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backup for minimizer

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chhylp123
2022-09-28 11:16:09 -04:00
parent 236bc7b9ee
commit 20a7dac82a
7 changed files with 812 additions and 80 deletions
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12
inter.cpp
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@@ -6050,7 +6050,7 @@ static void worker_for_ul_rescall_alignment(void *data, long i, int tid) // call
// if(s->id+i!=41927 && s->id+i!=47072 && s->id+i!=67641 && s->id+i!=90305 && s->id+i!=698342 && s->id+i!=329421) {
// return;
// }
// if((s->id+i!=230) /**&& (s->id+i!=44) && (s->id+i!=948)**/) return;
if((s->id+i!=1) /**&& (s->id+i!=44) && (s->id+i!=948)**/) return;
// fprintf(stderr, "\n[M::%s] rid::%ld, len::%lu, name::%.*s\n", __func__, s->id+i, s->len[i],
// (int32_t)UL_INF.nid.a[s->id+i].n, UL_INF.nid.a[s->id+i].a);
@@ -6073,7 +6073,7 @@ static void worker_for_ul_rescall_alignment(void *data, long i, int tid) // call
// memset(&b->self_read, 0, sizeof(b->self_read));
ul_lalign(&b->olist, &b->clist, s->uu, s->seq[i], s->len[i], &b->self_read, &b->ovlp_read,
&b->correct, &b->exz, &b->hap, &b->r_buf, s->opt->diff_ec_ul, winLen, NULL, s->id+i, NULL);
&b->correct, &b->exz, &b->hap, &b->r_buf, s->opt->diff_ec_ul, winLen, NULL, s->id+i, s->opt->k, NULL);
// ul_lalign_old_ed(&b->olist, &b->clist, s->uu, s->seq[i], s->len[i], &b->self_read, &b->ovlp_read,
// &b->correct, &b->hap, &b->r_buf, s->opt->diff_ec_ul, winLen, 1, NULL);
ton = b->olist.length;//all alignments pass similary check
@@ -6086,13 +6086,13 @@ static void worker_for_ul_rescall_alignment(void *data, long i, int tid) // call
filter_topN(&b->olist, &(bl->lo), s->len[i], winLen, UL_TOPN, bl);
// update_shared_intervals(&b->olist, s->uu, s->uopt, NULL, &b->ovlp_read, &b->r_buf, &(s->sps[tid]), s->len[i], winLen, &(bl->lo), s->id+i);
copy_asg_arr(b0, b->r_buf.a); copy_asg_arr(b1, s->sps[tid]); copy_asg_arr(b2, b->hap.snp_srt);
copy_asg_arr(b0, b->hap.snp_srt); copy_asg_arr(b1, s->sps[tid]); copy_asg_arr(b2, b->r_buf.a);
// update_shared_intervals(&b->olist, s->uu, s->uopt, NULL, &b->ovlp_read, &b0, &b1, &b2, s->len[i], winLen, &(bl->lo), s->id+i);
update_sketch_trace(&b->olist, s->uu, s->uopt, NULL, &b->ovlp_read, &b0, &b1, &b2, s->len[i], winLen, &(bl->lo), s->id+i);
copy_asg_arr(b->r_buf.a, b0); copy_asg_arr(s->sps[tid], b1); copy_asg_arr(b->hap.snp_srt, b2);
update_sketch_trace(&b->olist, s->uu, s->uopt, NULL, &b->ovlp_read, &b0, &b1, &b2, s->len[i], winLen, &(bl->lo), s->id+i, MAX_LGAP(s->len[i]), s->opt->diff_ec_ul);
copy_asg_arr(b->hap.snp_srt, b0); copy_asg_arr(s->sps[tid], b1); copy_asg_arr(b->r_buf.a, b2);
ul_lalign(&b->olist, &b->clist, s->uu, s->seq[i], s->len[i], &b->self_read, &b->ovlp_read,
&b->correct, &b->exz, &b->hap, &b->r_buf, s->opt->diff_ec_ul, winLen, &(bl->lo), s->id+i, NULL);
&b->correct, &b->exz, &b->hap, &b->r_buf, s->opt->diff_ec_ul, winLen, &(bl->lo), s->id+i, s->opt->k, NULL);
// ul_lalign_old_ed(&b->olist, &b->clist, s->uu, s->seq[i], s->len[i], &b->self_read, &b->ovlp_read,
// &b->correct, &b->hap, &b->r_buf, s->opt->diff_ec_ul, winLen, 0, NULL);
}