Le 30/12/2010 16:44, Mikkel Meyer Andersen a écrit : > 2010/12/30 Luc Maisonobe <luc.maison...@free.fr>: >> Le 30/12/2010 16:18, Luc Maisonobe a écrit : >>> Le 30/12/2010 11:00, Mikkel Meyer Andersen a écrit : >>>> Hi, >>> >>> Hi Mikkel, >>> >>>> >>>> This commit consists of new files, so I put >>>> @version $Revision: $ $Date: $ >>>> in the top. I thought SVN would then auto update these, but after >>>> checking out again to see if it worked, I see that it didn't. What >>>> should I do to make it work? Fire a svn propXXX, use other variables, >>>> or? >>> >>> You should set some properties. The ones we traditionally use are: >>> svn:eol-style=native >>> svn:keywords="Author Date Id Revision" >> >> Well, in fact we have a policy not to use Author, but rather to put the >> author names in the contibutor and developpers sections of the pom.xml file. >> >> Luc >> >>> >>> One way to have these properties automatically set is to use a "config" >>> file in subversion configuration folder. I have put the file I use here: >>> <http://people.apache.org/~luc/config>. >>> >>> I think the file is used only for newly created files, so now that the >>> files are already in the repository, you should probably set the >>> properties manually. >>> >>> best regards, >>> Luc >>> >>>> >>>> Cheers, Mikkel. >>>> >>>> 2010/12/30 <m...@apache.org>: >>>>> Author: mikl >>>>> Date: Thu Dec 30 09:52:00 2010 >>>>> New Revision: 1053836 >>>>> >>>>> URL: http://svn.apache.org/viewvc?rev=1053836&view=rev >>>>> Log: >>>>> Starting point for fixing MATH-431. Still some validation tests and >>>>> documentation are missing. >>>>> >>>>> Added: >>>>> >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/MannWhitneyUTest.java >>>>> >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/MannWhitneyUTestImpl.java >>>>> >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTest.java >>>>> >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTestImpl.java >>>>> >>>>> commons/proper/math/trunk/src/test/java/org/apache/commons/math/stat/inference/MannWhitneyUTestTest.java >>>>> >>>>> commons/proper/math/trunk/src/test/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTestTest.java >>>>> >>>>> Added: >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/MannWhitneyUTest.java >>>>> URL: >>>>> http://svn.apache.org/viewvc/commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/MannWhitneyUTest.java?rev=1053836&view=auto >>>>> ============================================================================== >>>>> --- >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/MannWhitneyUTest.java >>>>> (added) >>>>> +++ >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/MannWhitneyUTest.java >>>>> Thu Dec 30 09:52:00 2010 >>>>> @@ -0,0 +1,96 @@ >>>>> +/* >>>>> + * 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.math.stat.inference; >>>>> + >>>>> +import org.apache.commons.math.MathException; >>>>> + >>>>> +/** >>>>> + * An interface for Mann-Whitney U test (also called Wilcoxon rank-sum >>>>> test). >>>>> + * >>>>> + * @version $Revision: $ $Date: $ >>>>> + */ >>>>> +public interface MannWhitneyUTest { >>>>> + >>>>> + /** >>>>> + * Computes the <a >>>>> + * href="http://en.wikipedia.org/wiki/Mann%E2%80%93Whitney_U";> >>>>> Mann-Whitney >>>>> + * U statistic</a> comparing mean for two independent samples >>>>> possibly of >>>>> + * different length. >>>>> + * <p> >>>>> + * This statistic can be used to perform a Mann-Whitney U test >>>>> evaluating >>>>> + * the null hypothesis that the two independent samples has equal >>>>> mean. >>>>> + * </p> >>>>> + * <p> >>>>> + * Let X<sub>i</sub> denote the i'th individual of the first sample >>>>> and >>>>> + * Y<sub>j</sub> the j'th individual in the second sample. Note that >>>>> the >>>>> + * samples would often have different length. >>>>> + * </p> >>>>> + * <p> >>>>> + * <strong>Preconditions</strong>: >>>>> + * <ul> >>>>> + * <li>All observations in the two samples are independent.</li> >>>>> + * <li>The observations are at least ordinal (continuous are also >>>>> ordinal).