test_that("blank test", { expect_null(NULL) }) test_local <- FALSE # FALSE for CRAN if (test_local) { set.seed(1) # SPMODEL PACKAGE NEEDS TO BE INSTALLED VIA DEVTOOLS::INSTALL() BEFORE RUNNING TESTS IF THOSE TESTS HAVE PARALLELIZATION load(file = system.file("extdata", "exdata_poly.rda", package = "spmodel")) load(file = system.file("extdata", "exdata_Mpoly.rda", package = "spmodel")) load(file = system.file("extdata", "exdata_Upoly.rda", package = "spmodel")) # add variables n <- NROW(exdata_poly) exdata_poly$bern <- rbinom(n, size = 1, prob = 0.5) exdata_poly$bernfac <- factor(ifelse(exdata_poly$bern == 0, "a", "b")) exdata_poly$size <- 5 exdata_poly$bin <- rbinom(n, size = exdata_poly$size, prob = 0.5) exdata_poly$prop <- runif(n) exdata_poly$count <- rpois(n, lambda = 5) exdata_poly$cont <- rgamma(n, shape = 1, rate = 1) exdata_poly$offset <- 2 # save W and M W <- sf::st_intersects(exdata_poly, sparse = FALSE) diag(W) <- 0 W <- 1 * Matrix::Matrix(W, sparse = TRUE) W_rowsums <- Matrix::rowSums(W) Wbar <- W / W_rowsums M <- Matrix(diag(NROW(W))) # for row-unstandardized / as matrix Mvec <- 1 / W_rowsums # for row-standardized / as vector test_that("the model runs for binomial data", { expect_error(spgautor(bern ~ x, family = binomial, data = exdata_poly, spcov_type = "car", estmethod = "reml"), NA) expect_error(spgautor(bernfac ~ x, family = binomial, data = exdata_poly, spcov_type = "car", estmethod = "reml"), NA) expect_error(spgautor(cbind(bin, size) ~ x, family = "binomial", data = exdata_poly, spcov_type = "sar", estmethod = "ml"), NA) # complicated models expect_error(spgautor(bern ~ x, family = binomial, data = exdata_poly, spcov_type = "car", estmethod = "reml", W = W, row_st = FALSE, M = M ), NA) expect_error(spgautor(bernfac ~ x, family = binomial, data = exdata_poly, spcov_type = "car", estmethod = "reml", W = W, row_st = FALSE, M = M ), NA) expect_error(spgautor(cbind(bin, size) ~ x + offset(offset), family = "binomial", data = exdata_poly, spcov_type = "sar", estmethod = "ml", random = ~group ), NA) expect_error(spgautor(y > 0 ~ x, family = binomial, data = exdata_poly, spcov_type = "car", estmethod = "reml", W = W, row_st = FALSE, M = M ), NA) }) test_that("the model runs for proportion data", { expect_error(spgautor(prop ~ x, family = "beta", data = exdata_poly, spcov_type = "car", estmethod = "reml"), NA) expect_error(spgautor(prop ~ x, family = beta, data = exdata_poly, spcov_type = "sar", estmethod = "reml"), NA) # complicated models expect_error(spgautor(prop ~ x, family = "beta", data = exdata_poly, spcov_type = "car", estmethod = "reml", random = ~ group + subgroup ), NA) expect_error(spgautor(prop ~ x + offset(offset), family = beta, data = exdata_poly, spcov_type = "sar", estmethod = "reml", W = W, partition_factor = ~group ), NA) }) test_that("the model runs for count data", { expect_error(spgautor(count ~ x, family = poisson, data = exdata_poly, spcov_type = "sar", estmethod = "reml"), NA) expect_error(spgautor(count ~ x, family = "nbinomial", data = exdata_poly, spcov_type = "car", estmethod = "ml"), NA) # complicated models expect_error(spgautor(count ~ x, family = poisson, data = exdata_poly, spcov_type = "sar", estmethod = "reml", random = ~ (x | subgroup) ), NA) expect_error(spgautor(count ~ x + offset(offset), family = "nbinomial", data = exdata_poly, spcov_type = "car", estmethod = "ml", W = Wbar, row_st = FALSE, M = Mvec ), NA) }) test_that("the model runs for continuous data", { expect_error(spgautor(cont ~ x, family = "Gamma", data = exdata_poly, spcov_type = "car", estmethod = "reml"), NA) expect_error(spgautor(cont ~ x, family = inverse.gaussian, data = exdata_poly, spcov_type = "sar", estmethod = "ml"), NA) # SHOULD BE AN ERROR AS GAUSSIAN FAMILY REMOVED expect_error(spgautor(cont ~ x, family = gaussian, data = exdata_poly, spcov_type = "car", estmethod = "reml")) # complicated models expect_error(spgautor(cont ~ x + offset(offset), family = "Gamma", data = exdata_poly, spcov_type = "car", estmethod = "reml", W = Wbar, row_st = FALSE, M = Mvec ), NA) expect_error(spgautor(cont ~ x, family = inverse.gaussian, data = exdata_poly, spcov_type = "sar", estmethod = "ml", random = ~subgroup, partition_factor = ~group ), NA) ## SHOULD BE AN ERROR AS GAUSSIAN FAMILY REMOVED expect_error(spgautor(cont ~ x, family = gaussian, data = exdata_poly, spcov_type = "car", estmethod = "reml", random = ~subgroup )) }) test_that("the model runs on other data sets", { expect_error(spgautor(abs(y) ~ x, family = "Gamma", data = exdata_Mpoly, spcov_type = "car", estmethod = "reml"), NA) expect_error(spgautor(abs(y) ~ x, family = Gamma, data = exdata_Upoly, spcov_type = "sar", estmethod = "reml"), NA) # complicated models expect_error(spgautor(abs(y) ~ x, family = "Gamma", data = exdata_Mpoly, spcov_type = "car", estmethod = "reml", W = W, partition_factor = ~subgroup ), NA) W <- sf::st_intersects(exdata_Upoly, sparse = FALSE) diag(W) <- 0 W <- 1 * Matrix::Matrix(W, sparse = TRUE) expect_error(spgautor(abs(y) ~ x, family = Gamma, data = exdata_Upoly, spcov_type = "sar", estmethod = "reml", W = W, random = ~subgroup ), NA) }) }