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From er...@apache.org
Subject svn commit: r1368738 - in /commons/proper/math/trunk/src/test/java/org/apache/commons/math3: optimization/fitting/ optimization/general/ stat/descriptive/ util/
Date Thu, 02 Aug 2012 22:18:09 GMT
Author: erans
Date: Thu Aug  2 22:18:08 2012
New Revision: 1368738

URL: http://svn.apache.org/viewvc?rev=1368738&view=rev
Log:
MATH-834
Replaced calls to the various sampling methods in "RandomDataImpl" by their
equivalent "sample" method in the distribution classes.

Modified:
    commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/fitting/PolynomialFitterTest.java
    commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/LevenbergMarquardtOptimizerTest.java
    commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/RandomCirclePointGenerator.java
    commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/RandomStraightLinePointGenerator.java
    commons/proper/math/trunk/src/test/java/org/apache/commons/math3/stat/descriptive/AggregateSummaryStatisticsTest.java
    commons/proper/math/trunk/src/test/java/org/apache/commons/math3/stat/descriptive/UnivariateStatisticAbstractTest.java
    commons/proper/math/trunk/src/test/java/org/apache/commons/math3/util/MathUtilsTest.java
    commons/proper/math/trunk/src/test/java/org/apache/commons/math3/util/ResizableDoubleArrayTest.java

Modified: commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/fitting/PolynomialFitterTest.java
URL: http://svn.apache.org/viewvc/commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/fitting/PolynomialFitterTest.java?rev=1368738&r1=1368737&r2=1368738&view=diff
==============================================================================
--- commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/fitting/PolynomialFitterTest.java
(original)
+++ commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/fitting/PolynomialFitterTest.java
Thu Aug  2 22:18:08 2012
@@ -27,7 +27,8 @@ import org.apache.commons.math3.optimiza
 import org.apache.commons.math3.optimization.general.LevenbergMarquardtOptimizer;
 import org.apache.commons.math3.optimization.SimpleVectorValueChecker;
 import org.apache.commons.math3.util.FastMath;
-import org.apache.commons.math3.random.RandomDataImpl;
+import org.apache.commons.math3.distribution.RealDistribution;
+import org.apache.commons.math3.distribution.UniformRealDistribution;
 import org.apache.commons.math3.TestUtils;
 
 import org.junit.Test;
@@ -40,8 +41,8 @@ import org.junit.Assert;
 public class PolynomialFitterTest {
     @Test
     public void testFit() {
-        final RandomDataImpl rng = new RandomDataImpl();
-        rng.reSeed(64925784252L);
+        final RealDistribution rng = new UniformRealDistribution(-100, 100);
+        rng.reseedRandomGenerator(64925784252L);
 
         final LevenbergMarquardtOptimizer optim = new LevenbergMarquardtOptimizer();
         final PolynomialFitter fitter = new PolynomialFitter(optim);
@@ -50,7 +51,7 @@ public class PolynomialFitterTest {
 
         // Collect data from a known polynomial.
         for (int i = 0; i < 100; i++) {
-            final double x = rng.nextUniform(-100, 100);
+            final double x = rng.sample();
             fitter.addObservedPoint(x, f.value(x));
         }
 

Modified: commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/LevenbergMarquardtOptimizerTest.java
URL: http://svn.apache.org/viewvc/commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/LevenbergMarquardtOptimizerTest.java?rev=1368738&r1=1368737&r2=1368738&view=diff
==============================================================================
--- commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/LevenbergMarquardtOptimizerTest.java
(original)
+++ commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/LevenbergMarquardtOptimizerTest.java
Thu Aug  2 22:18:08 2012
@@ -265,10 +265,12 @@ public class LevenbergMarquardtOptimizer
         final double xSigma = 10;
         final double ySigma = 15;
         final double radius = 111.111;
+        // The test is extremely sensitive to the seed.
+        final long seed = 59421061L;
         final RandomCirclePointGenerator factory
             = new RandomCirclePointGenerator(xCenter, yCenter, radius,
                                              xSigma, ySigma,
-                                             59421063L);
+                                             seed);
         final CircleProblem circle = new CircleProblem(xSigma, ySigma);
 
         final int numPoints = 10;