</li> >>>>> + * </ul> >>>>> + * </p> >>>>> + * >>>>> + * @param x >>>>> + * the first sample >>>>> + * @param y >>>>> + * the second sample >>>>> + * @return mannWhitneyU statistic >>>>> + * @throws IllegalArgumentException >>>>> + * if preconditions are not met >>>>> + */ >>>>> + double mannWhitneyU(final double[] x, final double[] y) >>>>> + throws IllegalArgumentException; >>>>> + >>>>> + /** >>>>> + * Returns the asymptotic <i>observed significance level</i>, or <a >>>>> href= >>>>> + * "http://www.cas.lancs.ac.uk/glossary_v1.1/hyptest.html#pvalue";> >>>>> + * p-value</a>, associated with a <a >>>>> + * href="http://en.wikipedia.org/wiki/Mann%E2%80%93Whitney_U";> >>>>> Mann-Whitney >>>>> + * U statistic</a> comparing mean for two independent samples. >>>>> + * <p> >>>>> + * Let X<sub>i</sub> denote the i'th individual of the first sample >>>>> and >>>>> + * Y<sub>j</sub> the j'th individual in the second sample. Note that >>>>> the >>>>> + * samples would often have different length. >>>>> + * </p> >>>>> + * <p> >>>>> + * <strong>Preconditions</strong>: >>>>> + * <ul> >>>>> + * <li>All observations in the two samples are independent.</li> >>>>> + * <li>The observations are at least ordinal (continuous are also >>>>> ordinal).</li> >>>>> + * </ul> >>>>> + * </p> >>>>> + * >>>>> + * @param x >>>>> + * the first sample >>>>> + * @param y >>>>> + * the second sample >>>>> + * @param exactPValue >>>>> + * if the exact p-value is wanted (only works for >>>>> x.length <= 30, >>>>> + * if true and x.length > 30, this is ignored because >>>>> + * calculations may take too long) >>>>> + * @return asymptotic p-value >>>>> + * @throws IllegalArgumentException >>>>> + * if preconditions are not met >>>>> + * @throws MathException >>>>> + * if an error occurs computing the p-value >>>>> + */ >>>>> + double mannWhitneyUTest(final double[] x, final double[] y) >>>>> + throws IllegalArgumentException, MathException; >>>>> +} >>>>> >>>>> Added: >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/MannWhitneyUTestImpl.java >>>>> URL: >>>>> http://svn.apache.org/viewvc/commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/MannWhitneyUTestImpl.java?rev=1053836&view=auto >>>>> ============================================================================== >>>>> --- >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/MannWhitneyUTestImpl.java >>>>> (added) >>>>> +++ >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/MannWhitneyUTestImpl.java >>>>> Thu Dec 30 09:52:00 2010 >>>>> @@ -0,0 +1,199 @@ >>>>> +/* >>>>> + * 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.math.stat.inference; >>>>> + >>>>> +import org.apache.commons.math.MathException; >>>>> +import org.apache.commons.math.distribution.NormalDistributionImpl; >>>>> +import org.apache.commons.math.stat.ranking.NaNStrategy; >>>>> +import org.apache.commons.math.stat.ranking.NaturalRanking; >>>>> +import org.apache.commons.math.stat.ranking.TiesStrategy; >>>>> +import org.apache.commons.math.util.FastMath; >>>>> + >>>>> +/** >>>>> + * An implementation of the Mann-Whitney U test (also called Wilcoxon >>>>> rank-sum >>>>> + * test). >>>>> + * >>>>> + * @version $Revision: $ $Date: $ >>>>> + */ >>>>> +public class MannWhitneyUTestImpl implements MannWhitneyUTest { >>>>> + private NaturalRanking naturalRanking; >>>>> + >>>>> + /** >>>>> + * Create a test instance using where NaN's are left in place and >>>>> ties get >>>>> + * the average of applicable ranks. Use this unless you are very >>>>> sure of >>>>> + * what you are doing. >>>>> + */ >>>>> + public MannWhitneyUTestImpl() { >>>>> + naturalRanking = new NaturalRanking(NaNStrategy.FIXED, >>>>> + TiesStrategy.AVERAGE); >>>>> + } >>>>> + >>>>> + /** >>>>> + * Create a test instance using the given strategies for NaN's and >>>>> ties. >>>>> + * Only use this if you are sure of what you are doing. >>>>> + * >>>>> + * @param nanStrategy >>>>> + * specifies the strategy that should be used for >>>>> Double.NaN's >>>>> + * @param tiesStrategy >>>>> + * specifies the strategy that should be used for ties >>>>> + */ >>>>> + public MannWhitneyUTestImpl(NaNStrategy nanStrategy, >>>>> + TiesStrategy tiesStrategy) { >>>>> + naturalRanking = new NaturalRanking(nanStrategy, tiesStrategy); >>>>> + } >>>>> + >>>>> + /** >>>>> + * Ensures that the provided arrays fulfills the assumptions. >>>>> + * >>>>> + * @param x >>>>> + * @param y >>>>> + * @throws IllegalArgumentException >>>>> + * if assumptions are not met >>>>> + */ >>>>> + private void ensureDataConformance(final double[] x, final double[] >>>>> y) >>>>> + throws IllegalArgumentException { >>>>> + if (x == null) { >>>>> + throw new IllegalArgumentException("x must not be null"); >>>>> + } >>>>> + >>>>> + if (y == null) { >>>>> + throw new IllegalArgumentException("y must not be null"); >>>>> + } >>>>> + >>>>> + if (x.length == 0) { >>>>> + throw new IllegalArgumentException( >>>>> + "x must contain at least one element"); >>>>> + } >>>>> + >>>>> + if (y.length == 0) { >>>>> + throw new IllegalArgumentException( >>>>> + "y must contain at least one element"); >>>>> + } >>>>> + } >>>>> + >>>>> + private double[] concatinateSamples(final double[] x, final double[] >>>>> y) { >>>>> + final double[] z = new double[x.length + y.length]; >>>>> + >>>>> + System.arraycopy(x, 0, z, 0, x.length); >>>>> + System.arraycopy(y, 0, z, x.length, y.length); >>>>> + >>>>> + return z; >>>>> + } >>>>> + >>>>> + /** >>>>> + * {...