Author: Andreas Tille <tille@debian.org>
Date: Wed, 02 Feb 2011 15:45:54 +0100
Description: Patches to compile with gcc-4.4 
--- probalign1.4.orig/Main.cc
+++ probalign1.4/Main.cc
@@ -15,6 +15,8 @@
 #include <iostream>
 #include <cerrno>
 #include <time.h>
+#include <climits>
+#include <cstring>
 
 //struct for column reliability