Functions — github.com/RagnarGrootKoerkamp/astar-pairwise-aligner

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Functions930 in github.com/RagnarGrootKoerkamp/astar-pairwise-aligner

⨍ Functions 930◇ Types & classes 197

Methodexpand_blocks

( &mut self, _poss: [Pos; 4], _sizes: [Pos; 4], _g: Cost, _f: Cost,

pa-vis/src/lib.rs:72

Methodexpand_blocks

( &mut self, poss: [Pos; 4], sizes: [Pos; 4], g: Cost, f: Cost,

pa-vis/src/visualizer.rs:298

Methodexpand_preprune

(&mut self, _pos: Pos)

pa-vis/src/lib.rs:58

Methodexpand_preprune

(&mut self, pos: Pos)

pa-vis/src/visualizer.rs:166

Methodexpand_trace

(&mut self, _pos: Pos)

pa-vis/src/lib.rs:60

Methodexplore

( &mut self, _pos: Pos, _g: Cost, _f: Cost, _h: Option<&HI>, )

pa-vis/src/lib.rs:34

Methodexplore

Tells the heuristic that the position was explored, so it knows which positions need to be updated when propagating the pruning to the priority queue.

pa-heuristic/src/heuristic.rs:162

Methodexplore

(&mut self, pos: Pos)

pa-heuristic/src/heuristic/sh.rs:152

Methodexplore

Update the max_explored_pos, so we know when the priority queue can be shifted after a prune.

pa-heuristic/src/heuristic/csh.rs:557

Methodexplore

(&mut self, pos: Pos)

pa-heuristic/src/heuristic/wrappers.rs:105

Methodextend

( &mut self, _pos: Pos, _g: Cost, _f: Cost, _h: Option<&HI>, )

pa-vis/src/lib.rs:50

Methodextend

(&mut self, pos: Pos, g: Cost, f: Cost, h: Option<&H>)

pa-vis/src/visualizer.rs:158

Functionextend_diagonal_packed

(direction: Direction, a: Seq, b: Seq, d: Fr, mut fr: Fr)

pa-base-algos/src/dt.rs:306

Methodextend_preprune

(&mut self, _pos: Pos)

pa-vis/src/lib.rs:59

Methodextend_preprune

(&mut self, pos: Pos)

pa-vis/src/visualizer.rs:172

Methodextend_trace

(&mut self, _pos: Pos)

pa-vis/src/lib.rs:61

Methodf_call

(&mut self, _pos: Pos, _in_bounds: bool, _fixed: bool)

pa-vis/src/lib.rs:83

Functionfast_100

(bench: &mut Bencher)

astarpa/benches/benchmark.rs:56

Functionfast_1000

(bench: &mut Bencher)

astarpa/benches/benchmark.rs:66

Functionfast_10000

(bench: &mut Bencher)

astarpa/benches/benchmark.rs:76

Functionfast_50000_similar

(bench: &mut Bencher)

astarpa/benches/benchmark.rs:86

Methodfaster

(&mut self)

pa-web/src/interaction.rs:81

Functionfill

Same as `compute`, but returns all computed value.

pa-bitpacking/src/scalar.rs:405

Functionfill

Compute a rectangular block of values. Inputs: `a`: horizontal sequence `b`: vertical sequence `h`: horizontal input (top) & output (bottom) differen

pa-bitpacking/src/simd.rs:311

Methodfill_background

(&mut self, _color: canvas::Color)

pa-web/src/html.rs:41

Methodfill_background

(&mut self, color: Color)

pa-vis/src/sdl.rs:88

Methodfill_rect

(&mut self, CPos(x, y): CPos, w: I, h: I, color: canvas::Color)

pa-web/src/html.rs:51

Methodfill_rects

(&mut self, rects: &[(CPos, I, I)], color: Color)

pa-vis/src/canvas.rs:97

Methodfirst_col

(j_range: JRange)

pa-base-algos/src/nw/bitpacking.rs:225

Methodfirst_col

()

pa-base-algos/src/nw/front.rs:14

Methodfirst_col

(cm: &AffineCost<N>, j_range: JRange)

pa-base-algos/src/nw/affine.rs:86

Methodfirst_col

()

astarpa2/src/ranges.rs:24

Methodfirst_col

The initial block for the first column.

