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for v0.14
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@@ -4278,7 +4278,7 @@ uint32_t just_contain, uint32_t just_coverage, hc_links* link)
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for (i = 0, offset = 0; i < reads->n; i++)
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{
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rId = reads->a[i]>>33;
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set_R_to_U(ruIndex, rId, uId, 1);
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set_R_to_U(ruIndex, rId, uId, 1, &(read_g->seq[rId].c));
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position_index[rId] = offset;
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position_index[rId] = position_index[rId] << 32;
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