@inheritdoc} >>>>> + * >>>>> + * @param x >>>>> + * the first sample >>>>> + * @param y >>>>> + * the second sample >>>>> + * @return mannWhitneyU statistic U (maximum of U<sup>x</sup> and >>>>> U<sup>y</sup>) >>>>> + * @throws IllegalArgumentException >>>>> + * if preconditions are not met >>>>> + */ >>>>> + public double mannWhitneyU(final double[] x, final double[] y) >>>>> + throws IllegalArgumentException { >>>>> + >>>>> + ensureDataConformance(x, y); >>>>> + >>>>> + final double[] z = concatinateSamples(x, y); >>>>> + final double[] ranks = naturalRanking.rank(z); >>>>> + >>>>> + double sumRankX = 0; >>>>> + >>>>> + /* >>>>> + * The ranks for x is in the first x.length entries in ranks >>>>> because x >>>>> + * is in the first x.length entries in z >>>>> + */ >>>>> + for (int i = 0; i < x.length; ++i) { >>>>> + sumRankX += ranks[i]; >>>>> + } >>>>> + >>>>> + /* >>>>> + * U1 = R1 - (n1 * (n1 + 1)) / 2 where R1 is sum of ranks for >>>>> sample 1, >>>>> + * e.g. x, n1 is the number of observations in sample 1. >>>>> + */ >>>>> + final double U1 = sumRankX - (x.length * (x.length + 1)) / 2; >>>>> + >>>>> + /* >>>>> + * It can be shown that U1 + U2 = n1 * n2 >>>>> + */ >>>>> + final double U2 = x.length * y.length - U1; >>>>> + >>>>> + return FastMath.max(U1, U2); >>>>> + } >>>>> + >>>>> + /** >>>>> + * @param Umin >>>>> + * smallest Mann-Whitney U value >>>>> + * @param N >>>>> + * number of subjects (corresponding to x.length) >>>>> + * @return two-sided asymptotic p-value >>>>> + * @throws MathException >>>>> + * if an error occurs computing the p-value >>>>> + */ >>>>> + private double calculateAsymptoticPValue(final double Umin, final >>>>> int n1, >>>>> + final int n2) throws MathException { >>>>> + >>>>> + final int n1n2prod = n1 * n2; >>>>> + >>>>> + // >>>>> http://en.wikipedia.org/wiki/Mann%E2%80%93Whitney_U#Normal_approximation >>>>> + final double EU = (double) n1n2prod / 2.0; >>>>> + final double VarU = (double) (n1n2prod * (n1 + n2 + 1)) / 12.0; >>>>> + >>>>> + final double z = (Umin - EU) / FastMath.sqrt(VarU); >>>>> + >>>>> + final NormalDistributionImpl standardNormal = new >>>>> NormalDistributionImpl( >>>>> + 0, 1); >>>>> + >>>>> + return 2 * standardNormal.cumulativeProbability(z); >>>>> + } >>>>> + >>>>> + /** >>>>> + * Ties give rise to biased variance at the moment. See e.g. <a >>>>> + * >>>>> href="http://mlsc.lboro.ac.uk/resources/statistics/Mannwhitney.pdf"; >>>>> + * >http://mlsc.lboro.ac.uk/resources/statistics/Mannwhitney.pdf</a>. >>>>> + * >>>>> + * {...@inheritdoc} >>>>> + * >>>>> + * @param x >>>>> + * the first sample >>>>> + * @param y >>>>> + * the second sample >>>>> + * @param exactPValue >>>>> + * if the exact p-value is wanted (only for x.length <= >>>>> 50) >>>>> + * @return asymptotic p-value (biased for samples with ties) >>>>> + * @throws IllegalArgumentException >>>>> + * if preconditions are not met >>>>> + * @throws MathException >>>>> + * if an error occurs computing the p-value >>>>> + */ >>>>> + public double mannWhitneyUTest(final double[] x, final double[] y) >>>>> + throws IllegalArgumentException, MathException { >>>>> + >>>>> + ensureDataConformance(x, y); >>>>> + >>>>> + final double Umax = mannWhitneyU(x, y); >>>>> + >>>>> + /* >>>>> + * It can be shown that U1 + U2 = n1 * n2 >>>>> + */ >>>>> + final double Umin = x.length * y.length - Umax; >>>>> + >>>>> + return calculateAsymptoticPValue(Umin, x.length, y.length); >>>>> + } >>>>> +} >>>>> >>>>> Added: >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTest.java >>>>> URL: >>>>> http://svn.apache.org/viewvc/commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTest.java?rev=1053836&view=auto >>>>> ============================================================================== >>>>> --- >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTest.java >>>>> (added) >>>>> +++ >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTest.java >>>>> Thu Dec 30 09:52:00 2010 >>>>> @@ -0,0 +1,107 @@ >>>>> +/* >>>>> + * 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.math.stat.inference; >>>>> + >>>>> +import org.apache.commons.math.MathException; >>>>> + >>>>> +/** >>>>> + * An interface for Wilcoxon signed-rank test. >>>>> + * >>>>> + * @version $Revision: $ $Date: $ >>>>> + */ >>>>> +public interface WilcoxonSignedRankTest { >>>>> + >>>>> + /** >>>>> + * Computes the <a >>>>> + * href="http://en.wikipedia.org/wiki/Wilcoxon_signed-rank_test";> >>>>> + * Wilcoxon signed ranked statistic</a> comparing mean for two >>>>> related >>>>> + * samples or repeated measurements on a single sample. >>>>> + * <p> >>>>> + * This statistic can be used to perform a Wilcoxon signed ranked >>>>> test >>>>> + * evaluating the null hypothesis that the two related samples or >>>>> repeated >>>>> + * measurements on a single sample has equal mean. >>>>> + * </p> >>>>> + * <p> >>>>> + * Let X<sub>i</sub> denote the i'th individual of the first sample >>>>> and >>>>> + * Y<sub>i</sub> the related i'th individual in the second sample. >>>>> Let >>>>> + * Z<sub>i</sub> = Y<sub>i</sub> - X<sub>i</sub>. >>>>> + * </p> >>>>> + * <p> >>>>> + * <strong>Preconditions</strong>: >>>>> + * <ul> >>>>> + * <li>The differences Z<sub>i</sub> must be independent.</li> >>>>> + * <li>Each Z<sub>i</sub> comes from a continuous population (they >>>>> must be >>>>> + * identical) and is symmetric about a common median.</li> >>>>> + * <li>The values that X<sub>i</sub> and Y<sub>i</sub> represent are >>>>> + * ordered, so the comparisons greater than, less than, and equal to >>>>> are >>>>> + * meaningful.</li> >>>>> + * </ul> >>>>> + * </p> >>>>> + * >>>>> + * @param x >>>>> + * the first sample >>>>> + * @param y >>>>> + * the second sample >>>>> + * @return wilcoxonSignedRank statistic >>>>> + * @throws IllegalArgumentException >>>>> + * if preconditions are not met >>>>> + */ >>>>> + double wilcoxonSignedRank(final double[] x, final double[] y) >>>>> + throws IllegalArgumentException; >>>>> + >>>>> + /** >>>>> + * Returns the <i>observed significance level</i>, or <a href= >>>>> + * "http://www.cas.lancs.ac.uk/glossary_v1.1/hyptest.html#pvalue";> >>>>> + * p-value</a>, associated with a <a >>>>> + * href="http://en.wikipedia.org/wiki/Wilcoxon_signed-rank_test";> >>>>> + * Wilcoxon signed ranked statistic</a> comparing mean for two >>>>> related >>>>> + * samples or repeated measurements on a single sample. >>>>> + * <p> >>>>> + * Let X<sub>i</sub> denote the i'th individual of the first sample >>>>> and >>>>> + * Y<sub>i</sub> the related i'th individual in the second sample. >>>>> Let >>>>> + * Z<sub>i</sub> = Y<sub>i</sub> - X<sub>i</sub>. >>>>> + * </p> >>>>> + * <p> >>>>> + * <strong>Preconditions</strong>: >>>>> + * <ul> >>>>> + * <li>The differences Z<sub>i</sub> must be independent.</li> >>>>> + * <li>Each Z<sub>i</sub> comes from a continuous population (they >>>>> must be >>>>> + * identical) and is symmetric about a common median.</li> >>>>> + * <li>The values that X<sub>i</sub> and Y<sub>i</sub> represent are >>>>> + * ordered, so the comparisons greater than, less than, and equal to >>>>> are >>>>> + * meaningful.</li> >>>>> + * </ul> >>>>> + * </p> >>>>> + * >>>>> + * @param x >>>>> + * the first sample >>>>> + * @param y >>>>> + * the second sample >>>>> + * @param exactPValue >>>>> + * if the exact p-value is wanted (only works for >>>>> x.length <= 30, >>>>> + * if true and x.length > 30, this is ignored because >>>>> + * calculations may take too long) >>>>> + * @return p-value >>>>> + * @throws IllegalArgumentException >>>>> + * if preconditions are not met >>>>> + * @throws MathException >>>>> + * if an error occurs computing the p-value >>>>> + */ >>>>> + double wilcoxonSignedRankTest(final double[] x, final double[] y, >>>>> + boolean exactPValue) throws IllegalArgumentException, >>>>> + MathException; >>>>> +} >>>>> >>>>> Added: >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTestImpl.java >>>>> URL: >>>>> http://svn.apache.org/viewvc/commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTestImpl.java?rev=1053836&view=auto >>>>> ============================================================================== >>>>> --- >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTestImpl.java >>>>> (added) >>>>> +++ >>>>> commons/proper/math/trunk/src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTestImpl.java >>>>> Thu Dec 30 09:52:00 2010 >>>>> @@ -0,0 +1,271 @@ >>>>> +/* >>>>> + * 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.math.stat.inference; >>>>> + >>>>> +import org.apache.commons.math.MathException; >>>>> +import org.apache.commons.math.distribution.NormalDistributionImpl; >>>>> +import org.apache.commons.math.stat.ranking.NaNStrategy; >>>>> +import org.apache.commons.math.stat.ranking.NaturalRanking; >>>>> +import org.apache.commons.math.stat.ranking.TiesStrategy; >>>>> +import org.apache.commons.math.util.FastMath; >>>>> + >>>>> +/** >>>>> + * An implementation