astarpa2/src/block.rs:51

Methodfixed_h

(&mut self, _start: Pos, _end: Pos)

pa-vis/src/lib.rs:86

Methodfixed_j_range

(&self)

pa-base-algos/src/nw/bitpacking.rs:146

Methodfixed_j_range

(&self)

pa-base-algos/src/nw/affine.rs:65

Methodfixed_j_range

(&mut self, _start: Pos, _end: Pos)

pa-vis/src/lib.rs:85

Methodfixed_j_range

(&mut self, start: Pos, end: Pos)

pa-vis/src/visualizer.rs:212

Methodfmt

(&self, f: &mut std::fmt::Formatter<'_>)

pa-base-algos/src/nw.rs:383

Methodfmt

(&'a self, f: &mut std::fmt::Formatter<'_>)

pa-base-algos/src/front.rs:44

Methodfmt

(&self, f: &mut std::fmt::Formatter<'_>)

pa-base-algos/src/dt.rs:88

Methodfmt

(&self, f: &mut std::fmt::Formatter<'_>)

pa-heuristic/src/contour.rs:71

Methodfmt

(&self, f: &mut std::fmt::Formatter<'_>)

pa-heuristic/src/heuristic/csh.rs:114

Methodfmt

(&self, f: &mut std::fmt::Formatter<'_>)

astarpa/src/alignment_graph.rs:72

Methodfr

(Pos(i, j): Pos)

astarpa/src/alignment_graph.rs:91

Methodfrom

(r: Range<I>)

pa-base-algos/src/nw/front.rs:23

Methodfrom

(op: CigarOp)

pa-affine-types/src/cigar.rs:58

Methodfrom

(CostModel { sub, open, extend }: CostModel)

pa-affine-types/src/cost_model.rs:79

Methodfrom

(p: B, m: B)

pa-bitpacking/src/encoding.rs:16

Methodfrom_pos

(Pos(i, j): Pos)

astarpa-next/src/compressed_history.rs:77

Methodfrom_pos

(p: Pos, s: Cost)

pa-base-algos/src/dt.rs:232

Methodfrom_pos

(_: Pos)

pa-heuristic/src/heuristic.rs:71

Methodfrom_pos

(Pos(i, j): Pos, g: Cost)

astarpa/src/alignment_graph.rs:78

Methodfrom_t

(t: &(DtPos, I))

astarpa/src/astar_dt.rs:28

Methodfrom_t

(t: &(Pos, Cost))

astarpa/src/astar.rs:29

Methodfull

()

pa-base-algos/src/lib.rs:179

Methodfull

()

astarpa2/src/params.rs:98

Methodgap_gap

()

pa-base-algos/src/lib.rs:185

Methodgap_gap

()

astarpa2/src/params.rs:268

Methodgap_start

()

pa-base-algos/src/lib.rs:182

Methodgap_start

()

astarpa2/src/params.rs:265

Functionget

(id: &str)

pa-web/src/html.rs:30

Methodget_char

(c: u8)

pa-bitpacking/src/profile.rs:30

Methodget_mask

(c: u8)

pa-bitpacking/src/profile.rs:39

Methodh

(&self, _pos: Pos)

pa-heuristic/src/heuristic/distances.rs:48

Methodh_call

(&mut self, _pos: Pos)

pa-vis/src/lib.rs:82

Methodh_with_hint

(&self, pos: Pos, hint: Self::Hint)

