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# TODO: check differences variable names with / without '' | ||
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test_that("option 1: fully pre-specified settings file works", { | ||
### Tests for EXPLORE using iris dataset | ||
data_path <- system.file("examples", "iris.arff", package = "Explore") | ||
settings_path <- system.file("examples", "iris.project", package = "Explore") | ||
output_path <- system.file("examples", "output", package = "Explore") | ||
data <- farff::readARFF(data_path) | ||
# Required dependencies | ||
withr::local_package("farff") | ||
model <- Explore::trainExplore(output_path = output_path, | ||
file_name = "iris", | ||
train_data = data, | ||
ClassFeature = "'class'", | ||
PositiveClass = '"Iris-versicolor"') | ||
expect_equal(class(model), "character") | ||
# expect_true(is.na(model), info = "Test failed because model is NA") | ||
expect_equal(model, "'petallength'>2.45AND'petallength'<=4.95AND'petalwidth'<=1.65") | ||
}) | ||
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test_that("option 2: pre-specified settings file with input data works", { | ||
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### Tests for EXPLORE using iris dataset | ||
data_path <- system.file("examples", "iris.arff", package = "Explore") | ||
settings_path <- system.file("examples", "iris.project", package = "Explore") | ||
output_path <- system.file("examples", "output", package = "Explore") | ||
data <- farff::readARFF(data_path) | ||
# Required dependencies | ||
withr::local_package("farff") | ||
model <- Explore::trainExplore(output_path = output_path, | ||
train_data = data, | ||
settings_path = settings_path, | ||
ClassFeature = "'class'", | ||
PositiveClass = '"Iris-versicolor"') | ||
expect_equal(class(model), "character") | ||
expect_false(model == "NA", info = "Test failed because model is NA") | ||
expect_equal(model, "'petallength'>2.45AND'petallength'<=4.95AND'petalwidth'<=1.65") # OR "'sepallength'>4.85" ? | ||
}) | ||
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test_that("option 3: only input parameters (no settings file) works", { | ||
### Tests for EXPLORE using iris dataset | ||
data_path <- system.file("examples", "iris.arff", package = "Explore") | ||
settings_path <- system.file("examples", "iris.project", package = "Explore") | ||
output_path <- system.file("examples", "output", package = "Explore") | ||
data <- farff::readARFF(data_path) | ||
# Required dependencies | ||
withr::local_package("farff") | ||
model <- Explore::trainExplore(output_path = output_path, | ||
file_name = "iris", | ||
train_data = data, | ||
ClassFeature = "'class'", | ||
PositiveClass = '"Iris-versicolor"') | ||
expect_equal(class(model), "character") | ||
expect_false(model == "NA", info = "Test failed because model is NA") | ||
expect_equal(model, "'petallength'>2.45AND'petallength'<=4.95AND'petalwidth'<=1.65") | ||
}) | ||
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test_that("prediction", { | ||
### Tests for EXPLORE using iris dataset | ||
data_path <- system.file("examples", "iris.arff", package = "Explore") | ||
settings_path <- system.file("examples", "iris.project", package = "Explore") | ||
output_path <- system.file("examples", "output", package = "Explore") | ||
data <- farff::readARFF(data_path) | ||
# Required dependencies | ||
withr::local_package("farff") | ||
model <- Explore::trainExplore(output_path = output_path, | ||
train_data = data, | ||
settings_path = settings_path, | ||
ClassFeature = "'class'", | ||
PositiveClass = '"Iris-versicolor"') | ||
prediction <- Explore::predictExplore(model, test_data = data) | ||
expect_equal(class(prediction), "integer") | ||
expect_equal(length(prediction), nrow(data)) | ||
expect_equal(sum(prediction %in% c(0,1) == FALSE),0) | ||
}) | ||
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test_that("compute AUC", { | ||
### Tests for EXPLORE using iris dataset | ||
data_path <- system.file("examples", "iris.arff", package = "Explore") | ||
settings_path <- system.file("examples", "iris.project", package = "Explore") | ||
output_path <- system.file("examples", "output//", package = "Explore") | ||
output_path <- paste0(output_path, "//") | ||
data <- farff::readARFF(data_path) | ||
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# Required dependencies | ||
withr::local_package("farff") | ||
auroc <- Explore::aurocEXPLORE(output_path = output_path, | ||
train_data = data, | ||
settings_path = settings_path, | ||
ClassFeature = "'class'", | ||
PositiveClass = '"Iris-versicolor"') | ||
expect_equal(class(auroc), "numeric") | ||