Modified: commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/RandomCirclePointGenerator.java
URL: http://svn.apache.org/viewvc/commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/RandomCirclePointGenerator.java?rev=1368738&r1=1368737&r2=1368738&view=diff
==============================================================================
--- commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/RandomCirclePointGenerator.java
(original)
+++ commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/RandomCirclePointGenerator.java
Thu Aug  2 22:18:08 2012
@@ -18,28 +18,26 @@
 package org.apache.commons.math3.optimization.general;
 
 import java.awt.geom.Point2D;
-import org.apache.commons.math3.random.RandomData;
-import org.apache.commons.math3.random.RandomDataImpl;
+import org.apache.commons.math3.random.RandomGenerator;
 import org.apache.commons.math3.random.Well44497b;
 import org.apache.commons.math3.util.MathUtils;
 import org.apache.commons.math3.util.FastMath;
+import org.apache.commons.math3.distribution.RealDistribution;
+import org.apache.commons.math3.distribution.UniformRealDistribution;
+import org.apache.commons.math3.distribution.NormalDistribution;
 
 /**
  * Factory for generating a cloud of points that approximate a circle.
  */
 public class RandomCirclePointGenerator {
-    /** RNG. */
-    private final RandomData random;
+    /** RNG for the x-coordinate of the center. */
+    private final RealDistribution cX;
+    /** RNG for the y-coordinate of the center. */
+    private final RealDistribution cY;
+    /** RNG for the parametric position of the point. */
+    private final RealDistribution tP;
     /** Radius of the circle. */
     private final double radius;
-    /** x-coordinate of the circle center. */
-    private final double x;
-    /** y-coordinate of the circle center. */
-    private final double y;
-    /** Error on the x-coordinate of the center. */
-    private final double xSigma;
-    /** Error on the y-coordinate of the center. */
-    private final double ySigma;
 
     /**
      * @param x Abscissa of the circle center.
@@ -55,12 +53,14 @@ public class RandomCirclePointGenerator 
                                       double xSigma,
                                       double ySigma,
                                       long seed) {
-        random = new RandomDataImpl(new Well44497b((seed)));
+        final RandomGenerator rng = new Well44497b(seed);
         this.radius = radius;
-        this.x = x;
-        this.y = y;
-        this.xSigma = xSigma;
-        this.ySigma = ySigma;
+        cX = new NormalDistribution(rng, x, xSigma,
+                                    NormalDistribution.DEFAULT_INVERSE_ABSOLUTE_ACCURACY);
+        cY = new NormalDistribution(rng, y, ySigma,
+                                    NormalDistribution.DEFAULT_INVERSE_ABSOLUTE_ACCURACY);
+        tP = new UniformRealDistribution(rng, 0, MathUtils.TWO_PI,
+                                         UniformRealDistribution.DEFAULT_INVERSE_ABSOLUTE_ACCURACY);
     }
 
     /**
@@ -83,12 +83,9 @@ public class RandomCirclePointGenerator 
      * @return a point.
      */
     private Point2D.Double create() {
-        final double cX = random.nextGaussian(x, xSigma);
-        final double cY = random.nextGaussian(y, ySigma);
-        final double t = random.nextUniform(0, MathUtils.TWO_PI);
-
-        final double pX = cX + radius * FastMath.cos(t);
-        final double pY = cY + radius * FastMath.sin(t);
+        final double t = tP.sample();
+        final double pX = cX.sample() + radius * FastMath.cos(t);
+        final double pY = cY.sample() + radius * FastMath.sin(t);
 
         return new Point2D.Double(pX, pY);
     }

Modified: commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/RandomStraightLinePointGenerator.java
URL: http://svn.apache.org/viewvc/commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/RandomStraightLinePointGenerator.java?rev=1368738&r1=1368737&r2=1368738&view=diff
==============================================================================
--- commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/RandomStraightLinePointGenerator.java
(original)
+++ commons/proper/math/trunk/src/test/java/org/apache/commons/math3/optimization/general/RandomStraightLinePointGenerator.java
Thu Aug  2 22:18:08 2012
@@ -18,33 +18,31 @@
 package org.apache.commons.math3.optimization.general;
 
 import java.awt.geom.Point2D;
-import org.apache.commons.math3.random.RandomData;
-import org.apache.commons.math3.random.RandomDataImpl;
+import org.apache.commons.math3.random.RandomGenerator;
 import org.apache.commons.math3.random.Well44497b;
 import org.apache.commons.math3.util.MathUtils;
 import org.apache.commons.math3.util.FastMath;
+import org.apache.commons.math3.distribution.RealDistribution;
+import org.apache.commons.math3.distribution.UniformRealDistribution;
+import org.apache.commons.math3.distribution.NormalDistribution;
 
