Remove spurious file.
Thanks to Karl-Philipp Richter.
Closes #201.
diff --git a/commons-math-legacy/src/test/java/org/apache/commons/math4/legacy/stat/StatUtilsTest.java.orig b/commons-math-legacy/src/test/java/org/apache/commons/math4/legacy/stat/StatUtilsTest.java.orig
deleted file mode 100644
index dad6cd5..0000000
--- a/commons-math-legacy/src/test/java/org/apache/commons/math4/legacy/stat/StatUtilsTest.java.orig
+++ /dev/null
@@ -1,556 +0,0 @@
-/*
- * Licensed to the Apache Software Foundation (ASF) under one or more
- * contributor license agreements. See the NOTICE file distributed with
- * this work for additional information regarding copyright ownership.
- * The ASF licenses this file to You under the Apache License, Version 2.0
- * (the "License"); you may not use this file except in compliance with
- * the License. You may obtain a copy of the License at
- *
- * http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing, software
- * distributed under the License is distributed on an "AS IS" BASIS,
- * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
- * See the License for the specific language governing permissions and
- * limitations under the License.
- */
-package org.apache.commons.math4.stat;
-
-
-import org.apache.commons.math4.TestUtils;
-import org.apache.commons.math4.exception.MathIllegalArgumentException;
-import org.apache.commons.math4.exception.NullArgumentException;
-import org.apache.commons.math4.stat.descriptive.DescriptiveStatistics;
-import org.apache.commons.math4.util.FastMath;
-import org.apache.commons.numbers.core.Precision;
-import org.junit.Assert;
-import org.junit.Test;
-
-/**
- * Test cases for the {@link StatUtils} class.
- */
-
-public final class StatUtilsTest {
-
- private static final double ONE = 1;
- private static final float TWO = 2;
- private static final int THREE = 3;
- private static final double MEAN = 2;
- private static final double SUMSQ = 18;
- private static final double SUM = 8;
- private static final double VAR = 0.666666666666666666667;
- private static final double MIN = 1;
- private static final double MAX = 3;
- private static final double TOLERANCE = 10E-15;
- private static final double NAN = Double.NaN;
-
- /** test stats */
- @Test
- public void testStats() {
- double[] values = new double[] { ONE, TWO, TWO, THREE };
- Assert.assertEquals("sum", SUM, StatUtils.sum(values), TOLERANCE);
- Assert.assertEquals("sumsq", SUMSQ, StatUtils.sumSq(values), TOLERANCE);
- Assert.assertEquals("var", VAR, StatUtils.variance(values), TOLERANCE);
- Assert.assertEquals("var with mean", VAR, StatUtils.variance(values, MEAN), TOLERANCE);
- Assert.assertEquals("mean", MEAN, StatUtils.mean(values), TOLERANCE);
- Assert.assertEquals("min", MIN, StatUtils.min(values), TOLERANCE);
- Assert.assertEquals("max", MAX, StatUtils.max(values), TOLERANCE);
- }
-
- @Test
- public void testN0andN1Conditions() {
- double[] values = new double[0];
-
- Assert.assertTrue(
- "Mean of n = 0 set should be NaN",
- Double.isNaN(StatUtils.mean(values)));
- Assert.assertTrue(
- "Variance of n = 0 set should be NaN",
- Double.isNaN(StatUtils.variance(values)));
-
- values = new double[] { ONE };
-
- Assert.assertTrue(
- "Mean of n = 1 set should be value of single item n1",
- StatUtils.mean(values) == ONE);
- Assert.assertTrue(
- "Variance of n = 1 set should be zero",
- StatUtils.variance(values) == 0);
- }
-
- @Test
- public void testArrayIndexConditions() {
- double[] values = { 1.0, 2.0, 3.0, 4.0 };
-
- Assert.assertEquals(
- "Sum not expected",
- 5.0,
- StatUtils.sum(values, 1, 2),
- Double.MIN_VALUE);
- Assert.assertEquals(
- "Sum not expected",
- 3.0,
- StatUtils.sum(values, 0, 2),
- Double.MIN_VALUE);
- Assert.assertEquals(
- "Sum not expected",
- 7.0,
- StatUtils.sum(values, 2, 2),
- Double.MIN_VALUE);
-
- try {
- StatUtils.sum(values, 2, 3);
- Assert.fail("Expected RuntimeException");
- } catch (RuntimeException e) {
- // expected
- }
-
- try {
- StatUtils.sum(values, -1, 2);
- Assert.fail("Expected RuntimeException");
