From: Vince Buffalo <vsbuffalo@gmail.com>
Date: Thu, 13 Dec 2012 03:39:22 +0000 (-0800)
Subject: big fix: using samtools view file.bam gibberish returns alignments; iter not checked... 
X-Git-Url: https://git.donarmstrong.com/?p=samtools.git;a=commitdiff_plain;h=39c526eac1eaf53890862fcbcbd6db934db7055f

big fix: using samtools view file.bam gibberish returns alignments; iter not checked against kh_end
---

diff --git a/bam_aux.c b/bam_aux.c
index 28b22e3..8727af0 100644
--- a/bam_aux.c
+++ b/bam_aux.c
@@ -141,6 +141,8 @@ int bam_parse_region(bam_header_t *header, const char *str, int *ref_id, int *be
 			} else s[name_end] = ':', name_end = l;
 		}
 	} else iter = kh_get(s, h, str);
+        if (iter == kh_end(h))
+          free(s); return -1;
 	*ref_id = kh_val(h, iter);
 	// parse the interval
 	if (name_end < l) {