expect_true(auroc < 100) | ||
expect_true(auroc > 0) | ||
}) | ||
# # TODO: check differences variable names with / without '' | ||
# | ||
# test_that("option 1: fully pre-specified settings file works", { | ||
# ### Tests for EXPLORE using iris dataset | ||
# data_path <- system.file("examples", "iris.arff", package = "Explore") | ||
# settings_path <- system.file("examples", "iris.project", package = "Explore") | ||
# output_path <- system.file("examples", "output", package = "Explore") | ||
# data <- farff::readARFF(data_path) | ||
# # Required dependencies | ||
# withr::local_package("farff") | ||
# model <- Explore::trainExplore(output_path = output_path, | ||
# file_name = "iris", | ||
# train_data = data, | ||
# ClassFeature = "'class'", | ||
# PositiveClass = '"Iris-versicolor"') | ||
# expect_equal(class(model), "character") | ||
# # expect_true(is.na(model), info = "Test failed because model is NA") | ||
# expect_equal(model, "'petallength'>2.45AND'petallength'<=4.95AND'petalwidth'<=1.65") | ||
# }) | ||
# | ||
# test_that("option 2: pre-specified settings file with input data works", { | ||
# | ||
# ### Tests for EXPLORE using iris dataset | ||
# data_path <- system.file("examples", "iris.arff", package = "Explore") | ||
# settings_path <- system.file("examples", "iris.project", package = "Explore") | ||
# output_path <- system.file("examples", "output", package = "Explore") | ||
# data <- farff::readARFF(data_path) | ||
# # Required dependencies | ||
# withr::local_package("farff") | ||
# model <- Explore::trainExplore(output_path = output_path, | ||
# train_data = data, | ||
# settings_path = settings_path, | ||
# ClassFeature = "'class'", | ||
# PositiveClass = '"Iris-versicolor"') | ||
# expect_equal(class(model), "character") | ||
# expect_false(model == "NA", info = "Test failed because model is NA") | ||
# expect_equal(model, "'petallength'>2.45AND'petallength'<=4.95AND'petalwidth'<=1.65") # OR "'sepallength'>4.85" ? | ||
# }) | ||
# | ||
# test_that("option 3: only input parameters (no settings file) works", { | ||
# ### Tests for EXPLORE using iris dataset | ||
# data_path <- system.file("examples", "iris.arff", package = "Explore") | ||
# settings_path <- system.file("examples", "iris.project", package = "Explore") | ||
# output_path <- system.file("examples", "output", package = "Explore") | ||
# data <- farff::readARFF(data_path) | ||
# # Required dependencies | ||
# withr::local_package("farff") | ||
# model <- Explore::trainExplore(output_path = output_path, | ||
# file_name = "iris", | ||
# train_data = data, | ||
# ClassFeature = "'class'", | ||
# PositiveClass = '"Iris-versicolor"') | ||
# expect_equal(class(model), "character") | ||
# expect_false(model == "NA", info = "Test failed because model is NA") | ||
# expect_equal(model, "'petallength'>2.45AND'petallength'<=4.95AND'petalwidth'<=1.65") | ||
# }) | ||
# | ||
# test_that("prediction", { | ||
# ### Tests for EXPLORE using iris dataset | ||
# data_path <- system.file("examples", "iris.arff", package = "Explore") | ||
# settings_path <- system.file("examples", "iris.project", package = "Explore") | ||
# output_path <- system.file("examples", "output", package = "Explore") | ||
# data <- farff::readARFF(data_path) | ||
# # Required dependencies | ||
# withr::local_package("farff") | ||
# model <- Explore::trainExplore(output_path = output_path, | ||
# train_data = data, | ||
# settings_path = settings_path, | ||
# ClassFeature = "'class'", | ||
# PositiveClass = '"Iris-versicolor"') | ||
# prediction <- Explore::predictExplore(model, test_data = data) | ||
# expect_equal(class(prediction), "integer") | ||
# expect_equal(length(prediction), nrow(data)) | ||
# expect_equal(sum(prediction %in% c(0,1) == FALSE),0) | ||
# }) | ||
# | ||
# test_that("compute AUC", { | ||
# ### Tests for EXPLORE using iris dataset | ||
# data_path <- system.file("examples", "iris.arff", package = "Explore") | ||
# settings_path <- system.file("examples", "iris.project", package = "Explore") | ||
# output_path <- system.file("examples", "output", package = "Explore") | ||
# # output_path <- system.file("examples", "output//", package = "Explore") | ||
# # output_path <- paste0(output_path, "//") | ||
# data <- farff::readARFF(data_path) | ||
# | ||
# # Required dependencies | ||
# withr::local_package("farff") | ||
# auroc <- Explore::aurocEXPLORE(output_path = output_path, | ||
# train_data = data, | ||
# settings_path = settings_path, | ||
# ClassFeature = "'class'", | ||
# PositiveClass = '"Iris-versicolor"') | ||
# expect_equal(class(auroc), "numeric") | ||
# expect_true(auroc < 100) | ||
# expect_true(auroc > 0) | ||
# }) |