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r1274: a little better pass-1

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Also fixed a bug in jump
This commit is contained in:
Heng Li
2025-04-13 13:55:15 -04:00
parent e88110463a
commit 819b3bf017
3 changed files with 31 additions and 13 deletions
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index.c
+7 -4
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@@ -902,7 +902,7 @@ static mm_idx_jjump_t *mm_idx_jjump_merge(const mm_idx_t *mi, const mm_idx_jjump
int mm_idx_jjump_read(mm_idx_t *mi, const char *fn, int flag, int min_sc)
{
int32_t i, n = 0;
int32_t i, j, n_anno = 0, n_misc = 0;
mm_idx_intv_t *I;
mm_idx_jjump_t *J;
if (mi->h == 0) mm_idx_index_name(mi);
@@ -919,10 +919,13 @@ int mm_idx_jjump_read(mm_idx_t *mi, const char *fn, int flag, int min_sc)
free(mi->J); free(J);
mi->J = J2;
} else mi->J = J;
for (i = 0; i < mi->n_seq; ++i)
n += mi->J[i].n;
for (i = 0; i < mi->n_seq; ++i) {
for (j = 0; j < mi->J[i].n; ++j)
if (mi->J[i].a[j].flag & MM_JUNC_ANNO) ++n_anno;
else ++n_misc;
}
if (mm_verbose >= 3)
fprintf(stderr, "[%s] there are %d splice positions in the index\n", __func__, n);
fprintf(stderr, "[%s] there are %d annotated and %d other splice positions in the index\n", __func__, n_anno, n_misc);
return 0;
}