Merge pull request #312 from mr-c/freebsd_and_hurd

Freebsd and hurd compatibility

Author: lh3

Makefile

@@ -18,6 +18,9 @@ SUBDIRS=	.
 ifeq ($(shell uname -s),Linux)
 	LIBS += -lrt
 endif
+ifeq ($(shell uname -s),GNU/kFreeBSD)
+	LIBS += -lrt
+endif
 
 .SUFFIXES:.c .o .cc
 

bwashm.c

@@ -9,6 +9,10 @@
 #include <stdio.h>
 #include "bwa.h"
 
+#ifndef PATH_MAX
+#  define PATH_MAX 1024
+#endif
+
 int bwa_shm_stage(bwaidx_t *idx, const char *hint, const char *_tmpfn)
 {
 	const char *name;