4 files changed, 32 insertions, 16 deletions

diff --git a/biology/nab/files/patch-Makefile b/biology/nab/files/patch-Makefile
index 9c258367476c..493b85bcda86 100644
--- a/biology/nab/files/patch-Makefile
+++ b/biology/nab/files/patch-Makefile
@@ -1,12 +1,13 @@
---- Makefile.orig	Tue Jul 15 21:11:15 2003
-+++ Makefile	Sat Aug  9 13:50:34 2003
-@@ -1,15 +1,15 @@
+--- Makefile.orig	Tue May 18 15:46:55 2004
++++ Makefile	Thu Jul  1 09:03:32 2004
+@@ -1,16 +1,15 @@
  #   top-level Makefile for the NAB suite of programs
  
-+all: compiler test
++all:	compiler test
  compiler:
  	-mkdir bin lib include
 -	(cd ucpp-1.3; make install )
+-	(cd byacc; make install )
  	(cd cifparse; make install )
  	(cd src; make install )
  	(cd nss; make install )
@@ -20,18 +21,24 @@
  
  #   note:  "make test" needs to follow "make", since it is very hard to
  #          tell if the compiler is completely "made" or not.
-@@ -18,14 +18,12 @@
+@@ -19,18 +18,15 @@
  	(cd nss; make test )
  
  clean:
 -	(cd ucpp-1.3; make clean )
+-	(cd byacc; make clean )
  	(cd cifparse; make clean )
  	(cd src; make clean )
  	(cd nss; make clean )
  	(cd tleap; make clean )
- 	
+-	
++
  uninstall:
 -	(cd ucpp-1.3; make uninstall )
  	(cd cifparse; make uninstall )
  	(cd src; make uninstall )
  	(cd nss; make uninstall )
+ 	(cd tleap; make uninstall )
+ 	-/bin/rm config.h
+-	
++
diff --git a/biology/nab/files/patch-atom.c b/biology/nab/files/patch-atom.c
deleted file mode 100644
index 61958e20d134..000000000000
--- a/biology/nab/files/patch-atom.c
+++ /dev/null
@@ -1,10 +0,0 @@
---- tleap/atom.c.orig	Sat Apr 20 22:35:09 2002
-+++ tleap/atom.c	Sat Mar  6 08:02:25 2004
-@@ -908,6 +908,7 @@
-     for ( i=0; i<iBonds; i++ ) {
- 	aBond = aaBond[i];
- 	VP1(( "Breaking bond: %s - %s\n",
-+	        sAtom1,
- 		sContainerFullDescriptor( (CONTAINER)aBond, sAtom2 ) ));
- 	AtomRemoveBond( aAtom, aBond );
-     }
diff --git a/biology/nab/files/patch-src:database.c b/biology/nab/files/patch-src:database.c
index 34b3f2851083..14e70c31326a 100644
--- a/biology/nab/files/patch-src:database.c
+++ b/biology/nab/files/patch-src:database.c
@@ -14,3 +14,12 @@
  
  
  
+@@ -71,7 +78,7 @@
+ 
+ #include	<stdio.h>
+ #include	<string.h>
+-#include	<malloc.h>
++#include	<stdlib.h>
+ 
+ #include        "database.h"
+ 
diff --git a/biology/nab/files/patch-src:molio.c b/biology/nab/files/patch-src:molio.c
new file mode 100644
index 000000000000..656042bb2f24
--- /dev/null
+++ b/biology/nab/files/patch-src:molio.c
@@ -0,0 +1,10 @@
+--- src/molio.c.orig	Mon May 10 16:53:34 2004
++++ src/molio.c	Fri Jun 18 23:26:01 2004
+@@ -1,7 +1,6 @@
+ #include	<stdio.h>
+ #include	<ctype.h>
+ #include	<string.h>
+-#include	<malloc.h>
+ #include	<math.h>
+ #include	<stdlib.h>
+ #include	<assert.h>