--- trunk/makeLipid/makeLipid.cpp	2002/07/11 16:30:34	27
+++ trunk/makeLipid/makeLipid.cpp	2002/07/17 20:33:56	32
@@ -73,18 +73,19 @@ int main(int argc,char* argv[]){
   DirectionalAtom* dAtomNew;
   
   double rotMat[3][3];
+  double unitRotMat[3][3];
   
-  rotMat[0][0] = 1.0;
-  rotMat[0][1] = 0.0;
-  rotMat[0][2] = 0.0;
+  unitRotMat[0][0] = 1.0;
+  unitRotMat[0][1] = 0.0;
+  unitRotMat[0][2] = 0.0;
   
-  rotMat[1][0] = 0.0;
-  rotMat[1][1] = 1.0;
-  rotMat[1][2] = 0.0;
+  unitRotMat[1][0] = 0.0;
+  unitRotMat[1][1] = 1.0;
+  unitRotMat[1][2] = 0.0;
   
-  rotMat[2][0] = 0.0;
-  rotMat[2][1] = 0.0;
-  rotMat[2][2] = 1.0;
+  unitRotMat[2][0] = 0.0;
+  unitRotMat[2][1] = 0.0;
+  unitRotMat[2][2] = 1.0;
 
   int index =0;
   for(i=0; i<n_lipids; i++ ){
@@ -97,7 +98,8 @@ int main(int argc,char* argv[]){
 	dAtomNew->setSUx( dAtom->getSUx() );
 	dAtomNew->setSUx( dAtom->getSUx() );
 	dAtomNew->setSUx( dAtom->getSUx() );
-      
+	
+	dAtom->getA( rotMat );
 	dAtomNew->setA( rotMat );
 	
 	group_atoms[index] = dAtomNew;
@@ -261,6 +263,7 @@ int main(int argc,char* argv[]){
       dAtomNew->setSUx( dAtom->getSUx() );
       dAtomNew->setSUx( dAtom->getSUx() );
       
+      dAtom->getA(rotMat);
       dAtomNew->setA( rotMat );
       
       new_atoms[index] = dAtomNew;
@@ -306,7 +309,7 @@ int main(int argc,char* argv[]){
       dAtom->setSUy( 0.0 );
       dAtom->setSUz( 1.0 );
       
-      dAtom->setA( rotMat );
+      dAtom->setA( unitRotMat );
       
       index++;
     }