| 276 | 
  | 
      massOfZConsMols.push_back(molecules[i].getTotalMass());   | 
| 277 | 
  | 
 | 
| 278 | 
  | 
      zPos.push_back((*parameters)[searchResult].zPos); | 
| 279 | 
< | 
      cout << "index: "<< (*parameters)[searchResult].zconsIndex  | 
| 280 | 
< | 
             <<"\tzPos = " << (*parameters)[searchResult].zPos << endl;  | 
| 279 | 
> | 
//       cout << "index: "<< (*parameters)[searchResult].zconsIndex  | 
| 280 | 
> | 
//              <<"\tzPos = " << (*parameters)[searchResult].zPos << endl;  | 
| 281 | 
  | 
      kz.push_back((*parameters)[searchResult]. kRatio * zForceConst); | 
| 282 | 
  | 
       | 
| 283 | 
  | 
      molecules[i].getCOM(COM); | 
| 536 | 
  | 
#ifdef IS_MPI | 
| 537 | 
  | 
    if(worldRank == 0){ | 
| 538 | 
  | 
#endif | 
| 539 | 
< | 
      std::cerr << "\n" | 
| 540 | 
< | 
                << "*******************************************\n" | 
| 541 | 
< | 
                << " about to call zeroOutVel()\n" | 
| 542 | 
< | 
                << "*******************************************\n" | 
| 543 | 
< | 
                << "\n"; | 
| 539 | 
> | 
//       std::cerr << "\n" | 
| 540 | 
> | 
//              << "*******************************************\n" | 
| 541 | 
> | 
//              << " about to call zeroOutVel()\n" | 
| 542 | 
> | 
//              << "*******************************************\n" | 
| 543 | 
> | 
//              << "\n"; | 
| 544 | 
  | 
#ifdef IS_MPI | 
| 545 | 
  | 
    } | 
| 546 | 
  | 
#endif | 
| 549 | 
  | 
#ifdef IS_MPI | 
| 550 | 
  | 
    if(worldRank == 0){ | 
| 551 | 
  | 
#endif | 
| 552 | 
< | 
      std::cerr << "\n" | 
| 553 | 
< | 
                << "*******************************************\n" | 
| 554 | 
< | 
                << " finished zeroOutVel()\n" | 
| 555 | 
< | 
                << "*******************************************\n" | 
| 556 | 
< | 
                << "\n"; | 
| 552 | 
> | 
//       std::cerr << "\n" | 
| 553 | 
> | 
//              << "*******************************************\n" | 
| 554 | 
> | 
//              << " finished zeroOutVel()\n" | 
| 555 | 
> | 
//              << "*******************************************\n" | 
| 556 | 
> | 
//              << "\n"; | 
| 557 | 
  | 
#ifdef IS_MPI | 
| 558 | 
  | 
    } | 
| 559 | 
  | 
#endif | 
| 566 | 
  | 
#ifdef IS_MPI | 
| 567 | 
  | 
  if(worldRank == 0){ | 
| 568 | 
  | 
#endif | 
| 569 | 
< | 
    cout << "---------------------------------------------------------------------" <<endl; | 
| 570 | 
< | 
    cout << "current time: " << info->getTime() << endl; | 
| 571 | 
< | 
    cout << "center of mass at z: " << zsys << endl;      | 
| 572 | 
< | 
    cout << "before calcForce, the COMVel of system is " << zSysCOMVel <<endl; | 
| 569 | 
> | 
//     cout << "---------------------------------------------------------------------" <<endl; | 
| 570 | 
> | 
//     cout << "current time: " << info->getTime() << endl; | 
| 571 | 
> | 
//     cout << "center of mass at z: " << zsys << endl;      | 
| 572 | 
> | 
//     cout << "before calcForce, the COMVel of system is " << zSysCOMVel <<endl; | 
| 573 | 
  | 
 | 
| 574 | 
  | 
#ifdef IS_MPI | 
| 575 | 
  | 
  } | 
| 608 | 
  | 
#ifdef IS_MPI | 
| 609 | 
  | 
  if(worldRank == 0){ | 
| 610 | 
  | 
#endif | 
| 611 | 
< | 
    cout << "after calcForce, the COMVel of system is " << zSysCOMVel <<endl; | 
| 611 | 
> | 
 //    cout << "after calcForce, the COMVel of system is " << zSysCOMVel <<endl; | 
| 612 | 
  | 
#ifdef IS_MPI | 
| 613 | 
  | 
  } | 
| 614 | 
  | 
#endif | 
| 708 | 
  | 
#ifdef IS_MPI | 
| 709 | 
  | 
  if(worldRank == 0){ | 
| 710 | 
  | 
#endif | 
| 711 | 
< | 
    cout << "before resetting the COMVel of sytem is " << zSysCOMVel << endl;   | 
| 711 | 
> | 
//     cout << "before resetting the COMVel of sytem is " << zSysCOMVel << endl;   | 
| 712 | 
  | 
#ifdef IS_MPI | 
| 713 | 
  | 
  } | 
| 714 | 
  | 
#endif | 
| 782 | 
  | 
#ifdef IS_MPI | 
| 783 | 
  | 
  if(worldRank == 0){ | 
| 784 | 
  | 
#endif | 
| 785 | 
< | 
    cout << "after resetting the COMVel of moving molecules is " << zSysCOMVel << endl;   | 
| 785 | 
> | 
//     cout << "after resetting the COMVel of moving molecules is " << zSysCOMVel << endl;   | 
| 786 | 
  | 
#ifdef IS_MPI | 
| 787 | 
  | 
  } | 
| 788 | 
  | 
#endif | 
| 942 | 
  | 
 | 
| 943 | 
  | 
    if (states[i] == zcsMoving){ | 
| 944 | 
  | 
      zconsMols[i]->getCOM(COM); | 
| 945 | 
< | 
      cout << "Moving Molecule\tindex: " << indexOfZConsMols[i]  | 
| 946 | 
< | 
           << "\tcurrent zpos: " << COM[whichDirection] << endl; | 
| 945 | 
> | 
//       cout << "Moving Molecule\tindex: " << indexOfZConsMols[i]  | 
| 946 | 
> | 
//         << "\tcurrent zpos: " << COM[whichDirection] << endl; | 
| 947 | 
  | 
     | 
| 948 | 
  | 
    diff = COM[whichDirection] -zPos[i]; | 
| 949 | 
  | 
     | 
| 1207 | 
  | 
#ifdef IS_MPI | 
| 1208 | 
  | 
  if(worldRank == 0){ | 
| 1209 | 
  | 
#endif | 
| 1210 | 
< | 
    std::cerr << "\n" | 
| 1211 | 
< | 
              << "*******************************************\n" | 
| 1212 | 
< | 
              << " fiished Policy by numbr()\n" | 
| 1213 | 
< | 
              << "*******************************************\n" | 
| 1214 | 
< | 
              << "\n"; | 
| 1210 | 
> | 
 //    std::cerr << "\n" | 
| 1211 | 
> | 
//            << "*******************************************\n" | 
| 1212 | 
> | 
//            << " fiished Policy by numbr()\n" | 
| 1213 | 
> | 
//            << "*******************************************\n" | 
| 1214 | 
> | 
//            << "\n"; | 
| 1215 | 
  | 
#ifdef IS_MPI | 
| 1216 | 
  | 
  } | 
| 1217 | 
  | 
#endif |