tests/testthat/testthat_ksTest.R

In zanbi/FSA-Fisheries-Stock-Assessment-: Simple Fisheries Stock Assessment Methods

## Test Messages ----
test_that("ksTest() messages",{
  ## Get data, make two more factor variables
  tmp <- rep(LETTERS[1:3],each=17)[-1]
  iris$fact1 <- factor(c(tmp,tmp,tmp))
  tmp <- c(rep(letters[1:6],each=8),"f","f")
  iris$fact2 <- factor(c(tmp,tmp,tmp))
  ## Problems with the formula
  expect_error(ksTest(~Species,data=iris),
               "must contain 1 response")
  expect_error(ksTest(Species~1,data=iris),
               "must contain 1 response")
  expect_error(ksTest(Species~Sepal.Width,data=iris),
               "LHS variable must be numeric")
  expect_error(ksTest(Species~fact1,data=iris),
               "LHS variable must be numeric")
  expect_error(ksTest(Sepal.Length~Sepal.Width,data=iris),
               "RHS Variable must be a factor")
  expect_error(ksTest(Sepal.Length~Species+Sepal.Width,data=iris),
               "must contain 1 response")
  expect_error(ksTest(Sepal.Length~Species+fact1+fact2,data=iris),
               "must contain 1 response")
  ## Problems with number of levels in factor variable
  expect_error(ksTest(Sepal.Length~Species,data=iris),
               "RHS variable has two levels")
})


## Test Output Types ----
test_that("Does ksTest() match ks.test()",{
  exp_nms <- c("statistic","p.value","alternative","method","data.name")
  x <- rnorm(50)
  y <- runif(30)
  df <- data.frame(dat=c(x,y),grp=factor(rep(c("X","Y"),c(50,30))),
                   stringsAsFactors=FALSE)
  
  ## one-sample (from ks.test) still works
  tmp <- ksTest(x+2,"pgamma",3,2)
  expect_is(tmp,"htest")
  expect_equal(mode(tmp),"list")
  expect_equal(names(tmp),exp_nms)
  
  ## first two-sample example in ?ks.test
  tmp <- ksTest(x,y)
  expect_is(tmp,"htest")
  expect_equal(mode(tmp),"list")
  expect_equal(names(tmp),exp_nms)
  # using formula notation
  tmp1 <- ksTest(dat~grp,data=df)
  expect_is(tmp1,"htest")
  expect_equal(mode(tmp1),"list")
  expect_equal(names(tmp1),exp_nms)
  expect_identical(tmp,tmp1)
})


## Validate Results ----
test_that("Does ksTest() match ks.test()",{
  x <- rnorm(50)
  y <- runif(30)
  df <- data.frame(dat=c(x,y),grp=factor(rep(c("X","Y"),c(50,30))),
                   stringsAsFactors=FALSE)
  
  ## one-sample (from ks.test) still works
  tmp1 <- ksTest(x+2, "pgamma", 3, 2)
  tmp2 <- ks.test(x+2, "pgamma", 3, 2)
  expect_equal(tmp1$statistic,tmp2$statistic)
  expect_equal(tmp1$p.value,tmp2$p.value)
  
  ## first two-sample example in ?ks.test
  tmp1 <- ksTest(x,y)
  tmp2 <- ks.test(x,y)
  tmp3 <- ksTest(dat~grp,data=df)
  expect_equal(tmp1,tmp2)
  expect_equal(tmp3,tmp2)
})