of the Wilcoxon signed-rank test. >>>>> + * >>>>> + * @version $Revision: $ $Date: $ >>>>> + */ >>>>> +public class WilcoxonSignedRankTestImpl implements >>>>> WilcoxonSignedRankTest { >>>>> + private NaturalRanking naturalRanking; >>>>> + >>>>> + /** >>>>> + * Create a test instance where NaN's are left in place and ties get >>>>> + * the average of applicable ranks. Use this unless you are very sure >>>>> + * of what you are doing. >>>>> + */ >>>>> + public WilcoxonSignedRankTestImpl() { >>>>> + naturalRanking = new NaturalRanking(NaNStrategy.FIXED, >>>>> + TiesStrategy.AVERAGE); >>>>> + } >>>>> + >>>>> + /** >>>>> + * Create a test instance using the given strategies for NaN's and >>>>> ties. >>>>> + * Only use this if you are sure of what you are doing. >>>>> + * >>>>> + * @param nanStrategy >>>>> + * specifies the strategy that should be used for >>>>> Double.NaN's >>>>> + * @param tiesStrategy >>>>> + * specifies the strategy that should be used for ties >>>>> + */ >>>>> + public WilcoxonSignedRankTestImpl(NaNStrategy nanStrategy, >>>>> + TiesStrategy tiesStrategy) { >>>>> + naturalRanking = new NaturalRanking(nanStrategy, tiesStrategy); >>>>> + } >>>>> + >>>>> + /** >>>>> + * Ensures that the provided arrays fulfills the assumptions. >>>>> + * >>>>> + * @param x >>>>> + * @param y >>>>> + * @throws IllegalArgumentException >>>>> + * if assumptions are not met >>>>> + */ >>>>> + private void ensureDataConformance(final double[] x, final double[] >>>>> y) >>>>> + throws IllegalArgumentException { >>>>> + if (x == null) { >>>>> + throw new IllegalArgumentException("x must not be null"); >>>>> + } >>>>> + >>>>> + if (y == null) { >>>>> + throw new IllegalArgumentException("y must not be null"); >>>>> + } >>>>> + >>>>> + if (x.length != y.length) { >>>>> + throw new IllegalArgumentException( >>>>> + "x and y must contain the same number of elements"); >>>>> + } >>>>> + >>>>> + if (x.length == 0) { >>>>> + throw new IllegalArgumentException( >>>>> + "x and y must contain at least one element"); >>>>> + } >>>>> + } >>>>> + >>>>> + /** >>>>> + * Calculates y[i] - x[i] for all i >>>>> + * >>>>> + * @param x >>>>> + * @param y >>>>> + * @throws IllegalArgumentException >>>>> + * if assumptions are not met >>>>> + */ >>>>> + private double[] calculateDifferences(final double[] x, final >>>>> double[] y) >>>>> + throws IllegalArgumentException { >>>>> + >>>>> + final double[] z = new double[x.length]; >>>>> + >>>>> + for (int i = 0; i < x.length; ++i) { >>>>> + z[i] = y[i] - x[i]; >>>>> + } >>>>> + >>>>> + return z; >>>>> + } >>>>> + >>>>> + /** >>>>> + * Calculates |z[i]| for all i >>>>> + * >>>>> + * @param z >>>>> + * @throws IllegalArgumentException >>>>> + * if assumptions are not met >>>>> + */ >>>>> + private double[] calculateAbsoluteDifferences(final double[] z) >>>>> + throws IllegalArgumentException { >>>>> + if (z == null) { >>>>> + throw new IllegalArgumentException("z must not be null"); >>>>> + } >>>>> + >>>>> + if (z.length == 0) { >>>>> + throw new IllegalArgumentException( >>>>> + "z must contain at least one element"); >>>>> + } >>>>> + >>>>> + final double[] zAbs = new double[z.length]; >>>>> + >>>>> + for (int i = 0; i < z.length; ++i) { >>>>> + zAbs[i] = FastMath.abs(z[i]); >>>>> + } >>>>> + >>>>> + return zAbs; >>>>> + } >>>>> + >>>>> + /** >>>>> + * {...@inheritdoc} >>>>> + * >>>>> + * @param x >>>>> + * the first sample >>>>> + * @param y >>>>> + * the second sample >>>>> + * @return wilcoxonSignedRank statistic (the larger of W+ and W-) >>>>> + * @throws IllegalArgumentException >>>>> + * if preconditions are not met >>>>> + */ >>>>> + public double wilcoxonSignedRank(final double[] x, final double[] y) >>>>> + throws IllegalArgumentException { >>>>> + >>>>> + ensureDataConformance(x, y); >>>>> + >>>>> + // throws IllegalArgumentException if x and y are not correctly >>>>> + // specified >>>>> + final double[] z = calculateDifferences(x, y); >>>>> + final double[] zAbs = calculateAbsoluteDifferences(z); >>>>> + >>>>> + final double[] ranks = naturalRanking.rank(zAbs); >>>>> + >>>>> + double Wplus = 0; >>>>> + >>>>> + for (int i = 0; i < z.length; ++i) { >>>>> + if (z[i] > 0) { >>>>> + Wplus += ranks[i]; >>>>> + } >>>>> + } >>>>> + >>>>> + final int N = x.length; >>>>> + final double Wminus = (((double) (N * (N + 1))) / 2.0) - Wplus; >>>>> + >>>>> + return FastMath.max(Wplus, Wminus); >>>>> + } >>>>> + >>>>> + /** >>>>> + * Algorithm inspired by >>>>> + * >>>>> http://www.fon.hum.uva.nl/Service/Statistics/Signed_Rank_Algorihms.html#C >>>>> + * by Rob van Son, Institute of Phonetic Sciences & IFOTT, >>>>> + * University