fixed the code to make it work with the current minc tools

m4/mni_REQUIRE_MNILIBS.m4

@@ -11,6 +11,7 @@ AC_DEFUN([mni_REQUIRE_MINC],
         mni_REQUIRE_LIB(hdf5,[#include <hdf5.h>],[int f = H5Fopen("",0,H5P_DEFAULT);])
         mni_REQUIRE_LIB(minc2,[#include <minc.h>],[int i = miicv_create();])
         AC_DEFINE([MINC2], 1, [Define if should build with MINC 2.0])
+        AC_DEFINE([HAVE_MINC2], 1, [Define that we should build with MINC 2.0 agian])
     else
         mni_REQUIRE_LIB(minc,[#include <minc.h>],[int i = miicv_create();])
     fi
@@ -22,17 +23,17 @@ AC_DEFUN([mni_REQUIRE_VOLUMEIO],
 [
     AC_REQUIRE([mni_REQUIRE_MINC])
     if test "$with_minc2" = "yes"; then
-      mni_REQUIRE_LIB(volume_io2,
+      mni_REQUIRE_LIB(minc2,
   	              [#include <volume_io.h>],
                       [VIO_Volume vol; 
 	 	      VIO_Real voxel = 0;
                       VIO_Real x = convert_voxel_to_value(vol,voxel);])
     else
       mni_REQUIRE_LIB(volume_io,
   	              [#include <volume_io.h>],
-                      [Volume vol; 
-	 	      Real voxel = 0;
-                      Real x = convert_voxel_to_value(vol,voxel);])
+                      [VIO_Volume vol; 
+	 	      VIO_Real voxel = 0;
+                      VIO_Real x = convert_voxel_to_value(vol,voxel);])
     fi
 ])
 
@@ -57,6 +58,7 @@ AC_DEFUN([mni_REQUIRE_EBTKS],
 AC_DEFUN([mni_REQUIRE_OOBICPL],
 [
     AC_REQUIRE([mni_REQUIRE_BICPL])
+    AC_DEFINE([HAVE_MINC1], 1, [Define that we need MINC 1.0 for NC_UNSPECIFIED])
 
     # the regular expression C library
     smr_REQUIRED_LIB(pcre, pcre_compile, pcre.h)

src/create_initial_deformation_grid.cpp

@@ -1,3 +1,6 @@
+#define HAVE_MINC1 1
+#define HAVE_MINC2 1
+
 #include <minc2.h>
 #include <stdio.h>
 #include <stdlib.h>