gentoo-overlay/sci-biology/lagan/files/lagan-2.0-gcc4.3.patch

diff -durr lagan20-orig/src/glocal/score.cpp lagan20/src/glocal/score.cpp
--- lagan20-orig/src/glocal/score.cpp	2009-02-04 15:25:57.698333297 +0000
+++ lagan20/src/glocal/score.cpp	2009-02-04 15:27:23.894092890 +0000
@@ -2,7 +2,7 @@
 #include<score.h>
 #include<leftinfluence.h>
 #include<rightinfluence.h>
-#include<fstream.h>
+#include<fstream>
 
 extern vector<class Score*> scoreFunctions[1<<(UPSTRANDBITS+DOWNSTRANDBITS+RELPOSBITS)];
 
diff -durr lagan20-orig/src/utils/Glue.cpp lagan20/src/utils/Glue.cpp
--- lagan20-orig/src/utils/Glue.cpp	2009-02-04 15:25:57.702333182 +0000
+++ lagan20/src/utils/Glue.cpp	2009-02-04 15:27:04.190822654 +0000
@@ -1,6 +1,7 @@
 #include "MultiSequence.h"
 #include "SafeVector.h"
 #include "Output.h"
+#include <string.h>
 #include <math.h>
 #include <assert.h>
 #include <fstream>