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Fail to infer insert size distribution when no pairs are within boundaries (re issue 108) #141

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Merged
lh3 merged 1 commit into from
Jul 30, 2017
Merged

Fail to infer insert size distribution when no pairs are within boundaries (re issue 108) #141

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6 changes: 6 additions & 0 deletions bwtsw2_pair.c
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Original file line number Diff line number Diff line change
Expand Up @@ -70,6 +70,12 @@ bsw2pestat_t bsw2_stat(int n, bwtsw2_t **buf, kstring_t *msg, int max_ins)
for (i = x = 0, r.avg = 0; i < k; ++i)
if (isize[i] >= r.low && isize[i] <= r.high)
r.avg += isize[i], ++x;
if (x == 0) {
ksprintf(msg, "[%s] fail to infer the insert size distribution: no pairs within boundaries.\n", __func__);
free(isize);
r.failed = 1;
return r;
}
r.avg /= x;
for (i = 0, r.std = 0; i < k; ++i)
if (isize[i] >= r.low && isize[i] <= r.high)
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