package ffx.potential.constraint;
   
   import ffx.numerics.Constraint;
   
   public class ShakeChargeConstraint implements Constraint {
       final int nConstraints;
       final double tol;
       final int c;
       final double maxIters = 150;
  
      public ShakeChargeConstraint(int nConstraints, int c, double tol){
          this.nConstraints = nConstraints;
          this.c = c;
          this.tol = tol;
      }
      @Override
      public void applyConstraintToStep(final double[] xPrior, double[] xNew, final double[] masses, double tol){
      }
  
      /**
       * This method follows the SHAKE Charge Constraint laid out in Appendix B of
       * Donnini, Serena, et al. "Charge-neutral constant pH molecular dynamics simulations using a parsimonious proton buffer."
       * Journal of chemical theory and computation 12.3 (2016): 1040-1051.
       * https://pubs.acs.org/doi/epdf/10.1021/acs.jctc.5b01160
       * @param x
       * @param afric
       * @param masses
       * @param dt
       */
      public void applyChargeConstraintToStep(final double[] x, final double[] afric, final double[] masses, final double dt){
          boolean done = false;
          int iter = 0;
          while(!done){
              done = true;
              iter++;
              double totalLambda = 0.0;
              double totalInverseMass = 0.0;
              for (int i = 0; i < nConstraints; i++) {
                  double lambda = Math.sin(x[i]) * Math.sin(x[i]);
                  totalLambda += lambda;
                  totalInverseMass += (1.0 / masses[i]);
              }
              double delta = totalLambda - c;
  
              if (Math.abs(delta) > tol) {
                  done = false;
                  double term = delta / (dt * dt * totalInverseMass);
                  for (int i = 0; i < nConstraints; i++) {
                      double g = -term * Math.sin(2 * x[i]);
                      x[i] = x[i] + g * afric[i];
                  }
              }
              if(iter >= maxIters){
                  throw new RuntimeException("SHAKE Charge Constraint -- Warning, Charge Constraint not Satisfied");
              }
          }
      }
  
      @Override
      public void applyConstraintToVelocities(final double[] x, double[] v, final double[] masses, double tol){
  
      }
  
      @Override
      public int[] constrainedAtomIndices() {
          return new int[0];
      }
  
      @Override
      public boolean constraintSatisfied(double[] x, double tol) {
          return false;
      }
  
      @Override
      public boolean constraintSatisfied(double[] x, double[] v, double xTol, double vTol) {
          return false;
      }
  
      @Override
      public int getNumDegreesFrozen() {
          return 0;
      }
  }