Java tutorial
/** Copyright 2014 ATOS SPAIN S.A. Licensed 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. Authors Contact: Francisco Javier Nieto. Atos Research and Innovation, Atos SPAIN SA @email francisco.nieto@atos.net **/ package net.atos.ari.vital.taastrustcalculator; import org.apache.commons.math3.distribution.ChiSquaredDistribution; import org.apache.commons.math3.distribution.NormalDistribution; import org.apache.commons.math3.stat.StatUtils; import org.apache.commons.math3.stat.inference.TTest; import org.apache.log4j.Logger; public class StatisticsCalculator { private Logger logger = Logger.getLogger("betaas.taas"); public StatisticsCalculator() { } public boolean calculateNumericVariance(double[] values) { double alpha = 0.05; double mean = StatUtils.mean(values); double variance = StatUtils.variance(values); double expected = Math.pow(mean * 0.05, 2); //double expected = 0.01; double degFreedom = values.length - 1.0; double T = (degFreedom * variance) / expected; logger.debug("Mean = " + mean); logger.debug("Standard Deviation = " + Math.sqrt(variance)); logger.debug("Test Statistic calculated T = " + T); if (degFreedom <= 0) return false; ChiSquaredDistribution myDist = new ChiSquaredDistribution(degFreedom); double myTLeft = myDist.inverseCumulativeProbability(alpha / 2.0); double myTRight = myDist.inverseCumulativeProbability(1.0 - alpha / 2.0); logger.debug("Boundaries: " + myTLeft + " to " + myTRight); // Determine if z score is in the region of acceptance if ((myTLeft <= T) && (T <= myTRight)) { // H0 -> Variance of the data is equal to the expected one return true; } // H1 -> Variance of the data is different to the expected one return false; } public boolean calculateRunsTest(double[] values) { double alpha = 0.05; double n1 = 0.0; double n2 = 0.0; double runs = 1.0; double median = StatUtils.percentile(values, 50); boolean positive = true; //Starting variable for calculating runs (positive or negative) if (values[0] < median) { positive = false; n2++; } else { positive = true; n1++; } // Look for runs and count positive/negative values for (int i = 1; i < values.length; i++) { if (values[i] < median) { n2++; if (positive) { runs++; positive = false; } } else { n1++; if (!positive) { runs++; positive = true; } } } // Calculate Z value double expectedRuns = (2.0 * n1 * n2 / (n1 + n2)) + 1.0; double sR = Math .sqrt((2.0 * n1 * n2 * (2.0 * n1 * n2 - n1 - n2)) / (Math.pow((n1 + n2), 2) * (n1 + n2 - 1.0))); double Z = (runs - expectedRuns) / sR; logger.debug("Runs = " + runs); logger.debug("Positive values = " + n1); logger.debug("Negative values = " + n2); logger.debug("Expected Runs = " + expectedRuns); logger.debug("sR = " + sR); logger.debug("Z score = " + Z); if ((runs - expectedRuns) == 0.0) { //H1 -> Data was not produced in a random manner (because expected runs are ok) logger.debug("Runs = Expected Runs --> Not random data"); return false; } // Calculate region of acceptance NormalDistribution myNormal = new NormalDistribution(0, 1); double myZRight = Math.abs(myNormal.inverseCumulativeProbability(1 - alpha / 2)); logger.debug("Reject H0 if |Z|> " + myZRight); if (Math.abs(Z) > myZRight) { //H1 -> Data was not produced in a random manner return false; } //H0 -> Data was produced in a random manner return true; } public boolean calculateSimilarity(double[] values, double[] extDataset, int type) { boolean result = false; return result; } public boolean isSimilarProportion(double[] valuesA, double[] valuesB) { double alpha = 0.05; // Change data a bit for avoiding issues with booleans 0/1 /*for (int i=0; i<valuesA.length; i++) { valuesA[i] = valuesA[i] + 1.0; } for (int i=0; i<valuesB.length; i++) { valuesB[i] = valuesB[i] + 1.0; }*/ // Calculate region of acceptance NormalDistribution myNormal = new NormalDistribution(0, 1); double myZLeft = -1 * Math.abs(myNormal.inverseCumulativeProbability(alpha / 2)); double myZRight = Math.abs(myNormal.inverseCumulativeProbability(alpha / 2)); logger.debug("Boundaries: " + myZLeft + " to " + myZRight); // Calculate proportion for valuesA dataset int nA = valuesA.length; double successA = 0; for (int i = 0; i < nA; i++) { successA = successA + valuesA[i]; } logger.debug("Success number for dataset A: " + successA); logger.debug("Number of records for A: " + nA); double pA = successA / nA; // Calculate proportion for valuesB dataset int nB = valuesB.length; double successB = 0; for (int i = 0; i < nB; i++) { successB = successB + valuesB[i]; } logger.debug("Success number for dataset B: " + successB); logger.debug("Number of records for B: " + nB); double pB = successB / nB; // Calculate proportion similarity double pPool = (nA * pA + nB * pB) / (nA + nB); double zComp = (pA - pB) / Math.sqrt(pPool * (1.0 - pPool) * (1.0 / nA + 1.0 / nB)); logger.debug("pPooled = " + pPool); logger.debug("Z value = " + zComp); logger.debug("p-value = " + (1.0 - myNormal.cumulativeProbability(zComp)) * 2); // Determine if z score is in the region of acceptance if ((myZLeft <= zComp) && (zComp <= myZRight)) { return true; } return false; } public boolean isSimilarMean(double[] valuesA, double[] valuesB) { TTest studentTest = new TTest(); boolean testResult = false; double error = 0; double tValue = 0; double meanA = StatUtils.mean(valuesA); double meanB = StatUtils.mean(valuesB); try { testResult = studentTest.tTest(valuesA, valuesB, 0.05); error = studentTest.tTest(valuesA, valuesB); tValue = studentTest.t(valuesA, valuesB); logger.debug("Test result --> MA = " + meanA + " -- MB = " + meanB); logger.debug("Test result --> " + testResult + " with p " + error + " and tValue = " + tValue); } catch (Exception ex) { logger.error("There was an error when trying to calculate Student's t test!"); ex.printStackTrace(); return false; } return testResult; } /* public static void main(String[] args) { double [] dataSetA = new double [] {0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1}; double [] dataSetB = new double [] {0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1}; double [] dataSet = new double [] { 1.006, 0.996, 0.998, 1.000, 0.992, 0.993, 1.002, 0.999, 0.994, 1.000, 0.998, 1.006, 1.000, 1.002, 0.997, 0.998, 0.996, 1.000, 1.006, 0.988, 0.991, 0.987, 0.997, 0.999, 0.995, 0.994, 1.000, 0.999, 0.996, 0.996, 1.005, 1.002, 0.994, 1.000, 0.995, 0.994, 0.998, 0.996, 1.002, 0.996, 0.998, 0.998, 0.982, 0.990, 1.002, 0.984, 0.996, 0.993, 0.980, 0.996, 1.009, 1.013, 1.009, 0.997, 0.988, 1.002, 0.995, 0.998, 0.981, 0.996, 0.990, 1.004, 0.996, 1.001, 0.998, 1.000, 1.018, 1.010, 0.996, 1.002, 0.998, 1.000, 1.006, 1.000, 1.002, 0.996, 0.998, 0.996, 1.002, 1.006, 1.002, 0.998, 0.996, 0.995, 0.996, 1.004, 1.004, 0.998, 0.999, 0.991, 0.991, 0.995, 0.984, 0.994, 0.997, 0.997, 0.991, 0.998, 1.004, 0.997, }; double [] dataSetRunTest = new double [] { -213, -564, -35, -15, 141, 115, -420, -360, 203, -338, -431, 194, -220, -513, 154, -125, -559, 92, -21, -579, -52, 99, -543, -175, 162, -457, -346, 204, -300, -474, 164, -107, -572, -8, 83, -541, -224, 180, -420, -374, 201, -236, -531, 83, 27, -564, -112, 131, -507, -254, 199, -311, -495, 143, -46, -579, -90, 136, -472, -338, 202, -287, -477, 169, -124, -568, 17, 48, -568, -135, 162, -430, -422, 172, -74, -577, -13, 92, -534, -243, 194, -355, -465, 156, -81, -578, -64, 139, -449, -384, 193, -198, -538, 110, -44, -577, -6, 66, -552, -164, 161, -460, -344, 205, -281, -504, 134, -28, -576, -118, 156, -437, -381, 200, -220, -540, 83, 11, -568, -160, 172, -414, -408, 188, -125, -572, -32, 139, -492, -321, 205, -262, -504, 142, -83, -574, 0, 48, -571, -106, 137, -501, -266, 190, -391, -406, 194, -186, -553, 83, -13, -577, -49, 103, -515, -280, 201, 300, -506, 131, -45, -578, -80, 138, -462, -361, 201, -211, -554, 32, 74, -533, -235, 187, -372, -442, 182, -147, -566, 25, 68, -535, -244, 194, -351, -463, 174, -125, -570, 15, 72, -550, -190, 172, -424, -385, 198, -218, -536, 96, }; double [] dataSetTemperature = new double [] { 21.01, 21.15, 21.05, 21.1, 21.3, 21.35, 21.40, 21.45, 21.50, 21.55, 21.7, 21.75, 21.7, 21.65, 21.7, 21.75, 21.85, 21.70, 21.65, 21.55, 21.50, 21.40, 21.35, 21.30, 21.25, 21.30, 21.35, 21.30, 21.20, 21.15 }; StatisticsCalculator myCalc = new StatisticsCalculator(); //System.out.println ("Proportion is similar? -> " + myCalc.isSimilarProportion(dataSetA, dataSetB)); //System.out.println ("Low variance in data? -> " + myCalc.calculateNumericVariance(dataSet)); System.out.println ("Is data random? -> " + myCalc.calculateRunsTest(dataSetTemperature)); } */ }