X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=padding.c;h=b33032639151453a750e2e9cfe69f2c7282d8349;hb=fe8fbc9eae570d7afc3e0e91df735e6b6fdc329d;hp=ad68728b28761d114c99ef0ebcbad339102d99b9;hpb=70c84f409b060067e70087e51b29700215cbddbb;p=samtools.git

diff --git a/padding.c b/padding.c
index ad68728..b330326 100644
--- a/padding.c
+++ b/padding.c
@@ -42,10 +42,10 @@ static void unpad_seq(bam1_t *b, kstring_t *s)
 			++j;
 		} else if (op == BAM_CSOFT_CLIP) {
 			j += ol;
-		} else if (op == BAM_CDEL) {
+		} else if (op == BAM_CDEL || op == BAM_CPAD) {
 			for (i = 0; i < ol; ++i) s->s[s->l++] = 0;
                 } else {
-			fprintf(stderr, "[depad] ERROR: Didn't expect CIGAR op %c in %s\n", BAM_CIGAR_STR[op], bam1_qname(b));
+			fprintf(stderr, "[depad] ERROR: Didn't expect CIGAR op %c in embedded reference %s\n", BAM_CIGAR_STR[op], bam1_qname(b));
                         assert(-1);
 		}
 	}