| /dports/biology/seqan1/seqan-1.3.1/seqan/seeds/ |
| H A D | banded_align.h | 116 goPrevious(finger2, 0); in _bandedNeedlemanWunsch()
143 goPrevious(finger1,0); in _bandedNeedlemanWunsch()
144 goPrevious(finger3,1); in _bandedNeedlemanWunsch()
159 goPrevious(finger2); in _bandedNeedlemanWunsch()
161 goPrevious(finger1); in _bandedNeedlemanWunsch()
172 goPrevious(finger3); in _bandedNeedlemanWunsch()
178 goPrevious(finger1,0); in _bandedNeedlemanWunsch()
179 goPrevious(finger3,1); in _bandedNeedlemanWunsch()
193 goPrevious(finger2); in _bandedNeedlemanWunsch()
195 goPrevious(finger1); in _bandedNeedlemanWunsch()
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| H A D | banded_chain_align_affine.h | 582 goPrevious(matr_it,0); in _calculateBandedSeedGotoh()
611 goPrevious(matr_it,0); in _calculateBandedSeedGotoh()
860 goPrevious(matr_it,0); in _calculateRectangleGotoh()
980 goPrevious(col_diag,1); in _gotohRectangle()
984 goPrevious(col_vert,1); in _gotohRectangle()
988 goPrevious(col_hori,1); in _gotohRectangle()
1029 goPrevious(col_hori,1); in _gotohRectangle()
1035 goPrevious(col_vert,1); in _gotohRectangle()
1522 goPrevious(col_diag,1); in _bandedGotohRectangleFirst()
1526 goPrevious(col_vert,1); in _bandedGotohRectangleFirst()
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| H A D | banded_chain_align.h | 292 goPrevious(finger1,0); in _bandedNeedlemanWunsch()
293 goPrevious(finger3,1); in _bandedNeedlemanWunsch()
308 goPrevious(finger2); in _bandedNeedlemanWunsch()
310 goPrevious(finger1); in _bandedNeedlemanWunsch()
321 goPrevious(finger3); in _bandedNeedlemanWunsch()
327 goPrevious(finger1,0); in _bandedNeedlemanWunsch()
342 goPrevious(finger2); in _bandedNeedlemanWunsch()
344 goPrevious(finger1); in _bandedNeedlemanWunsch()
418 goPrevious(it_, 0); in _bandedNeedlemanWunschTrace2()
969 goPrevious(col_,1); in _needlemanWunschRectangle()
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| /dports/biology/seqan1/seqan-1.3.1/seqan/seeds2/ |
| H A D | align_dynprog_affine.h | 183 goPrevious(otherItM, 1); in _alignInitGutterFromBanded()
186 goPrevious(otherItIB, 1); in _alignInitGutterFromBanded()
383 goPrevious(sourceIt0); in _alignTraceback()
384 goPrevious(sourceIt1); in _alignTraceback()
385 goPrevious(alignmentIt0); in _alignTraceback()
386 goPrevious(alignmentIt1); in _alignTraceback()
418 goPrevious(sourceIt0); in _alignTraceback()
419 goPrevious(alignmentIt0); in _alignTraceback()
447 goPrevious(sourceIt1); in _alignTraceback()
448 goPrevious(alignmentIt1); in _alignTraceback()
[all …]
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| H A D | align_dynprog_banded_affine.h | 182 goPrevious(diagonalIt, 1); in _alignBandedInitGutterFromUnbanded()
186 goPrevious(horizontalIt, 1); in _alignBandedInitGutterFromUnbanded()
289 goPrevious(itMLeft, 1); in _alignBandedFillMatrix()
292 goPrevious(itIALeft, 1); in _alignBandedFillMatrix()
295 goPrevious(itIBLeft, 1); in _alignBandedFillMatrix()
316 goPrevious(itMLeft, 1); in _alignBandedFillMatrix()
320 goPrevious(itIALeft, 1); in _alignBandedFillMatrix()
326 goPrevious(itIBLeft, 1); in _alignBandedFillMatrix()
333 goPrevious(itMAbove, 1); in _alignBandedFillMatrix()
477 goPrevious(sourceIt0); in _alignBandedTraceback()
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| H A D | align_dynprog_linear.h | 154 goPrevious(srcIt, 1); in _alignInitGutterFromBanded()
