--- trunk/src/restraints/RestraintForceManager.cpp	2010/01/20 16:04:40	1407
+++ trunk/src/restraints/RestraintForceManager.cpp	2014/03/06 19:34:22	1973
@@ -35,11 +35,18 @@
  *                                                                      
  * [1]  Meineke, et al., J. Comp. Chem. 26, 252-271 (2005).             
  * [2]  Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006).          
- * [3]  Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008).          
- * [4]  Vardeman & Gezelter, in progress (2009).                        
+ * [3]  Sun, Lin & Gezelter, J. Chem. Phys. 128, 234107 (2008).          
+ * [4]  Kuang & Gezelter,  J. Chem. Phys. 133, 164101 (2010).
+ * [5]  Vardeman, Stocker & Gezelter, J. Chem. Theory Comput. 7, 834 (2011).
  */
  
+#ifdef IS_MPI
+#include <mpi.h>
+#endif
+
+#include "config.h"
 #include <cmath>
+
 #include "restraints/RestraintForceManager.hpp"
 #include "restraints/MolecularRestraint.hpp"
 #include "restraints/ObjectRestraint.hpp"
@@ -49,11 +56,7 @@
 #include "utils/StringUtils.hpp"
 #include "selection/SelectionEvaluator.hpp"
 #include "selection/SelectionManager.hpp"
-#ifdef IS_MPI
-#include <mpi.h>
-#endif
 
-
 namespace OpenMD {
 
   RestraintForceManager::RestraintForceManager(SimInfo* info): ForceManager(info) {
@@ -98,7 +101,6 @@ namespace OpenMD {
       if (myType.compare("MOLECULAR")==0){
 
         int molIndex;
-        std::vector<Vector3d> ref;
         Vector3d refCom;
 
         if (!stamp[i]->haveMolIndex()) {
@@ -134,7 +136,9 @@ namespace OpenMD {
           // this proc doesn't have the molecule.  Do a quick check to
           // make sure another processor is supposed to have it.
          
-          int myrank = MPI::COMM_WORLD.Get_rank();
+          int myrank;
+          MPI_Comm_rank( MPI_COMM_WORLD, &myrank);
+
           if (info_->getMolToProc(molIndex) == myrank) {
          
             // If we were supposed to have it but got a null, then freak out.
@@ -156,7 +160,8 @@ namespace OpenMD {
 #ifdef IS_MPI
         // only handle this molecular restraint if this processor owns the
         // molecule
-        int myrank = MPI::COMM_WORLD.Get_rank();
+        int myrank;
+        MPI_Comm_rank( MPI_COMM_WORLD, &myrank);
         if (info_->getMolToProc(molIndex) == myrank) {
 
 #endif
@@ -226,6 +231,7 @@ namespace OpenMD {
                 "\t\t%s\n"
                 "\twill result in %d integrable objects being\n"
                 "\trestrained.\n", objectSelection.c_str(), selectionCount);
+        painCave.severity = OPENMD_INFO;
         painCave.isFatal = 0;
         simError();                     
 
@@ -305,22 +311,24 @@ namespace OpenMD {
     currRestTime_ = currSnapshot_->getTime();
   }
 
-  void RestraintForceManager::calcForces(bool needPotential, bool needStress){
+  void RestraintForceManager::calcForces(){
 
-    ForceManager::calcForces(needPotential, needStress);    
+    ForceManager::calcForces();    
     RealType restPot_local, restPot;
 
     restPot_local = doRestraints(1.0);
 
 #ifdef IS_MPI    
-    MPI::COMM_WORLD.Allreduce(&restPot_local, &restPot, 1, 
-                              MPI::REALTYPE, MPI::SUM);
+    MPI_Allreduce(&restPot_local, &restPot, 1, 
+                  MPI_REALTYPE, MPI_SUM, MPI_COMM_WORLD);
 #else
     restPot = restPot_local;
 #endif
     currSnapshot_ = info_->getSnapshotManager()->getCurrentSnapshot();
-    currSnapshot_->statData[Stats::LONG_RANGE_POTENTIAL] += restPot;
-    currSnapshot_->statData[Stats::VHARM] = restPot;
+    RealType pot = currSnapshot_->getLongRangePotential();
+    pot += restPot;
+    currSnapshot_->setLongRangePotential(pot);
+    currSnapshot_->setRestraintPotential(restPot);
 
     //write out forces and current positions of restrained molecules    
     if (currSnapshot_->getTime() >= currRestTime_){
@@ -335,7 +343,6 @@ namespace OpenMD {
     Molecule::IntegrableObjectIterator ioi;
     MolecularRestraint* mRest;
     StuntDouble* sd;
-    RealType pTot;
 
     std::vector<StuntDouble*>::const_iterator ro;
     ObjectRestraint* oRest;
@@ -385,6 +392,7 @@ namespace OpenMD {
 
       std::vector<Vector3d> struc;
       std::vector<Vector3d> forces;
+
       
       for(sd = (*rm)->beginIntegrableObject(ioi); sd != NULL; 
           sd = (*rm)->nextIntegrableObject(ioi)) {
@@ -445,7 +453,6 @@ namespace OpenMD {
       
       // phew.  At this point, we should have the pointer to the
       // correct Object restraint in the variable oRest.
-
       oRest->setScaleFactor(scalingFactor);
       
       Vector3d pos = (*ro)->getPos();