pa-heuristic/src/heuristic/wrappers.rs:82

Methodh_with_hint_timed

(&mut self, pos: Pos, hint: Self::Hint)

pa-heuristic/src/heuristic.rs:128

Methodh_with_hint_timed

(&mut self, pos: Pos, hint: Self::Hint)

pa-heuristic/src/heuristic/csh.rs:378

Methodh_with_parent

(&self, pos: Pos)

pa-heuristic/src/heuristic.rs:119

Methodh_with_parent

(&self, pos: Pos)

pa-heuristic/src/heuristic/wrappers.rs:119

Methodh_with_parent

(&self, pos: Pos)

pa-heuristic/src/heuristic/bruteforce_gcsh.rs:136

Functionhash_matches_exact

()

pa-heuristic/src/matches/exact.rs:481

Functionhash_matches_inexact

()

pa-heuristic/src/matches/inexact.rs:387

Functionhint_contours_overly_greedy_shift

()

astarpa/src/tests.rs:127

Functionincremental_doubling

()

astarpa2/src/tests.rs:107

Methodindex

(&self, index: usize)

pa-heuristic/src/split_vec.rs:38

Methodindex_mut

(&mut self, index: usize)

pa-base-algos/src/nw/bitpacking.rs:328

Methodindex_mut

(&mut self, index: usize)

astarpa2/src/blocks.rs:132

Methodindex_mut

(&mut self, index: usize)

pa-heuristic/src/split_vec.rs:48

Methodinexact

(k: I)

pa-heuristic/src/matches.rs:416

Methodinit

(&mut self, mut initial_j_range: JRange)

pa-base-algos/src/nw/bitpacking.rs:344

Methodinit

(a: Seq, b: Seq)

astarpa/src/stats.rs:50

Methodins_or

(&self, default: U, f: F)

pa-affine-types/src/cost_model.rs:344

Methodinto

(self)

pa-base-algos/src/nw/front.rs:29

Methodis_match

(a: &[Self::A], b: &[Self::B], i: I, j: I)

pa-bitpacking/src/profile.rs:72

Methodis_root

(&self)

pa-base-algos/src/edit_graph.rs:21

Methodis_seed_start_or_end

A* will checked for consistency whenever this returns true.

pa-heuristic/src/heuristic.rs:137

Methodis_seed_start_or_end

(&self, pos: Pos)

pa-heuristic/src/heuristic/wrappers.rs:69

Methoditerate_children_dt

Same as iterate_parent, but in the other direction.

pa-base-algos/src/edit_graph.rs:265

Methoditerate_layers

Iterate over the states/layers at the given position in 'the right' order, making sure dependencies within the states at the given position come first

pa-base-algos/src/edit_graph.rs:82

Methoditerate_parents

Iterate over the parents of the given state by calling `f` for each of them. Parents of a state are closer to (0,0) that the state itself. `iterate_c

pa-base-algos/src/edit_graph.rs:95

Methoditerate_parents_dt

Iterates parents for DT algorithms. Here, the exact position of the edge is not known until after the potential edge has been looked up. Thus, we spli

pa-base-algos/src/edit_graph.rs:179

Methoditerate_points

Arguments: - Point in contour

pa-heuristic/src/contour.rs:56

Methoditerate_points

(&self, mut f: F)

pa-heuristic/src/contour/rotate_to_front.rs:82

Functioniterators

()

pa-heuristic/src/matches/qgrams.rs:127

Methodj_range

(&self)

pa-base-algos/src/nw/bitpacking.rs:140

Methodj_range

(&mut self, _start: Pos, _end: Pos)

pa-vis/src/lib.rs:84

Methodj_range

(&mut self, start: Pos, end: Pos)

pa-vis/src/visualizer.rs:202

Methodj_range_rounded

The j_range, rounded to blocksize. This should only really be used for visualizer purposes. The NW algorithm itself should be agnostic to block size i

pa-base-algos/src/nw/front.rs:75

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