-/*\r
- * Jalview - A Sequence Alignment Editor and Viewer\r
- * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
- *\r
- * This program is free software; you can redistribute it and/or\r
- * modify it under the terms of the GNU General Public License\r
- * as published by the Free Software Foundation; either version 2\r
- * of the License, or (at your option) any later version.\r
- *\r
- * This program is distributed in the hope that it will be useful,\r
- * but WITHOUT ANY WARRANTY; without even the implied warranty of\r
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the\r
- * GNU General Public License for more details.\r
- *\r
- * You should have received a copy of the GNU General Public License\r
- * along with this program; if not, write to the Free Software\r
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA\r
- */\r
-package MCview;\r
-\r
-public class MCMatrix\r
-{\r
- float[][] matrix;\r
- float[][] tmp;\r
- float mycos;\r
- float mysin;\r
- float myconst = (float) (Math.PI / 180);\r
-\r
- public MCMatrix(int rows, int cols)\r
- {\r
- matrix = new float[rows][cols];\r
- tmp = new float[rows][cols];\r
- }\r
-\r
- public void addElement(int i, int j, float value)\r
- {\r
- matrix[i][j] = value;\r
- }\r
-\r
- public void rotatex(float degrees)\r
- {\r
- mycos = (float) (Math.cos(degrees * myconst));\r
- mysin = (float) (Math.sin(degrees * myconst));\r
-\r
- tmp[0][0] = 1;\r
- tmp[0][1] = 0;\r
- tmp[0][2] = 0;\r
- tmp[1][0] = 0;\r
- tmp[1][1] = mycos;\r
- tmp[1][2] = mysin;\r
- tmp[2][0] = 0;\r
- tmp[2][1] = -mysin;\r
- tmp[2][2] = mycos;\r
- preMultiply(tmp);\r
- }\r
-\r
- public void rotatez(float degrees)\r
- {\r
- mycos = (float) (Math.cos(degrees * myconst));\r
- mysin = (float) (Math.sin(degrees * myconst));\r
-\r
- tmp[0][0] = mycos;\r
- tmp[0][1] = -mysin;\r
- tmp[0][2] = 0;\r
- tmp[1][0] = mysin;\r
- tmp[1][1] = mycos;\r
- tmp[1][2] = 0;\r
- tmp[2][0] = 0;\r
- tmp[2][1] = 0;\r
- tmp[2][2] = 1;\r
-\r
- preMultiply(tmp);\r
- }\r
-\r
- public void rotatey(float degrees)\r
- {\r
- mycos = (float) (Math.cos(degrees * myconst));\r
- mysin = (float) (Math.sin(degrees * myconst));\r
-\r
- tmp[0][0] = mycos;\r
- tmp[0][1] = 0;\r
- tmp[0][2] = -mysin;\r
- tmp[1][0] = 0;\r
- tmp[1][1] = 1;\r
- tmp[1][2] = 0;\r
- tmp[2][0] = mysin;\r
- tmp[2][1] = 0;\r
- tmp[2][2] = mycos;\r
-\r
- preMultiply(tmp);\r
- }\r
-\r
- public float[] vectorMultiply(float[] vect)\r
- {\r
- float[] temp = new float[3];\r
-\r
- temp[0] = vect[0];\r
- temp[1] = vect[1];\r
- temp[2] = vect[2];\r
-\r
- for (int i = 0; i < 3; i++)\r
- {\r
- temp[i] = ( (float) matrix[i][0] * vect[0]) +\r
- ( (float) matrix[i][1] * vect[1]) +\r
- ( (float) matrix[i][2] * vect[2]);\r
- }\r
-\r
- vect[0] = temp[0];\r
- vect[1] = temp[1];\r
- vect[2] = temp[2];\r
-\r
- return vect;\r
- }\r
-\r
- public void preMultiply(float[][] mat)\r
- {\r
- float[][] tmp = new float[3][3];\r
-\r
- for (int i = 0; i < 3; i++)\r
- {\r
- for (int j = 0; j < 3; j++)\r
- {\r
- tmp[i][j] = (mat[i][0] * matrix[0][j]) +\r
- (mat[i][1] * matrix[1][j]) + (mat[i][2] * matrix[2][j]);\r
- }\r
- }\r
-\r
- for (int i = 0; i < 3; i++)\r
- {\r
- for (int j = 0; j < 3; j++)\r
- {\r
- matrix[i][j] = tmp[i][j];\r
- }\r
- }\r
- }\r
-\r
- public void postMultiply(float[][] mat)\r
- {\r
- float[][] tmp = new float[3][3];\r
-\r
- for (int i = 0; i < 3; i++)\r
- {\r
- for (int j = 0; j < 3; j++)\r
- {\r
- tmp[i][j] = (matrix[i][0] * mat[0][j]) +\r
- (matrix[i][1] * mat[1][j]) + (matrix[i][2] * mat[2][j]);\r
- }\r
- }\r
-\r
- for (int i = 0; i < 3; i++)\r
- {\r
- for (int j = 0; j < 3; j++)\r
- {\r
- matrix[i][j] = tmp[i][j];\r
- }\r
- }\r
- }\r
-\r
- public void setIdentity()\r
- {\r
- matrix[0][0] = 1;\r
- matrix[1][1] = 1;\r
- matrix[2][2] = 1;\r
- matrix[0][1] = 0;\r
- matrix[0][2] = 0;\r
- matrix[1][0] = 0;\r
- matrix[1][2] = 0;\r
- matrix[2][0] = 0;\r
- matrix[2][1] = 0;\r
- }\r
-}\r
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Copyright (C) 2015 The Jalview Authors
+ *
+ * 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/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
+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;
+ }
+}
git://source.jalview.org / jalview.git / blobdiff