diff --git a/depends/config.site.in b/depends/config.site.in
--- a/depends/config.site.in
+++ b/depends/config.site.in
@@ -1,4 +1,4 @@
-depends_prefix="`dirname ${ac_site_file}`/.."
+depends_prefix=$(cd `dirname ${ac_site_file}`/..; pwd -P)
 
 cross_compiling=maybe
 host_alias=@HOST@