307 goPrevious(it, 1); in _alignTraceback()
319 goPrevious(it, 0); in _alignTraceback()
362 goPrevious(tmpIt, 0); in _alignTraceback()
363 goPrevious(tmpIt, 1); in _alignTraceback()
370 goPrevious(it, 0); in _alignTraceback()
373 goPrevious(it, 1); in _alignTraceback()
377 goPrevious(it, 1); in _alignTraceback()
396 goPrevious(sourceIt0); in _alignTraceback()
399 goPrevious(matrixIt, 0); in _alignTraceback()
[all …]
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| H A D | align_dynprog_banded_linear.h | 177 goPrevious(it, 1); in _alignBandedInitGutterFromUnbanded()
243 goPrevious(itLeft, 1); in _alignBandedFillMatrix()
263 goPrevious(itLeft, 1); in _alignBandedFillMatrix()
269 goPrevious(itAbove, 1); in _alignBandedFillMatrix()
413 goPrevious(it, 1); in _alignBandedTraceback()
417 goPrevious(it, 0); in _alignBandedTraceback()
442 goPrevious(matrixIt, 0); in _alignBandedTraceback()
449 goPrevious(matrixIt, 0); in _alignBandedTraceback()
453 goPrevious(matrixIt, 1); in _alignBandedTraceback()
457 goPrevious(sourceIt0); in _alignBandedTraceback()
[all …]
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| /dports/biology/seqan1/seqan-1.3.1/seqan/align/ |
| H A D | align_dynprog.h | 94 goPrevious(finger1, 0); in _needlemanWunsch()
119 goPrevious(finger1, 0); in _needlemanWunsch()
120 goPrevious(finger2, 0); in _needlemanWunsch()
307 goPrevious(diag_finger1, 0); in _gotoh()
309 goPrevious(hori_finger1, 0); in _gotoh()
311 goPrevious(vert_finger1, 0); in _gotoh()
331 goPrevious(diag_col_, 1); in _gotoh()
336 goPrevious(hori_col_, 1); in _gotoh()
343 goPrevious(diag_finger1, 0); in _gotoh()
351 goPrevious(hori_finger1, 0); in _gotoh()
[all …]
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| H A D | align_local_dynprog.h | 279 goPrevious(finger1, 0); in _smithWatermanGetMatrix()
293 goPrevious(col_, 1); //points to this column in _smithWatermanGetMatrix()
300 goPrevious(finger1, 0); in _smithWatermanGetMatrix()
301 goPrevious(finger2, 0); in _smithWatermanGetMatrix()
431 goPrevious(forbidden,1); in _smithWatermanDeclump()
437 goPrevious(forbidden,1); in _smithWatermanDeclump()
441 goPrevious(forbidden,0); in _smithWatermanDeclump()
446 goPrevious(forbidden,0); in _smithWatermanDeclump()
471 goPrevious(finger0, 0); in _smithWatermanDeclump()
472 goPrevious(finger1, 0); in _smithWatermanDeclump()
[all …]
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| H A D | align_local_dynprog_banded.h | 111 goPrevious(matIt2, 1); in _alignBandedSmithWatermanTrace()
139 goPrevious(matIt, 1); in _alignBandedSmithWatermanTrace()
140 goPrevious(matIt2, 1); in _alignBandedSmithWatermanTrace()
145 goPrevious(matIt, 1); goNext(matIt, 0); in _alignBandedSmithWatermanTrace()
146 goPrevious(matIt2, 1); goNext(matIt2, 0); in _alignBandedSmithWatermanTrace()
152 goPrevious(matIt, 0); in _alignBandedSmithWatermanTrace()
153 goPrevious(matIt2, 0); in _alignBandedSmithWatermanTrace()
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| /dports/biology/seqan/seqan-library-2.4.0/include/seqan/align/ |
| H A D | local_alignment_waterman_eggert_impl.h | 240 goPrevious(finger1, 0); in _smithWatermanGetMatrix()
254 goPrevious(col_, 1); //points to this column in _smithWatermanGetMatrix()
261 goPrevious(finger1, 0); in _smithWatermanGetMatrix()
