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Searched refs:max_overlap (Results 1 – 25 of 50) sorted by relevance

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/dports/misc/elki/elki-release0.7.1-1166-gfb1fffdf3/addons/xtree/src/main/java/de/lmu/ifi/dbs/elki/index/tree/spatial/rstarvariants/xtree/
H A DXTreeHeader.java51 private float max_overlap = (float) .2; field in XTreeHeader
70 …nimum, int leafMinimum, int min_fanout, long num_elements, int dimensionality, float max_overlap) { in XTreeHeader() argument
75 this.max_overlap = max_overlap; in XTreeHeader()
94 this.max_overlap = file.readFloat(); in readHeader()
112 file.writeFloat(max_overlap); in writeHeader()
128 return max_overlap; in getMaxOverlap()
H A DXTreeSettings.java50 public float max_overlap = .2f; field in XTreeSettings
/dports/biology/abyss/abyss-2.3.1/GapFiller/
H A Dgapfill.cpp171 if (seg1.size() > opt::max_overlap) in alignReadToGapFlanks()
172 a = seg1.substr(seg1.size() - opt::max_overlap); in alignReadToGapFlanks()
173 if (read.size() > opt::max_overlap) in alignReadToGapFlanks()
174 b = read.substr(0, opt::max_overlap); in alignReadToGapFlanks()
185 if (read.size() > opt::max_overlap) in alignReadToGapFlanks()
186 a = read.substr(read.size() - opt::max_overlap); in alignReadToGapFlanks()
187 if (seg2.size() > opt::max_overlap) in alignReadToGapFlanks()
188 b = seg2.substr(0, opt::max_overlap); in alignReadToGapFlanks()
227 int seg1_start = max(0, (int)(gap.first - opt::max_overlap)); in alignReadsToGapFlanks()
233 gap.second + opt::max_overlap); in alignReadsToGapFlanks()
H A Dgapfill.h8 static unsigned max_overlap = 500; variable
44 opt::max_overlap + opt::min_matches); in isNearGap()
/dports/biology/p5-BioPerl/BioPerl-1.7.7/lib/Bio/Search/
H A DBlastUtils.pm146 my $max_overlap = $sbjct->{'_overlap'};
163 …$qoverlap = &_adjust_contigs('query', $hsp, $qstart, $qstop, \@qcontigs, $max_overlap, $frame, $qs…
166 …$soverlap = &_adjust_contigs('sbjct', $hsp, $sstart, $sstop, \@scontigs, $max_overlap, $frame, $ss…
285 my ($seqType, $hsp, $start, $stop, $contigs_ref, $max_overlap, $frame, $strand) = @_;
305 if($start < $_->{'start'} and $stop > ($_->{'start'} + $max_overlap)) {
323 if($stop > $_->{'stop'} and $start < ($_->{'stop'} - $max_overlap)) {
H A DSearchUtils.pm171 my $max_overlap = $sbjct->overlap;
201 \@qcontigs, $max_overlap, $frame,
207 \@scontigs, $max_overlap, $frame,
388 $max_overlap, $frame, $strand) = @_;
403 if ($start < $_->{'start'} && $stop >= ($_->{'start'} + $max_overlap - 1)) {
428 if ($stop > $_->{'stop'} and $start <= ($_->{'stop'} - $max_overlap + 1)) {
466 if ($u_start < $i_start && $u_stop >= ($i_start + $max_overlap - 1)) {
503 elsif ($u_stop > $i_stop && $u_start <= ($i_stop - $max_overlap + 1)) {
/dports/textproc/p5-KinoSearch1/KinoSearch1-1.01/lib/KinoSearch1/Search/
H A DSimilarity.pm191 coord(sim, overlap, max_overlap)
194 U32 max_overlap;
196 RETVAL = sim->coord(sim, overlap, max_overlap);
326 Kino1_Sim_coord(Similarity *sim, U32 overlap, U32 max_overlap) {
327 if (max_overlap == 0)
329 return (float)overlap / (float)max_overlap;
/dports/biology/flash/FLASH-1.2.11/
H A Dflash.c818 long_overlap_percent, max_overlap, max_overlap); in warn_about_long_overlaps()
830 .max_overlap = 0, in main()
885 alg_params.max_overlap = strtol(optarg, &tmp, 10); in main()
886 if (tmp == optarg || *tmp || alg_params.max_overlap < 1) in main()
1071 alg_params.max_overlap = (int)(2 * read_len - fragment_len + in main()
1087 alg_params.max_overlap); in main()
1096 alg_params.max_overlap); in main()
1101 if (alg_params.max_overlap < alg_params.min_overlap) { in main()
1107 alg_params.max_overlap, alg_params.min_overlap); in main()
1214 alg_params.max_overlap); in main()
[all …]
H A Dcombine_reads.c249 int min_overlap, int max_overlap, float max_mismatch_density, in pair_align() argument
286 float score_len = (float)min(overlap_len, max_overlap); in pair_align()
466 params->max_overlap, in combine_reads()
H A Dcombine_reads.h15 int max_overlap; member
/dports/graphics/graphviz/graphviz-2.44.1/lib/neatogen/
H A Doverlap.c378 real *max_overlap, real *min_overlap, in OverlapSmoother_new() argument
438 …ideal_distance_avoid_overlap(dim, sm->Lwd, x, width, (real*) (sm->Lwd->a), max_overlap, min_overla… in OverlapSmoother_new()
441 if (*max_overlap < 1 && shrink){ in OverlapSmoother_new()
