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Merge pull request #35 from mcshane/sam_fix 

fix sam output for some unmapped queries
This commit is contained in:
Heng Li 2017-10-11 20:09:16 -04:00 committed by GitHub
parent 9364bc64d7 5498565157
commit ba6ddda6b0
1 changed files with 1 additions and 1 deletions
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2
format.c
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@ -301,7 +301,7 @@ void mm_write_sam2(kstring_t *s, const mm_idx_t *mi, const mm_bseq1_t *t, int se
if (r_prev) {
this_rid = r_prev->rid, this_pos = r_prev->rs;
mm_sprintf_lite(s, "\t%s\t%d\t0\t*", mi->seq[this_rid].name, this_pos);
} else mm_sprintf_lite(s, "\t0\t*\t0\t*");
} else mm_sprintf_lite(s, "\t*\t0\t0\t*");
} else {
this_rid = r->rid, this_pos = r->rs, this_rev = r->rev;
mm_sprintf_lite(s, "\t%s\t%d\t%d\t", mi->seq[r->rid].name, r->rs+1, r->mapq);