 /**
  * Factory for generating a cloud of points that approximate a straight line.
  */
 public class RandomStraightLinePointGenerator {
-    /** RNG. */
-    private final RandomData random;
     /** Slope. */
     private final double slope;
     /** Intercept. */
     private final double intercept;
-    /** Error on the y-coordinate. */
-    private final double sigma;
-    /** Lowest value of the x-coordinate. */
-    private final double lo;
-    /** Highest value of the x-coordinate. */
-    private final double hi;
+    /** RNG for the x-coordinate. */
+    private final RealDistribution x;
+    /** RNG for the error on the y-coordinate. */
+    private final RealDistribution error;
 
     /**
      * The generator will create a cloud of points whose x-coordinates
      * will be randomly sampled between {@code xLo} and {@code xHi}, and
-     * the correspoding y-coordinates will be computed as
+     * the corresponding y-coordinates will be computed as
      * <pre><code>
      *  y = a x + b + N(0, error)
      * </code></pre>
@@ -53,23 +51,24 @@ public class RandomStraightLinePointGene
      *
      * @param a Slope.
      * @param b Intercept.
-     * @param error Error on the y-coordinate of the point.
-     * @param xLo Lowest value of the x-coordinate.
-     * @param xHi Highest value of the x-coordinate.
+     * @param sigma Standard deviation on the y-coordinate of the point.
+     * @param lo Lowest value of the x-coordinate.
+     * @param hi Highest value of the x-coordinate.
      * @param seed RNG seed.
      */
     public RandomStraightLinePointGenerator(double a,
                                             double b,
-                                            double error,
-                                            double xLo,
-                                            double xHi,
+                                            double sigma,
+                                            double lo,
+                                            double hi,
                                             long seed) {
-        random = new RandomDataImpl(new Well44497b((seed)));
+        final RandomGenerator rng = new Well44497b(seed);
         slope = a;
         intercept = b;
-        sigma = error;
-        lo = xLo;
-        hi = xHi;
+        error = new NormalDistribution(rng, 0, sigma,
+                                       NormalDistribution.DEFAULT_INVERSE_ABSOLUTE_ACCURACY);
+        x = new UniformRealDistribution(rng, lo, hi,
+                                        UniformRealDistribution.DEFAULT_INVERSE_ABSOLUTE_ACCURACY);
     }
 
     /**
@@ -92,10 +91,10 @@ public class RandomStraightLinePointGene
      * @return a point.
      */
     private Point2D.Double create() {
-        final double x = random.nextUniform(lo, hi);
-        final double yModel = slope * x + intercept;
-        final double y = yModel + random.nextGaussian(0, sigma);
+        final double abscissa = x.sample();
+        final double yModel = slope * abscissa + intercept;
+        final double ordinate = yModel + error.sample();
 
-        return new Point2D.Double(x, y);
+        return new Point2D.Double(abscissa, ordinate);
     }
 }

Modified: commons/proper/math/trunk/src/test/java/org/apache/commons/math3/stat/descriptive/AggregateSummaryStatisticsTest.java
URL: http://svn.apache.org/viewvc/commons/proper/math/trunk/src/test/java/org/apache/commons/math3/stat/descriptive/AggregateSummaryStatisticsTest.java?rev=1368738&r1=1368737&r2=1368738&view=diff
==============================================================================
--- commons/proper/math/trunk/src/test/java/org/apache/commons/math3/stat/descriptive/AggregateSummaryStatisticsTest.java
(original)
+++ commons/proper/math/trunk/src/test/java/org/apache/commons/math3/stat/descriptive/AggregateSummaryStatisticsTest.java
Thu Aug  2 22:18:08 2012
@@ -22,8 +22,10 @@ import java.util.Collection;
 
