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fix a bug where bwa_sa2pos could return without setting strand

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Steven Leonard 2015-12-11 09:29:27 +00:00
parent 0911122749
commit f9ce2a6c73
1 changed files with 1 additions and 0 deletions
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bwase.c
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@ -113,6 +113,7 @@ bwtint_t bwa_sa2pos(const bntseq_t *bns, const bwt_t *bwt, bwtint_t sapos, int r
{
bwtint_t pos_f;
int is_rev;
*strand = 0; // initialise strand to 0 otherwise we could return without setting it
pos_f = bwt_sa(bwt, sapos); // position on the forward-reverse coordinate
if (pos_f < bns->l_pac && bns->l_pac < pos_f + ref_len) return (bwtint_t)-1;
pos_f = bns_depos(bns, pos_f, &is_rev); // position on the forward strand; this may be the first base or the last base