- } catch (RuntimeException e) {
- // expected
- }
-
- }
-
- @Test
- public void testSumSq() {
- double[] x = null;
-
- // test null
- try {
- StatUtils.sumSq(x);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- try {
- StatUtils.sumSq(x, 0, 4);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- // test empty
- x = new double[] {};
- TestUtils.assertEquals(0, StatUtils.sumSq(x), TOLERANCE);
- TestUtils.assertEquals(0, StatUtils.sumSq(x, 0, 0), TOLERANCE);
-
- // test one
- x = new double[] {TWO};
- TestUtils.assertEquals(4, StatUtils.sumSq(x), TOLERANCE);
- TestUtils.assertEquals(4, StatUtils.sumSq(x, 0, 1), TOLERANCE);
-
- // test many
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(18, StatUtils.sumSq(x), TOLERANCE);
- TestUtils.assertEquals(8, StatUtils.sumSq(x, 1, 2), TOLERANCE);
- }
-
- @Test
- public void testProduct() {
- double[] x = null;
-
- // test null
- try {
- StatUtils.product(x);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- try {
- StatUtils.product(x, 0, 4);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- // test empty
- x = new double[] {};
- TestUtils.assertEquals(1, StatUtils.product(x), TOLERANCE);
- TestUtils.assertEquals(1, StatUtils.product(x, 0, 0), TOLERANCE);
-
- // test one
- x = new double[] {TWO};
- TestUtils.assertEquals(TWO, StatUtils.product(x), TOLERANCE);
- TestUtils.assertEquals(TWO, StatUtils.product(x, 0, 1), TOLERANCE);
-
- // test many
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(12, StatUtils.product(x), TOLERANCE);
- TestUtils.assertEquals(4, StatUtils.product(x, 1, 2), TOLERANCE);
- }
-
- @Test
- public void testSumLog() {
- double[] x = null;
-
- // test null
- try {
- StatUtils.sumLog(x);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- try {
- StatUtils.sumLog(x, 0, 4);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- // test empty
- x = new double[] {};
- TestUtils.assertEquals(0, StatUtils.sumLog(x), TOLERANCE);
- TestUtils.assertEquals(0, StatUtils.sumLog(x, 0, 0), TOLERANCE);
-
- // test one
- x = new double[] {TWO};
- TestUtils.assertEquals(FastMath.log(TWO), StatUtils.sumLog(x), TOLERANCE);
- TestUtils.assertEquals(FastMath.log(TWO), StatUtils.sumLog(x, 0, 1), TOLERANCE);
-
- // test many
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(FastMath.log(ONE) + 2.0 * FastMath.log(TWO) + FastMath.log(THREE), StatUtils.sumLog(x), TOLERANCE);
- TestUtils.assertEquals(2.0 * FastMath.log(TWO), StatUtils.sumLog(x, 1, 2), TOLERANCE);
- }
-
- @Test
- public void testMean() {
- double[] x = null;
-
- try {
- StatUtils.mean(x, 0, 4);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- // test empty
- x = new double[] {};
- TestUtils.assertEquals(Double.NaN, StatUtils.mean(x, 0, 0), TOLERANCE);
-
- // test one
- x = new double[] {TWO};
- TestUtils.assertEquals(TWO, StatUtils.mean(x, 0, 1), TOLERANCE);
-
- // test many
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(2.5, StatUtils.mean(x, 2, 2), TOLERANCE);
- }
-
- @Test
- public void testVariance() {
- double[] x = null;
-
- try {
- StatUtils.variance(x, 0, 4);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- // test empty
- x = new double[] {};
- TestUtils.assertEquals(Double.NaN, StatUtils.variance(x, 0, 0), TOLERANCE);
-
- // test one
- x = new double[] {TWO};
- TestUtils.assertEquals(0.0, StatUtils.variance(x, 0, 1), TOLERANCE);
-
- // test many
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(0.5, StatUtils.variance(x, 2, 2), TOLERANCE);
-
- // test precomputed mean
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(0.5, StatUtils.variance(x,2.5, 2, 2), TOLERANCE);
- }
-
- @Test
- public void testPopulationVariance() {
- double[] x = null;
-
- try {
- StatUtils.variance(x, 0, 4);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- // test empty
- x = new double[] {};
- TestUtils.assertEquals(Double.NaN, StatUtils.populationVariance(x, 0, 0), TOLERANCE);
-
- // test one
- x = new double[] {TWO};
- TestUtils.assertEquals(0.0, StatUtils.populationVariance(x, 0, 1), TOLERANCE);