 
 import org.apache.commons.math3.TestUtils;
-import org.apache.commons.math3.random.RandomData;
-import org.apache.commons.math3.random.RandomDataImpl;
+import org.apache.commons.math3.distribution.RealDistribution;
+import org.apache.commons.math3.distribution.UniformRealDistribution;
+import org.apache.commons.math3.distribution.IntegerDistribution;
+import org.apache.commons.math3.distribution.UniformIntegerDistribution;
 import org.apache.commons.math3.util.Precision;
 import org.junit.Assert;
 import org.junit.Test;
@@ -246,12 +248,10 @@ public class AggregateSummaryStatisticsT
      * @return array of random double values
      */
     private double[] generateSample() {
-        final RandomData randomData = new RandomDataImpl();
-        final int sampleSize = randomData.nextInt(10,100);
-        double[] out = new double[sampleSize];
-        for (int i = 0; i < out.length; i++) {
-            out[i] = randomData.nextUniform(-100, 100);
-        }
+        final IntegerDistribution size = new UniformIntegerDistribution(10, 100);
+        final RealDistribution randomData = new UniformRealDistribution(-100, 100);
+        final int sampleSize = size.sample();
+        final double[] out = randomData.sample(sampleSize);
         return out;
     }
 
@@ -265,7 +265,6 @@ public class AggregateSummaryStatisticsT
     private double[][] generatePartition(double[] sample) {
         final int length = sample.length;
         final double[][] out = new double[5][];
-        final RandomData randomData = new RandomDataImpl();
         int cur = 0;
         int offset = 0;
         int sampleCount = 0;
@@ -273,7 +272,8 @@ public class AggregateSummaryStatisticsT
             if (cur == length || offset == length) {
                 break;
             }
-            final int next = (i == 4 || cur == length - 1) ? length - 1 : randomData.nextInt(cur,
length - 1);
+            final IntegerDistribution partitionPoint = new UniformIntegerDistribution(cur,
length - 1);
+            final int next = (i == 4 || cur == length - 1) ? length - 1 : partitionPoint.sample();
             final int subLength = next - cur + 1;
             out[i] = new double[subLength];
             System.arraycopy(sample, offset, out[i], 0, subLength);

Modified: commons/proper/math/trunk/src/test/java/org/apache/commons/math3/stat/descriptive/UnivariateStatisticAbstractTest.java
URL: http://svn.apache.org/viewvc/commons/proper/math/trunk/src/test/java/org/apache/commons/math3/stat/descriptive/UnivariateStatisticAbstractTest.java?rev=1368738&r1=1368737&r2=1368738&view=diff
==============================================================================
--- commons/proper/math/trunk/src/test/java/org/apache/commons/math3/stat/descriptive/UnivariateStatisticAbstractTest.java
(original)
+++ commons/proper/math/trunk/src/test/java/org/apache/commons/math3/stat/descriptive/UnivariateStatisticAbstractTest.java
Thu Aug  2 22:18:08 2012
@@ -21,8 +21,10 @@ import java.util.List;
 
 
 import org.apache.commons.math3.TestUtils;
-import org.apache.commons.math3.random.RandomData;
-import org.apache.commons.math3.random.RandomDataImpl;
+import org.apache.commons.math3.distribution.IntegerDistribution;
+import org.apache.commons.math3.distribution.UniformIntegerDistribution;
+import org.apache.commons.math3.distribution.RealDistribution;
+import org.apache.commons.math3.distribution.NormalDistribution;
 import org.apache.commons.math3.util.FastMath;
 import org.junit.Assert;
 import org.junit.Test;
@@ -179,21 +181,22 @@ public abstract class UnivariateStatisti
         final double sigma = 5;    // std dev of test data
         double[] values = new double[len];
         double[] weights = new double[len];
-        RandomData randomData = new RandomDataImpl();
 
         // Fill weights array with random int values between 1 and 5
         int[] intWeights = new int[len];
+        final IntegerDistribution weightDist = new UniformIntegerDistribution(1, 5);
         for (int i = 0; i < len; i++) {
-            intWeights[i] = randomData.nextInt(1, 5);
+            intWeights[i] = weightDist.sample();
             weights[i] = intWeights[i];
         }
 
