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r1026: fixed bugs in seed sampling add hifi

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Heng Li
2021-05-01 15:07:56 -04:00
parent feb92d32ea
commit 7edeec67b0
3 changed files with 27 additions and 14 deletions
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options.c
+7 -1
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@@ -26,7 +26,7 @@ void mm_mapopt_init(mm_mapopt_t *opt)
opt->max_chain_skip = 25;
opt->max_chain_iter = 5000;
opt->chain_gap_scale = 1.0f;
opt->max_max_occ = 5000;
opt->max_max_occ = 4095;
opt->occ_dist = 0;
opt->mask_level = 0.5f;
@@ -91,6 +91,12 @@ int mm_set_opt(const char *preset, mm_idxopt_t *io, mm_mapopt_t *mo)
io->flag |= MM_I_HPC, io->k = 19;
} else if (strcmp(preset, "map-ont") == 0) {
io->flag = 0, io->k = 15;
} else if (strcmp(preset, "hifi") == 0 || strcmp(preset, "ccs") == 0) {
io->flag = 0, io->k = 19, io->w = 19;
mo->a = 1, mo->b = 4, mo->q = 6, mo->q2 = 26, mo->e = 2, mo->e2 = 1;
mo->occ_dist = 100;
mo->min_mid_occ = 100;
mo->min_dp_max = 200;
} else if (strcmp(preset, "asm5") == 0) {
io->flag = 0, io->k = 19, io->w = 19;
mo->a = 1, mo->b = 19, mo->q = 39, mo->q2 = 81, mo->e = 3, mo->e2 = 1, mo->zdrop = mo->zdrop_inv = 200;