| # 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. |
| # |
| #------------------------------------------------------------------------------ |
| # R source file to validate Binomial distribution tests in |
| # org.apache.commons.math.distribution.BinomialDistributionTest |
| # |
| # To run the test, install R, put this file and testFunctions |
| # into the same directory, launch R from this directory and then enter |
| # source("<name-of-this-file>") |
| # |
| # R functions used |
| # dbinom(x, size, prob, log = FALSE) <- density |
| # pbinom(q, size, prob, lower.tail = TRUE, log.p = FALSE) <- distribution |
| # qbinom(p, size, prob, lower.tail = TRUE, log.p = FALSE) <- quantiles |
| #------------------------------------------------------------------------------ |
| tol <- 1E-4 # error tolerance for tests |
| #------------------------------------------------------------------------------ |
| # Function definitions |
| |
| source("testFunctions") # utility test functions |
| |
| # function to verify density computations |
| |
| verifyDensity <- function(points, expected, n, p, tol) { |
| rDensityValues <- rep(0, length(points)) |
| i <- 0 |
| for (point in points) { |
| i <- i + 1 |
| rDensityValues[i] <- dbinom(point, n, p, log = FALSE) |
| } |
| output <- c("Density test n = ", n, ", p = ", p) |
| if (assertEquals(expected,rDensityValues,tol,"Density Values")) { |
| displayPadded(output, SUCCEEDED, WIDTH) |
| } else { |
| displayPadded(output, FAILED, WIDTH) |
| } |
| } |
| |
| # function to verify distribution computations |
| |
| verifyDistribution <- function(points, expected, n, p, tol) { |
| rDistValues <- rep(0, length(points)) |
| i <- 0 |
| for (point in points) { |
| i <- i + 1 |
| rDistValues[i] <- pbinom(point, n, p, log = FALSE) |
| } |
| output <- c("Distribution test n = ", n, ", p = ", p) |
| if (assertEquals(expected,rDistValues,tol,"Distribution Values")) { |
| displayPadded(output, SUCCEEDED, WIDTH) |
| } else { |
| displayPadded(output, FAILED, WIDTH) |
| } |
| } |
| |
| #-------------------------------------------------------------------------- |
| cat("Binomial test cases\n") |
| |
| size <- 10.0 |
| probability <- 0.70 |
| |
| densityPoints <- c(-1,0,1,2,3,4,5,6,7,8,9,10,11) |
| densityValues <- c(0, 0.0000, 0.0001, 0.0014, 0.0090, 0.0368, 0.1029, |
| 0.2001, 0.2668, 0.2335, 0.1211, 0.0282, 0) |
| distributionValues <- c(0, 0.0000, 0.0001, 0.0016, 0.0106, 0.0473, |
| 0.1503, 0.3504, 0.6172, 0.8507, 0.9718, 1, 1) |
| inverseCumPoints <- c( 0.001, 0.010, 0.025, 0.050, 0.100, 0.999, |
| 0.990, 0.975, 0.950, 0.900) |
| inverseCumValues <- c(1, 2, 3, 4, 4, 9, 9, 9, 8, 8) |
| |
| verifyDensity(densityPoints,densityValues,size,probability,tol) |
| verifyDistribution(densityPoints, distributionValues, size, probability, tol) |
| |
| i <- 0 |
| rInverseCumValues <- rep(0,length(inverseCumPoints)) |
| for (point in inverseCumPoints) { |
| i <- i + 1 |
| rInverseCumValues[i] <- qbinom(point, size, probability, log = FALSE) |
| } |
| |
| output <- c("Inverse Distribution test n = ", size, ", p = ", probability) |
| # R defines quantiles from the right, need to subtract one |
| if (assertEquals(inverseCumValues, rInverseCumValues-1, tol, |
| "Inverse Dist Values")) { |
| displayPadded(output, SUCCEEDED, 80) |
| } else { |
| displayPadded(output, FAILED, 80) |
| } |
| |
| # Degenerate cases |
| |
| size <- 5 |
| probability <- 0.0 |
| |
| densityPoints <- c(-1, 0, 1, 10, 11) |
| densityValues <- c(0, 1, 0, 0, 0) |
| distributionPoints <- c(-1, 0, 1, 5, 10) |
| distributionValues <- c(0, 1, 1, 1, 1) |
| |
| verifyDensity(densityPoints,densityValues,size,probability,tol) |
| verifyDistribution(distributionPoints,distributionValues,size,probability,tol) |
| |
| size <- 5 |
| probability <- 1.0 |
| |
| densityPoints <- c(-1, 0, 1, 2, 5, 10) |
| densityValues <- c(0, 0, 0, 0, 1, 0) |
| distributionPoints <- c(-1, 0, 1, 2, 5, 10) |
| distributionValues <- c(0, 0, 0, 0, 1, 1) |
| |
| verifyDensity(densityPoints,densityValues,size,probability,tol) |
| verifyDistribution(distributionPoints,distributionValues,size,probability,tol) |
| |
| displayDashes(WIDTH) |