         // Fill values array with random data from N(mu, sigma)
         // and fill valuesList with values from values array with
         // values[i] repeated weights[i] times, each i
+        final RealDistribution valueDist = new NormalDistribution(mu, sigma);
         List<Double> valuesList = new ArrayList<Double>();
         for (int i = 0; i < len; i++) {
-            double value = randomData.nextGaussian(mu, sigma);
+            double value = valueDist.sample();
             values[i] = value;
             for (int j = 0; j < intWeights[i]; j++) {
                 valuesList.add(new Double(value));

Modified: commons/proper/math/trunk/src/test/java/org/apache/commons/math3/util/MathUtilsTest.java
URL: http://svn.apache.org/viewvc/commons/proper/math/trunk/src/test/java/org/apache/commons/math3/util/MathUtilsTest.java?rev=1368738&r1=1368737&r2=1368738&view=diff
==============================================================================
--- commons/proper/math/trunk/src/test/java/org/apache/commons/math3/util/MathUtilsTest.java
(original)
+++ commons/proper/math/trunk/src/test/java/org/apache/commons/math3/util/MathUtilsTest.java
Thu Aug  2 22:18:08 2012
@@ -18,6 +18,8 @@ import org.apache.commons.math3.exceptio
 import org.apache.commons.math3.exception.NullArgumentException;
 import org.apache.commons.math3.exception.util.LocalizedFormats;
 import org.apache.commons.math3.random.RandomDataImpl;
+import org.apache.commons.math3.distribution.RealDistribution;
+import org.apache.commons.math3.distribution.UniformRealDistribution;
 import org.junit.Assert;
 import org.junit.Test;
 
@@ -80,7 +82,8 @@ public final class MathUtilsTest {
 
         // Generate 10 distinct random values
         for (int i = 0; i < 10; i++) {
-            original[i] = random.nextUniform(i + 0.5, i + 0.75);
+            final RealDistribution u = new UniformRealDistribution(i + 0.5, i + 0.75);
+            original[i] = u.sample();
         }
 
         // Generate a random permutation, making sure it is not the identity

Modified: commons/proper/math/trunk/src/test/java/org/apache/commons/math3/util/ResizableDoubleArrayTest.java
URL: http://svn.apache.org/viewvc/commons/proper/math/trunk/src/test/java/org/apache/commons/math3/util/ResizableDoubleArrayTest.java?rev=1368738&r1=1368737&r2=1368738&view=diff
==============================================================================
--- commons/proper/math/trunk/src/test/java/org/apache/commons/math3/util/ResizableDoubleArrayTest.java
(original)
+++ commons/proper/math/trunk/src/test/java/org/apache/commons/math3/util/ResizableDoubleArrayTest.java
Thu Aug  2 22:18:08 2012
@@ -15,8 +15,10 @@
  * limitations under the License.
  */
 package org.apache.commons.math3.util;
-import org.apache.commons.math3.random.RandomDataImpl;
-import org.apache.commons.math3.random.RandomData;
+
+import org.apache.commons.math3.distribution.IntegerDistribution;
+import org.apache.commons.math3.distribution.UniformIntegerDistribution;
+
 import org.junit.After;
 import org.junit.Assert;
 import org.junit.Before;
@@ -313,8 +315,8 @@ public class ResizableDoubleArrayTest ex
         ResizableDoubleArray eDA2 = new ResizableDoubleArray(2);
         Assert.assertEquals("Initial number of elements should be 0", 0, eDA2.getNumElements());
 
-        RandomData randomData = new RandomDataImpl();
-        int iterations = randomData.nextInt(100, 1000);
+        final IntegerDistribution randomData = new UniformIntegerDistribution(100, 1000);
+        final int iterations = randomData.sample();
 
         for( int i = 0; i < iterations; i++) {
             eDA2.addElement( i );
@@ -334,8 +336,8 @@ public class ResizableDoubleArrayTest ex
         ResizableDoubleArray eDA3 = new ResizableDoubleArray(3, 3.0f, 3.5f);
         Assert.assertEquals("Initial number of elements should be 0", 0, eDA3.getNumElements()
);
 
-        RandomData randomData = new RandomDataImpl();
-        int iterations = randomData.nextInt(100, 3000);
+        final IntegerDistribution randomData = new UniformIntegerDistribution(100, 3000);
+        final int iterations = randomData.sample();
 
         for( int i = 0; i < iterations; i++) {
             eDA3.addElement( i );



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