-
- // test many
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(0.25, StatUtils.populationVariance(x, 0, 2), TOLERANCE);
-
- // test precomputed mean
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(0.25, StatUtils.populationVariance(x, 2.5, 2, 2), TOLERANCE);
- }
-
-
- @Test
- public void testMax() {
- double[] x = null;
-
- try {
- StatUtils.max(x, 0, 4);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- // test empty
- x = new double[] {};
- TestUtils.assertEquals(Double.NaN, StatUtils.max(x, 0, 0), TOLERANCE);
-
- // test one
- x = new double[] {TWO};
- TestUtils.assertEquals(TWO, StatUtils.max(x, 0, 1), TOLERANCE);
-
- // test many
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(THREE, StatUtils.max(x, 1, 3), TOLERANCE);
-
- // test first nan is ignored
- x = new double[] {NAN, TWO, THREE};
- TestUtils.assertEquals(THREE, StatUtils.max(x), TOLERANCE);
-
- // test middle nan is ignored
- x = new double[] {ONE, NAN, THREE};
- TestUtils.assertEquals(THREE, StatUtils.max(x), TOLERANCE);
-
- // test last nan is ignored
- x = new double[] {ONE, TWO, NAN};
- TestUtils.assertEquals(TWO, StatUtils.max(x), TOLERANCE);
-
- // test all nan returns nan
- x = new double[] {NAN, NAN, NAN};
- TestUtils.assertEquals(NAN, StatUtils.max(x), TOLERANCE);
- }
-
- @Test
- public void testMin() {
- double[] x = null;
-
- try {
- StatUtils.min(x, 0, 4);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- // test empty
- x = new double[] {};
- TestUtils.assertEquals(Double.NaN, StatUtils.min(x, 0, 0), TOLERANCE);
-
- // test one
- x = new double[] {TWO};
- TestUtils.assertEquals(TWO, StatUtils.min(x, 0, 1), TOLERANCE);
-
- // test many
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(TWO, StatUtils.min(x, 1, 3), TOLERANCE);
-
- // test first nan is ignored
- x = new double[] {NAN, TWO, THREE};
- TestUtils.assertEquals(TWO, StatUtils.min(x), TOLERANCE);
-
- // test middle nan is ignored
- x = new double[] {ONE, NAN, THREE};
- TestUtils.assertEquals(ONE, StatUtils.min(x), TOLERANCE);
-
- // test last nan is ignored
- x = new double[] {ONE, TWO, NAN};
- TestUtils.assertEquals(ONE, StatUtils.min(x), TOLERANCE);
-
- // test all nan returns nan
- x = new double[] {NAN, NAN, NAN};
- TestUtils.assertEquals(NAN, StatUtils.min(x), TOLERANCE);
- }
-
- @Test
- public void testPercentile() {
- double[] x = null;
-
- // test null
- try {
- StatUtils.percentile(x, .25);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- try {
- StatUtils.percentile(x, 0, 4, 0.25);
- Assert.fail("null is not a valid data array.");
- } catch (NullArgumentException ex) {
- // success
- }
-
- // test empty
- x = new double[] {};
- TestUtils.assertEquals(Double.NaN, StatUtils.percentile(x, 25), TOLERANCE);
- TestUtils.assertEquals(Double.NaN, StatUtils.percentile(x, 0, 0, 25), TOLERANCE);
-
- // test one
- x = new double[] {TWO};
- TestUtils.assertEquals(TWO, StatUtils.percentile(x, 25), TOLERANCE);
- TestUtils.assertEquals(TWO, StatUtils.percentile(x, 0, 1, 25), TOLERANCE);
-
- // test many
- x = new double[] {ONE, TWO, TWO, THREE};
- TestUtils.assertEquals(2.5, StatUtils.percentile(x, 70), TOLERANCE);
- TestUtils.assertEquals(2.5, StatUtils.percentile(x, 1, 3, 62.5), TOLERANCE);
- }
-
- @Test
- public void testDifferenceStats() {
- double sample1[] = {1d, 2d, 3d, 4d};
- double sample2[] = {1d, 3d, 4d, 2d};
- double diff[] = {0d, -1d, -1d, 2d};
- double small[] = {1d, 4d};
- double meanDifference = StatUtils.meanDifference(sample1, sample2);
- Assert.assertEquals(StatUtils.sumDifference(sample1, sample2), StatUtils.sum(diff), TOLERANCE);
- Assert.assertEquals(meanDifference, StatUtils.mean(diff), TOLERANCE);
- Assert.assertEquals(StatUtils.varianceDifference(sample1, sample2, meanDifference),
- StatUtils.variance(diff), TOLERANCE);
- try {
- StatUtils.meanDifference(sample1, small);
- Assert.fail("Expecting MathIllegalArgumentException");
- } catch (MathIllegalArgumentException ex) {
- // expected
- }
- try {
- StatUtils.varianceDifference(sample1, small, meanDifference);
