From: Heng Li <lh3@live.co.uk>
Date: Tue, 7 Jul 2009 15:53:29 +0000 (+0000)
Subject: Release samtools-0.1.5c (fixed a bug in piping)
X-Git-Url: https://git.donarmstrong.com/?a=commitdiff_plain;h=63a8030e548830615a3dd9debd7d093c3096f9af;p=samtools.git

Release samtools-0.1.5c (fixed a bug in piping)
---

diff --git a/bamtk.c b/bamtk.c
index 536924c..3386836 100644
--- a/bamtk.c
+++ b/bamtk.c
@@ -4,7 +4,7 @@
 #include "bam.h"
 
 #ifndef PACKAGE_VERSION
-#define PACKAGE_VERSION "0.1.5b (r383)"
+#define PACKAGE_VERSION "0.1.5c (r385)"
 #endif
 
 int bam_taf2baf(int argc, char *argv[]);
diff --git a/knetfile.c b/knetfile.c
index 12dc2d1..cef197d 100644
--- a/knetfile.c
+++ b/knetfile.c
@@ -226,7 +226,12 @@ off_t knet_read(knetFile *fp, void *buf, off_t len)
 	off_t l = 0;
 	if (fp->fd < 0) return 0;
 	if (fp->type == KNF_TYPE_LOCAL) {
-		l = read(fp->fd, buf, len);
+		off_t rest = len, curr;
+		while (rest) {
+			curr = read(fp->fd, buf + l, rest);
+			if (curr == 0) break;
+			l += curr; rest -= curr;
+		}
 		fp->offset += l;
 	} else {
 		off_t rest = len, curr;