442 real scale_sta = MIN(1, *max_overlap*1.0001), scale_sto = 1; in OverlapSmoother_new()
444 … if (Verbose) fprintf(stderr," no overlap (overlap = %f), rescale to shrink\n", *max_overlap - 1); in OverlapSmoother_new()
448 *max_overlap = 1; in OverlapSmoother_new()
547 static int check_convergence(real max_overlap, real res, int has_penalty_terms, real epsilon){ in check_convergence() argument
548 if (!has_penalty_terms) return (max_overlap <= 1); in check_convergence()
571 real max_overlap = 0, min_overlap = 999; in remove_overlap() local
622 …&max_overlap, &min_overlap, edge_labeling_scheme, n_constr_nodes, constr_nodes, A_constr, shrink); in remove_overlap()
[all …]
H A Doverlap.h27 real *max_overlap, real *min_overlap,
/dports/biology/abyss/abyss-2.3.1/DAssembler/
H A DDAssembler.cpp28 static unsigned max_overlap = 10; variable
202 || new_overlap > opt::max_overlap) in find_complex_overlap()
399 case 'o': arg >> opt::max_overlap; break; in main()
419 } else if (opt::max_overlap > (opt::read_length-1)){ in main()
434 "\n max_overlap: " << opt::max_overlap << in main()
540 cout << ">p" << opt::max_overlap << "_" << in main()
/dports/comms/gnuradio/gnuradio-3.8.4.0/gr-digital/python/digital/utils/
H A Dalignment.py117 max_overlap = max(len(d1), len(d2))
119 indices = random_sample(max_overlap, num_samples, seed)
/dports/misc/py-mxnet/incubator-mxnet-1.9.0/src/operator/contrib/
H A Dmultibox_target.cc115 float max_overlap = 1e-6; // start with a very small positive overlap in MultiBoxTargetForward() local
126 if (iou > max_overlap) { in MultiBoxTargetForward()
129 max_overlap = iou; in MultiBoxTargetForward()
140 max_matches[best_anchor].first = max_overlap; in MultiBoxTargetForward()
/dports/misc/mxnet/incubator-mxnet-1.9.0/src/operator/contrib/
H A Dmultibox_target.cc115 float max_overlap = 1e-6; // start with a very small positive overlap in MultiBoxTargetForward() local
126 if (iou > max_overlap) { in MultiBoxTargetForward()
129 max_overlap = iou; in MultiBoxTargetForward()
140 max_matches[best_anchor].first = max_overlap; in MultiBoxTargetForward()
/dports/misc/py-orange3-timeseries/orange3-timeseries-0.3.10/orangecontrib/timeseries/widgets/
H A Dowtimeslice.py510 max_overlap = k
518 max_overlap = k
523 max_overlap = k
527 *_, max_overlap = self.STEP_SIZES.keys()
536 while next_item != max_overlap:
/dports/net/waypipe/waypipe-a11a59c58bee3972ce9e1e18731eba28cc0a8f0a/protocols/
H A Dsymgen.py71 max_overlap = 0
76 if d >= max_overlap:
77 max_overlap = d
/dports/x11-wm/mutter/mutter-41.1/cogl/cogl/
H A Dcogl-xlib-renderer.c607 int max_overlap = 0; in _cogl_xlib_renderer_output_for_rectangle() local
625 if (overlap > max_overlap) in _cogl_xlib_renderer_output_for_rectangle()
627 max_overlap = overlap; in _cogl_xlib_renderer_output_for_rectangle()
/dports/graphics/cogl/cogl-1.22.8/cogl/
H A Dcogl-xlib-renderer.c641 int max_overlap = 0; in _cogl_xlib_renderer_output_for_rectangle() local
659 if (overlap > max_overlap) in _cogl_xlib_renderer_output_for_rectangle()
661 max_overlap = overlap; in _cogl_xlib_renderer_output_for_rectangle()
/dports/x11-wm/muffin/muffin-4.8.0/cogl/cogl/
H A Dcogl-xlib-renderer.c638 int max_overlap = 0; in _cogl_xlib_renderer_output_for_rectangle() local
656 if (overlap > max_overlap) in _cogl_xlib_renderer_output_for_rectangle()
658 max_overlap = overlap; in _cogl_xlib_renderer_output_for_rectangle()
/dports/devel/hyperscan/hyperscan-5.4.0/src/rose/
H A Drose_build_misc.cpp297 size_t max_overlap = 0; in findNonOverlappingTail() local
302 max_overlap = max(max_overlap, overlap); in findNonOverlappingTail()
306 ue2_literal tail = s.substr(max_overlap); in findNonOverlappingTail()
307 DEBUG_PRINTF("%zu overlap, tail: '%s'\n", max_overlap, in findNonOverlappingTail()
/dports/math/gap/gap-4.11.0/pkg/semigroups-3.2.3/libsemigroups/docs/docs/yml/
H A Dfpsemigroup_knuth_bendix.yml54 - max_overlap
/dports/games/renpy/renpy-7.4.11-sdk/renpy/display/
H A Ddragdrop.py900 max_overlap = 0
924 overlap >= max_overlap and
929 max_overlap = overlap
931 if max_overlap <= 0:
/dports/science/cp2k/cp2k-2e995eec7fd208c8a72d9544807bd8b8ba8cd1cc/src/
H A Dxas_tp_scf.F410 REAL(KIND=dp) :: component, dist, max_overlap, ra(3), & local
516 max_overlap = 0.0_dp
540 IF (sto_state_overlap .GT. max_overlap) THEN
541 max_overlap = sto_state_overlap

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