-/*\r
-* Jalview - A Sequence Alignment Editor and Viewer\r
-* Copyright (C) 2005 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 jalview.util;\r
-\r
-public class QuickSort {\r
- public static void sort(float[] arr, Object[] s) {\r
- sort(arr, 0, arr.length - 1, s);\r
- }\r
-\r
- public static void sort(String[] arr, Object[] s) {\r
- stringSort(arr, 0, arr.length - 1, s);\r
- }\r
-\r
- public static void stringSort(String[] arr, int p, int r, Object[] s) {\r
- int q;\r
-\r
- if (p < r) {\r
- q = stringPartition(arr, p, r, s);\r
- stringSort(arr, p, q, s);\r
- stringSort(arr, q + 1, r, s);\r
- }\r
- }\r
-\r
- public static void sort(float[] arr, int p, int r, Object[] s) {\r
- int q;\r
-\r
- if (p < r) {\r
- q = partition(arr, p, r, s);\r
- sort(arr, p, q, s);\r
- sort(arr, q + 1, r, s);\r
- }\r
- }\r
-\r
- private static int partition(float[] arr, int p, int r, Object[] s) {\r
- float x = arr[p];\r
- int i = p - 1;\r
- int j = r + 1;\r
-\r
- while (true) {\r
- do {\r
- j = j - 1;\r
- } while (arr[j] > x);\r
-\r
- do {\r
- i = i + 1;\r
- } while (arr[i] < x);\r
-\r
- if (i < j) {\r
- float tmp = arr[i];\r
- arr[i] = arr[j];\r
- arr[j] = tmp;\r
-\r
- Object tmp2 = s[i];\r
- s[i] = s[j];\r
- s[j] = tmp2;\r
- } else {\r
- return j;\r
- }\r
- }\r
- }\r
-\r
- private static int stringPartition(String[] arr, int p, int r, Object[] s) {\r
- String x = arr[p];\r
- int i = p - 1;\r
- int j = r + 1;\r
-\r
- while (true) {\r
- do {\r
- j = j - 1;\r
- } while (arr[j].compareTo(x) < 0);\r
-\r
- do {\r
- i = i + 1;\r
- } while (arr[i].compareTo(x) > 0);\r
-\r
- if (i < j) {\r
- String tmp = arr[i];\r
- arr[i] = arr[j];\r
- arr[j] = tmp;\r
-\r
- Object tmp2 = s[i];\r
- s[i] = s[j];\r
- s[j] = tmp2;\r
- } else {\r
- return j;\r
- }\r
- }\r
- }\r
-}\r
+/*
+ * 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 jalview.util;
+
+public class QuickSort
+{
+ public static void sort(int[] arr, Object[] s)
+ {
+ sort(arr, 0, arr.length - 1, s);
+ }
+
+ public static void sort(float[] arr, Object[] s)
+ {
+ sort(arr, 0, arr.length - 1, s);
+ }
+
+ public static void sort(double[] arr, Object[] s)
+ {
+ sort(arr, 0, arr.length - 1, s);
+ }
+
+ public static void sort(String[] arr, Object[] s)
+ {
+ stringSort(arr, 0, arr.length - 1, s);
+ }
+
+ public static void stringSort(String[] arr, int p, int r, Object[] s)
+ {
+ int q;
+
+ if (p < r)
+ {
+ q = stringPartition(arr, p, r, s);
+ stringSort(arr, p, q, s);
+ stringSort(arr, q + 1, r, s);
+ }
+ }
+
+ public static void sort(float[] arr, int p, int r, Object[] s)
+ {
+ int q;
+
+ if (p < r)
+ {
+ q = partition(arr, p, r, s);
+ sort(arr, p, q, s);
+ sort(arr, q + 1, r, s);
+ }
+ }
+
+ public static void sort(double[] arr, int p, int r, Object[] s)
+ {
+ int q;
+
+ if (p < r)
+ {
+ q = partition(arr, p, r, s);
+ sort(arr, p, q, s);
+ sort(arr, q + 1, r, s);
+ }
+ }
+
+ public static void sort(int[] arr, int p, int r, Object[] s)
+ {
+ int q;
+
+ if (p < r)
+ {
+ q = partition(arr, p, r, s);
+ sort(arr, p, q, s);
+ sort(arr, q + 1, r, s);
+ }
+ }
+
+ private static int partition(float[] arr, int p, int r, Object[] s)
+ {
+ float x = arr[p];
+ int i = p - 1;
+ int j = r + 1;
+
+ while (true)
+ {
+ do
+ {
+ j = j - 1;
+ } while (arr[j] > x);
+
+ do
+ {
+ i = i + 1;
+ } while (arr[i] < x);
+
+ if (i < j)
+ {
+ float tmp = arr[i];
+ arr[i] = arr[j];
+ arr[j] = tmp;
+
+ Object tmp2 = s[i];
+ s[i] = s[j];
+ s[j] = tmp2;
+ }
+ else
+ {
+ return j;
+ }
+ }
+ }
+
+ private static int partition(int[] arr, int p, int r, Object[] s)
+ {
+ int x = arr[p];
+ int i = p - 1;
+ int j = r + 1;
+
+ while (true)
+ {
+ do
+ {
+ j = j - 1;
+ } while (arr[j] > x);
+
+ do
+ {
+ i = i + 1;
+ } while (arr[i] < x);
+
+ if (i < j)
+ {
+ int tmp = arr[i];
+ arr[i] = arr[j];
+ arr[j] = tmp;
+
+ Object tmp2 = s[i];
+ s[i] = s[j];
+ s[j] = tmp2;
+ }
+ else
+ {
+ return j;
+ }
+ }
+ }
+
+ private static int partition(double[] arr, int p, int r, Object[] s)
+ {
+ double x = arr[p];
+ int i = p - 1;
+ int j = r + 1;
+
+ while (true)
+ {
+ do
+ {
+ j = j - 1;
+ } while (arr[j] > x);
+
+ do
+ {
+ i = i + 1;
+ } while (arr[i] < x);
+
+ if (i < j)
+ {
+ double tmp = arr[i];
+ arr[i] = arr[j];
+ arr[j] = tmp;
+
+ Object tmp2 = s[i];
+ s[i] = s[j];
+ s[j] = tmp2;
+ }
+ else
+ {
+ return j;
+ }
+ }
+ }
+
+ private static int stringPartition(String[] arr, int p, int r, Object[] s)
+ {
+ String x = arr[p];
+ int i = p - 1;
+ int j = r + 1;
+
+ while (true)
+ {
+ do
+ {
+ j = j - 1;
+ } while (arr[j].compareTo(x) < 0);
+
+ do
+ {
+ i = i + 1;
+ } while (arr[i].compareTo(x) > 0);
+
+ if (i < j)
+ {
+ String tmp = arr[i];
+ arr[i] = arr[j];
+ arr[j] = tmp;
+
+ Object tmp2 = s[i];
+ s[i] = s[j];
+ s[j] = tmp2;
+ }
+ else
+ {
+ return j;
+ }
+ }
+ }
+}
git://source.jalview.org / jalview.git / blobdiff