--- trunk/OOPSE/libmdtools/InitializeFromFile.cpp	2003/07/10 19:53:50	589
+++ trunk/OOPSE/libmdtools/InitializeFromFile.cpp	2003/07/10 22:15:53	590
@@ -84,7 +84,7 @@ void InitializeFromFile :: read_xyz( SimInfo* the_simn
   char *parseErr;
   int procIndex;
   double boxMat[9];
-  
+  double theBoxMat3[3][3];
 
   simnfo = the_simnfo;
 
@@ -130,9 +130,12 @@ void InitializeFromFile :: read_xyz( SimInfo* the_simn
     simError();
   }
 
-  simnfo->setBoxM( boxMat );
+  for(i=0;i<3;i++)
+    for(j=0;j<3;j++) theBoxMat3[i][j] = boxMat[3*j+i];
 
+  simnfo->setBoxM( theBoxMat3 );
 
+
   for( i=0; i < n_atoms; i++){
     
     eof_test = fgets(read_buffer, sizeof(read_buffer), c_in_file);
@@ -301,7 +304,11 @@ void InitializeFromFile :: read_xyz( SimInfo* the_simn
      
  // last  thing last, enable  fatalities.
   painCave.isEventLoop = 0;
-  simnfo->setBoxM( boxMat );
+
+  for(i=0;i<3;i++)
+    for(j=0;j<3;j++) theBoxMat3[i][j] = boxMat[3*j+i];
+
+  simnfo->setBoxM( theBoxMat3 );
 
    
 #endif