of Amsterdam >>>>> + * >>>>> + * @param Wmax largest Wilcoxon signed rank value >>>>> + * @param N number of subjects (corresponding to x.length) >>>>> + * @return two-sided exact p-value >>>>> + */ >>>>> + private double calculateExactPValue(final double Wmax, final int N) { >>>>> + >>>>> + // Total number of outcomes (equal to 2^N but a lot faster) >>>>> + final int m = 1 << N; >>>>> + >>>>> + int largerRankSums = 0; >>>>> + >>>>> + for (int i = 0; i < m; ++i) { >>>>> + int rankSum = 0; >>>>> + >>>>> + // Generate all possible rank sums >>>>> + for (int j = 0; j < N; ++j) { >>>>> + >>>>> + // (i >> j) & 1 extract i's j-th bit from the right >>>>> + if (((i >> j) & 1) == 1) { >>>>> + rankSum += j + 1; >>>>> + } >>>>> + } >>>>> + >>>>> + if (rankSum >= Wmax) { >>>>> + ++largerRankSums; >>>>> + } >>>>> + } >>>>> + >>>>> + /* >>>>> + * largerRankSums / m gives the one-sided p-value, so it's >>>>> multiplied >>>>> + * with 2 to get the two-sided p-value >>>>> + */ >>>>> + return 2 * ((double) largerRankSums) / ((double) m); >>>>> + } >>>>> + >>>>> + /** >>>>> + * @param Wmin smallest Wilcoxon signed rank value >>>>> + * @param N number of subjects (corresponding to x.length) >>>>> + * @return two-sided asymptotic p-value >>>>> + * @throws MathException if an error occurs computing the p-value >>>>> + */ >>>>> + private double calculateAsymptoticPValue(final double Wmin, final >>>>> int N) throws MathException { >>>>> + >>>>> + final double ES = (double) (N * (N + 1)) / 4.0; >>>>> + >>>>> + /* Same as (but saves computations): >>>>> + * final double VarW = ((double) (N * (N + 1) * (2*N + 1))) / 24; >>>>> + */ >>>>> + final double VarS = ES * ((double) (2 * N + 1) / 6.0); >>>>> + >>>>> + // - 0.5 is a continuity correction >>>>> + final double z = (Wmin - ES - 0.5) / FastMath.sqrt(VarS); >>>>> + >>>>> + final NormalDistributionImpl standardNormal = new >>>>> NormalDistributionImpl(0, 1); >>>>> + >>>>> + return 2*standardNormal.cumulativeProbability(z); >>>>> + } >>>>> + >>>>> + /** >>>>> + * {...@inheritdoc} >>>>> + * >>>>> + * @param x >>>>> + * the first sample >>>>> + * @param y >>>>> + * the second sample >>>>> + * @param exactPValue >>>>> + * if the exact p-value is wanted (only for x.length <= >>>>> 30) >>>>> + * @return p-value >>>>> + * @throws IllegalArgumentException >>>>> + * if preconditions are not met or exact p-value is >>>>> wanted for >>>>> + * when x.length > 30 >>>>> + * @throws MathException >>>>> + * if an error occurs computing the p-value >>>>> + */ >>>>> + public double wilcoxonSignedRankTest(final double[] x, final >>>>> double[] y, >>>>> + boolean exactPValue) throws IllegalArgumentException, >>>>> + MathException { >>>>> + >>>>> + ensureDataConformance(x, y); >>>>> + >>>>> + final int N = x.length; >>>>> + final double Wmax = wilcoxonSignedRank(x, y); >>>>> + >>>>> + if (exactPValue && N > 30) { >>>>> + throw new IllegalArgumentException("Exact test can only be >>>>> made for N <= 30."); >>>>> + } >>>>> + >>>>> + if (exactPValue) { >>>>> + return calculateExactPValue(Wmax, N); >>>>> + } else { >>>>> + final double Wmin = ( (double)(N*(N+1)) / 2.0 ) - Wmax; >>>>> + return calculateAsymptoticPValue(Wmin, N); >>>>> + } >>>>> + } >>>>> +} >>>>> >>>>> Added: >>>>> commons/proper/math/trunk/src/test/java/org/apache/commons/math/stat/inference/MannWhitneyUTestTest.java >>>>> URL: >>>>> http://svn.apache.org/viewvc/commons/proper/math/trunk/src/test/java/org/apache/commons/math/stat/inference/MannWhitneyUTestTest.java?rev=1053836&view=auto >>>>> ============================================================================== >>>>> --- >>>>> commons/proper/math/trunk/src/test/java/org/apache/commons/math/stat/inference/MannWhitneyUTestTest.java >>>>> (added) >>>>> +++ >>>>> commons/proper/math/trunk/src/test/java/org/apache/commons/math/stat/inference/MannWhitneyUTestTest.java >>>>> Thu Dec 30 09:52:00 2010 >>>>> @@ -0,0 +1,101 @@ >>>>> +/* >>>>> + * 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.math.stat.inference; >>>>> + >>>>> +import junit.framework.TestCase; >>>>> + >>>>> +/** >>>>> + * Test cases for the ChiSquareTestImpl class. >>>>> + * >>>>> + * @version $Revision: $ $Date: $ >>>>> + */ >>>>> + >>>>> +public class MannWhitneyUTestTest extends TestCase { >>>>> + >>>>> + protected MannWhitneyUTest testStatistic = new >>>>> MannWhitneyUTestImpl(); >>>>> + >>>>> + public MannWhitneyUTestTest(String name) { >>>>> + super(name); >>>>> + } >>>>> + >>>>> + public void testMannWhitneyUSimple() throws Exception { >>>>> + /* Target values computed using R version 2.11.1 >>>>> + * x <- c(19, 22, 16, 29, 