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r280: output introns as "N" in the cdna mode

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Heng Li
2017-08-09 11:45:02 -04:00
parent 7429b12164
commit c59b0781bc
5 changed files with 27 additions and 13 deletions
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chain.c
+2 -1
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@@ -56,7 +56,8 @@ int mm_chain_dp(int max_dist_x, int max_dist_y, int bw, int max_skip, int min_cn
int c_log, c_lin;
c_lin = (int)(dd * .01 * avg_qspan);
c_log = ilog2_32(dd);
sc -= c_lin < c_log? c_lin : c_log;
if (dr > dq) sc -= c_lin < c_log? c_lin : c_log;
else sc -= c_lin + (c_log>>1);
} else sc -= (int)(dd * .01 * avg_qspan) + (ilog2_32(dd)>>1);
sc += f[j];
if (sc > max_f) {