262 goPrevious(finger2, 0); in _smithWatermanGetMatrix()
417 goPrevious(forbidden,1); in _smithWatermanDeclump()
423 goPrevious(forbidden,1); in _smithWatermanDeclump()
427 goPrevious(forbidden,0); in _smithWatermanDeclump()
432 goPrevious(forbidden,0); in _smithWatermanDeclump()
457 goPrevious(finger0, 0); in _smithWatermanDeclump()
458 goPrevious(finger1, 0); in _smithWatermanDeclump()
[all …]
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| H A D | local_alignment_banded_waterman_eggert_impl.h | 400 goPrevious(matIt2, 1); in _alignBandedSmithWatermanTrace()
431 goPrevious(matIt, 1); in _alignBandedSmithWatermanTrace()
432 goPrevious(matIt2, 1); in _alignBandedSmithWatermanTrace()
440 goPrevious(matIt, 1); goNext(matIt, 0); in _alignBandedSmithWatermanTrace()
441 goPrevious(matIt2, 1); goNext(matIt2, 0); in _alignBandedSmithWatermanTrace()
449 goPrevious(matIt, 0); in _alignBandedSmithWatermanTrace()
450 goPrevious(matIt2, 0); in _alignBandedSmithWatermanTrace()
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| /dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/align/ |
| H A D | local_alignment_waterman_eggert_impl.h | 240 goPrevious(finger1, 0); in _smithWatermanGetMatrix()
254 goPrevious(col_, 1); //points to this column in _smithWatermanGetMatrix()
261 goPrevious(finger1, 0); in _smithWatermanGetMatrix()
262 goPrevious(finger2, 0); in _smithWatermanGetMatrix()
417 goPrevious(forbidden,1); in _smithWatermanDeclump()
423 goPrevious(forbidden,1); in _smithWatermanDeclump()
427 goPrevious(forbidden,0); in _smithWatermanDeclump()
432 goPrevious(forbidden,0); in _smithWatermanDeclump()
457 goPrevious(finger0, 0); in _smithWatermanDeclump()
458 goPrevious(finger1, 0); in _smithWatermanDeclump()
[all …]
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| H A D | local_alignment_banded_waterman_eggert_impl.h | 400 goPrevious(matIt2, 1); in _alignBandedSmithWatermanTrace()
431 goPrevious(matIt, 1); in _alignBandedSmithWatermanTrace()
432 goPrevious(matIt2, 1); in _alignBandedSmithWatermanTrace()
440 goPrevious(matIt, 1); goNext(matIt, 0); in _alignBandedSmithWatermanTrace()
441 goPrevious(matIt2, 1); goNext(matIt2, 0); in _alignBandedSmithWatermanTrace()
449 goPrevious(matIt, 0); in _alignBandedSmithWatermanTrace()
450 goPrevious(matIt2, 0); in _alignBandedSmithWatermanTrace()
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| /dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/align/ |
| H A D | local_alignment_waterman_eggert_impl.h | 242 goPrevious(finger1, 0); in _smithWatermanGetMatrix()
256 goPrevious(col_, 1); //points to this column in _smithWatermanGetMatrix()
263 goPrevious(finger1, 0); in _smithWatermanGetMatrix()
264 goPrevious(finger2, 0); in _smithWatermanGetMatrix()
417 goPrevious(forbidden,1); in _smithWatermanDeclump()
423 goPrevious(forbidden,1); in _smithWatermanDeclump()
427 goPrevious(forbidden,0); in _smithWatermanDeclump()
432 goPrevious(forbidden,0); in _smithWatermanDeclump()
457 goPrevious(finger0, 0); in _smithWatermanDeclump()
458 goPrevious(finger1, 0); in _smithWatermanDeclump()
[all …]
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| H A D | local_alignment_banded_waterman_eggert_impl.h | 400 goPrevious(matIt2, 1); in _alignBandedSmithWatermanTrace()
431 goPrevious(matIt, 1); in _alignBandedSmithWatermanTrace()