24) >>>>> + * y <- c(20, 11, 17, 12) >>>>> + * wilcox.test(x, y, alternative = "two.sided", mu = 0, paired = >>>>> FALSE, exact = FALSE, correct = FALSE) >>>>> + * W = 17, p-value = 0.08641 >>>>> + */ >>>>> + final double x[] = {19, 22, 16, 29, 24}; >>>>> + final double y[] = {20, 11, 17, 12}; >>>>> + >>>>> + assertEquals(17, testStatistic.mannWhitneyU(x, y), 1e-10); >>>>> + assertEquals(0.08641, testStatistic.mannWhitneyUTest(x, y), >>>>> 1e-5); >>>>> + } >>>>> + >>>>> + >>>>> + public void testMannWhitneyUInputValidation() throws Exception { >>>>> + /* Samples must be present, i.e. length > 0 >>>>> + */ >>>>> + try { >>>>> + testStatistic.mannWhitneyUTest(new double[] { }, new >>>>> double[] { 1.0 }); >>>>> + fail("x does not contain samples (exact), >>>>> IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.mannWhitneyUTest(new double[] { 1.0 }, new >>>>> double[] { }); >>>>> + fail("y does not contain samples (exact), >>>>> IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + /* >>>>> + * x and y is null >>>>> + */ >>>>> + try { >>>>> + testStatistic.mannWhitneyUTest(null, null); >>>>> + fail("x and y is null (exact), IllegalArgumentException >>>>> expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.mannWhitneyUTest(null, null); >>>>> + fail("x and y is null (asymptotic), IllegalArgumentException >>>>> expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + /* >>>>> + * x or y is null >>>>> + */ >>>>> + try { >>>>> + testStatistic.mannWhitneyUTest(null, new double[] { 1.0 }); >>>>> + fail("x is null (exact), IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.mannWhitneyUTest(new double[] { 1.0 }, null); >>>>> + fail("y is null (exact), IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + } >>>>> +} >>>>> >>>>> Added: >>>>> commons/proper/math/trunk/src/test/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTestTest.java >>>>> URL: >>>>> http://svn.apache.org/viewvc/commons/proper/math/trunk/src/test/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTestTest.java?rev=1053836&view=auto >>>>> ============================================================================== >>>>> --- >>>>> commons/proper/math/trunk/src/test/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTestTest.java >>>>> (added) >>>>> +++ >>>>> commons/proper/math/trunk/src/test/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTestTest.java >>>>> Thu Dec 30 09:52:00 2010 >>>>> @@ -0,0 +1,180 @@ >>>>> +/* >>>>> + * 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.math.stat.inference; >>>>> + >>>>> +import junit.framework.TestCase; >>>>> + >>>>> +/** >>>>> + * Test cases for the ChiSquareTestImpl class. >>>>> + * >>>>> + * @version $Revision: $ $Date: $ >>>>> + */ >>>>> + >>>>> +public class WilcoxonSignedRankTestTest extends TestCase { >>>>> + >>>>> + protected WilcoxonSignedRankTest testStatistic = new >>>>> WilcoxonSignedRankTestImpl(); >>>>> + >>>>> + public WilcoxonSignedRankTestTest(String name) { >>>>> + super(name); >>>>> + } >>>>> + >>>>> + public void testWilcoxonSignedRankSimple() throws Exception { >>>>> + /* Target values computed using R version 2.11.1 >>>>> + * x <- c(1.83, 0.50, 1.62, 2.48, 1.68, 1.88, 1.55, 3.06, 1.30) >>>>> + * y <- c(0.878, 0.647, 0.598, 2.05, 1.06, 1.29, 1.06, 3.14, >>>>> 1.29) >>>>> + */ >>>>> + final double x[] = {1.83, 0.50, 1.62, 2.48, 1.68, 1.88, 1.55, >>>>> 3.06, 1.30}; >>>>> + final double y[] = {0.878, 0.647, 0.598, 2.05, 1.06, 1.29, 1.06, >>>>> 3.14, 1.29}; >>>>> + >>>>> + /* EXACT: >>>>> + * wilcox.test(x, y, alternative = "two.sided", mu = 0, paired = >>>>> TRUE, exact = TRUE, correct = FALSE) >>>>> + * V = 40, p-value = 0.03906 >>>>> + * >>>>> + * Corresponds to the value obtained in R. >>>>> + */ >>>>> + assertEquals(40, testStatistic.wilcoxonSignedRank(x, y), 1e-10); >>>>> + assertEquals(0.03906, testStatistic.wilcoxonSignedRankTest(x, y, >>>>> true), 1e-5); >>>>> + >>>>> + /* ASYMPTOTIC: >>>>> + * wilcox.test(x, y, alternative = "two.sided", mu = 0, paired = >>>>> TRUE, exact = FALSE, correct = FALSE) >>>>> + * V = 40, p-value = 0.03815 >>>>> + * >>>>> + * This is not entirely the same due to different corrects, >>>>> + * e.g. http://mlsc.lboro.ac.uk/resources/statistics/wsrt.pdf >>>>> + * and src/library/stats/R/wilcox.test.R in the R source >>>>> + */ >>>>> + assertEquals(40, testStatistic.wilcoxonSignedRank(x, y), 1e-10); >>>>> + assertEquals(0.0329693812, >>>>> testStatistic.wilcoxonSignedRankTest(x, y, false), 1e-10); >>>>> + } >>>>> + >>>>> + public void testWilcoxonSignedRankInputValidation() throws Exception >>>>> { >>>>> + /* >>>>> + * Exact only for sample size <= 30 >>>>> + */ >>>>> + final double[] x1 = new double[30]; >>>>> + final double[] x2 = new double[31]; >>>>> + final double[] y1 = new double[30]; >>>>> + final double[] y2 = new double[31]; >>>>> + for (int i = 0; i < 30; ++i) { >>>>> + x1[i] = x2[i] = y1[i] = y2[i] = i; >>>>> + } >>>>> + >>>>> + // Exactly 30 is okay >>>>> + testStatistic.wilcoxonSignedRankTest(x1, y1, true); >>>>> + >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(x2, y2, true); >>>>> + fail("More than 30 samples and exact chosen, >>>>> IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + /* Samples must be present, i.e. length > 0 >>>>> + */ >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(new double[] { }, new >>>>> double[] { 1.0 }, true); >>>>> + fail("x does not contain samples (exact), >>>>> IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(new double[] { }, new >>>>> double[] { 1.0 }, false); >>>>> + fail("x does not contain samples (asymptotic), >>>>> IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(new double[] { 1.0 }, >>>>> new double[] { }, true); >>>>> + fail("y does not contain samples (exact), >>>>> IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(new double[] { 1.0 }, >>>>> new double[] { }, false); >>>>> + fail("y does not contain samples (asymptotic), >>>>> IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + /* Samples not same size, i.e. cannot be pairred >>>>> + */ >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(new double[] { 1.0, 2.0 >>>>> }, new double[] { 3.0 }, true); >>>>> + fail("x and y not same size (exact), >>>>> IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(new double[] { 1.0, 2.0 >>>>> }, new double[] { 3.0 }, false); >>>>> + fail("x and y not same size (asymptotic), >>>>> IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + /* >>>>> + * x and y is null >>>>> + */ >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(null, null, true); >>>>> + fail("x and y is null (exact), IllegalArgumentException >>>>> expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(null, null, false); >>>>> + fail("x and y is null (asymptotic), IllegalArgumentException >>>>> expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + /* >>>>> + * x or y is null >>>>> + */ >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(null, new double[] { >>>>> 1.0 }, true); >>>>> + fail("x is null (exact), IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(null, new double[] { >>>>> 1.0 }, false); >>>>> + fail("x is null (asymptotic), IllegalArgumentException >>>>> expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(new double[] { 1.0 }, >>>>> null, true); >>>>> + fail("y is null (exact), IllegalArgumentException expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + >>>>> + try { >>>>> + testStatistic.wilcoxonSignedRankTest(new double[] { 1.0 }, >>>>> null, false); >>>>> + fail("y is null (asymptotic), IllegalArgumentException >>>>> expected"); >>>>> + } catch (IllegalArgumentException ex) { >>>>> + // expected >>>>> + } >>>>> + } >>>>> +} >>>>> >>>>> >>>>> >>>> >>>> --------------------------------------------------------------------- >>>> To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org >>>> For additional commands, e-mail: dev-h...@commons.apache.org >>>> >>>> >>> >>> >>> --------------------------------------------------------------------- >>> To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org >>> For additional commands, e-mail: dev-h...@commons.apache.org >>> >> >> >> --------------------------------------------------------------------- >> To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org >> For additional commands, e-mail: dev-h...@commons.apache.org >> >> > > Hi Luc, > > Thanks for the help, including the config-file. I've manually changed > the properties for the newly created files in revision 1053918 using > svn propset svn:eol-style native > src/main/java/org/apache/commons/math/stat/inference/WilcoxonSignedRankTest* > etc. > > And now that I'm using a config-file similar to yours, new files > should be dealt with automatically. > > In regards to the pom.xml, then I should just make an entry for myself > in the developers-section, right?
Yes, of course. Luc > > Cheers, Mikkel. > > --------------------------------------------------------------------- > To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org > For additional commands, e-mail: dev-h...@commons.apache.org > --------------------------------------------------------------------- To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org For additional commands, e-mail: dev-h...@commons.apache.org
