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r219: fixed a bug caused by skipping tandem seeds

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Heng Li
2017-07-28 14:06:56 -04:00
parent c672690564
commit ebbe9c1eb8
3 changed files with 3 additions and 3 deletions
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misc/mapstat.js
+1 -1
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@@ -144,7 +144,7 @@ while (file.readline(buf) >= 0) {
}
if (n_cigar > 65535) ++n_cigar_64k;
if (ql + sclip != aqlen)
warn("WARNING: aligned query length is inconsistent with CIGAR at line " + lineno);
warn("WARNING: aligned query length is inconsistent with CIGAR at line " + lineno + " (" + (ql+sclip) + " != " + aqlen + ")");
if (atlen != null && atlen != tl)
warn("WARNING: aligned reference length is inconsistent with CIGAR at line " + lineno);
if (is_sam) {