- Assert.fail("Expecting MathIllegalArgumentException");
- } catch (MathIllegalArgumentException ex) {
- // expected
- }
- try {
- double[] single = {1.0};
- StatUtils.varianceDifference(single, single, meanDifference);
- Assert.fail("Expecting MathIllegalArgumentException");
- } catch (MathIllegalArgumentException ex) {
- // expected
- }
- }
-
- @Test
- public void testGeometricMean() {
- double[] test = null;
- try {
- StatUtils.geometricMean(test);
- Assert.fail("Expecting NullArgumentException");
- } catch (NullArgumentException ex) {
- // expected
- }
- test = new double[] {2, 4, 6, 8};
- Assert.assertEquals(FastMath.exp(0.25d * StatUtils.sumLog(test)),
- StatUtils.geometricMean(test), Double.MIN_VALUE);
- Assert.assertEquals(FastMath.exp(0.5 * StatUtils.sumLog(test, 0, 2)),
- StatUtils.geometricMean(test, 0, 2), Double.MIN_VALUE);
- }
-
-
- /**
- * Run the test with the values 50 and 100 and assume standardized values
- */
-
- @Test
- public void testNormalize1() {
- double sample[] = { 50, 100 };
- double expectedSample[] = { -25 / FastMath.sqrt(1250), 25 / FastMath.sqrt(1250) };
- double[] out = StatUtils.normalize(sample);
- for (int i = 0; i < out.length; i++) {
- Assert.assertTrue(Precision.equals(out[i], expectedSample[i], 1));
- }
-
- }
-
- /**
- * Run with 77 random values, assuming that the outcome has a mean of 0 and a standard deviation of 1 with a
- * precision of 1E-10.
- */
-
- @Test
- public void testNormalize2() {
- // create an sample with 77 values
- int length = 77;
- double sample[] = new double[length];
- for (int i = 0; i < length; i++) {
- sample[i] = FastMath.random();
- }
- // normalize this sample
- double standardizedSample[] = StatUtils.normalize(sample);
-
- DescriptiveStatistics stats = new DescriptiveStatistics();
- // Add the data from the array
- for (int i = 0; i < length; i++) {
- stats.addValue(standardizedSample[i]);
- }
- // the calculations do have a limited precision
- double distance = 1E-10;
- // check the mean an standard deviation
- Assert.assertEquals(0.0, stats.getMean(), distance);
- Assert.assertEquals(1.0, stats.getStandardDeviation(), distance);
-
- }
-
- @Test
- public void testMode() {
- final double[] singleMode = {0, 1, 0, 2, 7, 11, 12};
- final double[] modeSingle = StatUtils.mode(singleMode);
- Assert.assertEquals(0, modeSingle[0], Double.MIN_VALUE);
- Assert.assertEquals(1, modeSingle.length);
-
- final double[] twoMode = {0, 1, 2, 0, 2, 3, 7, 11};
- final double[] modeDouble = StatUtils.mode(twoMode);
- Assert.assertEquals(0, modeDouble[0], Double.MIN_VALUE);
- Assert.assertEquals(2, modeDouble[1], Double.MIN_VALUE);
- Assert.assertEquals(2, modeDouble.length);
-
- final double[] nanInfested = {0, 0, 0, Double.NaN, Double.NaN, Double.NaN, Double.NaN, 2, 2, 2, 3, 5};
- final double[] modeNan = StatUtils.mode(nanInfested);
- Assert.assertEquals(0, modeNan[0], Double.MIN_VALUE);
- Assert.assertEquals(2, modeNan[1], Double.MIN_VALUE);
- Assert.assertEquals(2, modeNan.length);
-
- final double[] infInfested = {0, 0, Double.POSITIVE_INFINITY, Double.POSITIVE_INFINITY,
- Double.NEGATIVE_INFINITY, Double.NEGATIVE_INFINITY, 2, 2, 3, 5};
- final double[] modeInf = StatUtils.mode(infInfested);
- Assert.assertEquals(Double.NEGATIVE_INFINITY, modeInf[0], Double.MIN_VALUE);
- Assert.assertEquals(0, modeInf[1], Double.MIN_VALUE);
- Assert.assertEquals(2, modeInf[2], Double.MIN_VALUE);
- Assert.assertEquals(Double.POSITIVE_INFINITY, modeInf[3], Double.MIN_VALUE);
- Assert.assertEquals(4, modeInf.length);
-
- final double[] noData = {};
- final double[] modeNodata = StatUtils.mode(noData);
- Assert.assertEquals(0, modeNodata.length);
-
- final double[] nansOnly = {Double.NaN, Double.NaN};
- final double[] modeNansOnly = StatUtils.mode(nansOnly);
- Assert.assertEquals(0, modeNansOnly.length);
-
- final double[] nullArray = null;
- try {
- StatUtils.mode(nullArray);
- Assert.fail("Expecting NullArgumentException");
- } catch (NullArgumentException ex) {
- // Expected
- }
- }
-
-}