432 goPrevious(matIt2, 1); in _alignBandedSmithWatermanTrace()
440 goPrevious(matIt, 1); goNext(matIt, 0); in _alignBandedSmithWatermanTrace()
441 goPrevious(matIt2, 1); goNext(matIt2, 0); in _alignBandedSmithWatermanTrace()
449 goPrevious(matIt, 0); in _alignBandedSmithWatermanTrace()
450 goPrevious(matIt2, 0); in _alignBandedSmithWatermanTrace()
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| /dports/biology/seqan1/seqan-1.3.1/seqan/graph_types/ |
| H A D | graph_iterator_adjacency.h | 291 goPrevious(Iter<TGraph, GraphIterator<InternalAdjacencyIterator<TSpec> > >& it)
294 goPrevious(it.data_edge_it);
304 goPrevious(it);
316 goPrevious(it);
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| /dports/biology/seqan/seqan-library-2.4.0/include/seqan/graph_types/ |
| H A D | graph_iterator_adjacency.h | 290 goPrevious(Iter<TGraph, GraphIterator<InternalAdjacencyIterator<TSpec> > >& it)
292 goPrevious(it.data_edge_it);
301 goPrevious(it);
312 goPrevious(it);
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| /dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/graph_types/ |
| H A D | graph_iterator_adjacency.h | 290 goPrevious(Iter<TGraph, GraphIterator<InternalAdjacencyIterator<TSpec> > >& it)
292 goPrevious(it.data_edge_it);
301 goPrevious(it);
312 goPrevious(it);
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| /dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/graph_types/ |
| H A D | graph_iterator_adjacency.h | 306 goPrevious(Iter<TGraph, GraphIterator<InternalAdjacencyIterator<TSpec> > >& it)
309 goPrevious(it.data_edge_it);
319 goPrevious(it);
331 goPrevious(it);
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| /dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/store/ |
| H A D | store_align_intervals.h | 278 goPrevious(it1Gap); in extractAlignIntervals()
279 goPrevious(it2Gap); in extractAlignIntervals()
305 goPrevious(it1Gap); in extractAlignIntervals()
306 goPrevious(it2Gap); in extractAlignIntervals()
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| /dports/biology/seqan/seqan-library-2.4.0/include/seqan/store/ |
| H A D | store_align_intervals.h | 278 goPrevious(it1Gap); in extractAlignIntervals()
279 goPrevious(it2Gap); in extractAlignIntervals()
305 goPrevious(it1Gap); in extractAlignIntervals()
306 goPrevious(it2Gap); in extractAlignIntervals()
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| /dports/biology/pbseqan/seqan-21d95d737d8decb5cc3693b9065d81e831e7f57d/include/seqan/store/ |
| H A D | store_align_intervals.h | 278 goPrevious(it1Gap); in extractAlignIntervals()
279 goPrevious(it2Gap); in extractAlignIntervals()
305 goPrevious(it1Gap); in extractAlignIntervals()
306 goPrevious(it2Gap); in extractAlignIntervals()
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| /dports/biology/seqan1/seqan-1.3.1/seqan/store/ |
| H A D | store_align_intervals.h | 282 goPrevious(it1Gap); in extractAlignIntervals()
283 goPrevious(it2Gap); in extractAlignIntervals()
309 goPrevious(it1Gap); in extractAlignIntervals()
310 goPrevious(it2Gap); in extractAlignIntervals()
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| /dports/accessibility/orca/orca-41.1/src/orca/ |
| H A D | find.py | 219 moved = context.goPrevious( \
237 moved = context.goPrevious(flat_review.Context.LINE, \
257 moved = context.goPrevious( \
|