqan/html/demos/dox/index/
H A Dbegin_atEnd_representative.cpp10 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()
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/demos/dox/index/
H A Dbegin_atEnd_representative.cpp10 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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