local_binary_preds <- function(env = parent.frame()) { data("traindata", package = "CalibrationCurves", envir = env) data("testdata", package = "CalibrationCurves", envir = env) fit <- glm(y ~ ., data = env$traindata, family = binomial) p <- predict(fit, newdata = env$testdata, type = "response") y <- env$testdata$y list(p = unname(p), y = y) } test_that("print.CalibrationCurve works and returns invisibly", { d <- local_binary_preds() res <- val.prob.ci.2(d$p, d$y, pl = FALSE) out <- capture.output(ret <- print(res)) expect_identical(ret, res) expect_true(any(grepl("Call:", out))) expect_true(any(grepl("confidence interval", out))) }) test_that("print.ggplotCalibrationCurve works and returns invisibly", { d <- local_binary_preds() res <- valProbggplot(d$p, d$y, pl = TRUE) out <- capture.output(ret <- print(res)) expect_identical(ret, res) expect_true(any(grepl("Call:", out))) }) test_that("print.GeneralizedCalibrationCurve works and returns invisibly", { data("poissontraindata", package = "CalibrationCurves") data("poissontestdata", package = "CalibrationCurves") fit <- glm(Y ~ ., data = poissontraindata, family = poisson) yHat <- predict(fit, newdata = poissontestdata, type = "response") res <- genCalCurve(poissontestdata$Y, yHat, family = "poisson", plot = FALSE) out <- capture.output(ret <- print(res)) expect_identical(ret, res) expect_true(any(grepl("Call:", out))) expect_true(any(grepl("confidence interval", out))) }) test_that("print.SurvivalCalibrationCurve works and returns invisibly", { data("trainDataSurvival", package = "CalibrationCurves") data("testDataSurvival", package = "CalibrationCurves") sFit <- coxph(Surv(ryear, rfs) ~ csize + cnode + grade3, data = trainDataSurvival, x = TRUE, y = TRUE) res <- valProbSurvival(sFit, testDataSurvival, plotCal = "none") out <- capture.output(ret <- print(res)) expect_identical(ret, res) expect_true(any(grepl("Call:", out))) expect_true(any(grepl("Calibration performance", out))) }) test_that("print.ClusteredCalibrationCurve works without error", { skip_on_cran() data("clustertraindata", package = "CalibrationCurves") data("clustertestdata", package = "CalibrationCurves") mFit <- lme4::glmer(y ~ x1 + x2 + x3 + x5 + (1 | cluster), data = clustertraindata, family = "binomial") preds <- predict(mFit, clustertestdata, type = "response", re.form = NA) res <- suppressWarnings( valProbCluster(p = preds, y = clustertestdata$y, cluster = clustertestdata$cluster, plot = TRUE, approach = "MIXC", grid_l = 50) ) out <- capture.output(ret <- print(res)) expect_true(any(grepl("Call:", out))) })