X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=bam_maqcns.c;h=5715f9aafca24abad9e0cc17e2ef1f567e9f3fc8;hb=cd65d352809ab157b72524d8542e1ee66e5a09c6;hp=dfc83e9407e3bf635be009af4d4be50240c13e61;hpb=75c9ea6ab922bb9245879b578c67497c338b5c86;p=samtools.git

diff --git a/bam_maqcns.c b/bam_maqcns.c
index dfc83e9..5715f9a 100644
--- a/bam_maqcns.c
+++ b/bam_maqcns.c
@@ -461,7 +461,7 @@ bam_maqindel_ret_t *bam_maqindel(int n, int pos, const bam_maqindel_opt_t *mi, c
 		for (i = 0; i < n_types; ++i) {
 			ka_param_t ap = ka_param_blast;
 			ap.band_width = 2 * types[n_types - 1] + 2;
-			ap.gap_end = 0;
+			ap.gap_end_ext = 0;
 			// write ref2
 			for (k = 0, j = left; j <= pos; ++j)
 				ref2[k++] = bam_nt16_nt4_table[bam_nt16_table[(int)ref[j]]];