/*
 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
 * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
 * 
 * This file is part of Jalview.
 * 
 * Jalview is free software: you can redistribute it and/or
 * modify it under the terms of the GNU General Public License 
 * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
 * 
 * Jalview is distributed in the hope that it will be useful, but 
 * WITHOUT ANY WARRANTY; without even the implied warranty 
 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
 * PURPOSE.  See the GNU General Public License for more details.
 * 
 * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
 */
package MCview;

public class MCMatrix
{
  float[][] matrix;

  float[][] tmp;

  float mycos;

  float mysin;

  float myconst = (float) (Math.PI / 180);

  public MCMatrix(int rows, int cols)
  {
    matrix = new float[rows][cols];
    tmp = new float[rows][cols];
  }

  public void addElement(int i, int j, float value)
  {
    matrix[i][j] = value;
  }

  public void rotatex(float degrees)
  {
    mycos = (float) (Math.cos(degrees * myconst));
    mysin = (float) (Math.sin(degrees * myconst));

    tmp[0][0] = 1;
    tmp[0][1] = 0;
    tmp[0][2] = 0;
    tmp[1][0] = 0;
    tmp[1][1] = mycos;
    tmp[1][2] = mysin;
    tmp[2][0] = 0;
    tmp[2][1] = -mysin;
    tmp[2][2] = mycos;
    preMultiply(tmp);
  }

  public void rotatez(float degrees)
  {
    mycos = (float) (Math.cos(degrees * myconst));
    mysin = (float) (Math.sin(degrees * myconst));

    tmp[0][0] = mycos;
    tmp[0][1] = -mysin;
    tmp[0][2] = 0;
    tmp[1][0] = mysin;
    tmp[1][1] = mycos;
    tmp[1][2] = 0;
    tmp[2][0] = 0;
    tmp[2][1] = 0;
    tmp[2][2] = 1;

    preMultiply(tmp);
  }

  public void rotatey(float degrees)
  {
    mycos = (float) (Math.cos(degrees * myconst));
    mysin = (float) (Math.sin(degrees * myconst));

    tmp[0][0] = mycos;
    tmp[0][1] = 0;
    tmp[0][2] = -mysin;
    tmp[1][0] = 0;
    tmp[1][1] = 1;
    tmp[1][2] = 0;
    tmp[2][0] = mysin;
    tmp[2][1] = 0;
    tmp[2][2] = mycos;

    preMultiply(tmp);
  }

  public float[] vectorMultiply(float[] vect)
  {
    float[] temp = new float[3];

    temp[0] = vect[0];
    temp[1] = vect[1];
    temp[2] = vect[2];

    for (int i = 0; i < 3; i++)
    {
      temp[i] = ((float) matrix[i][0] * vect[0])
              + ((float) matrix[i][1] * vect[1])
              + ((float) matrix[i][2] * vect[2]);
    }

    vect[0] = temp[0];
    vect[1] = temp[1];
    vect[2] = temp[2];

    return vect;
  }

  public void preMultiply(float[][] mat)
  {
    float[][] tmp = new float[3][3];

    for (int i = 0; i < 3; i++)
    {
      for (int j = 0; j < 3; j++)
      {
        tmp[i][j] = (mat[i][0] * matrix[0][j]) + (mat[i][1] * matrix[1][j])
                + (mat[i][2] * matrix[2][j]);
      }
    }

    for (int i = 0; i < 3; i++)
    {
      for (int j = 0; j < 3; j++)
      {
        matrix[i][j] = tmp[i][j];
      }
    }
  }

  public void postMultiply(float[][] mat)
  {
    float[][] tmp = new float[3][3];

    for (int i = 0; i < 3; i++)
    {
      for (int j = 0; j < 3; j++)
      {
        tmp[i][j] = (matrix[i][0] * mat[0][j]) + (matrix[i][1] * mat[1][j])
                + (matrix[i][2] * mat[2][j]);
      }
    }

    for (int i = 0; i < 3; i++)
    {
      for (int j = 0; j < 3; j++)
      {
        matrix[i][j] = tmp[i][j];
      }
    }
  }

  public void setIdentity()
  {
    matrix[0][0] = 1;
    matrix[1][1] = 1;
    matrix[2][2] = 1;
    matrix[0][1] = 0;
    matrix[0][2] = 0;
    matrix[1][0] = 0;
    matrix[1][2] = 0;
    matrix[2][0] = 0;
    matrix[2][1] = 0;
  }
}
