<lifecycle_error_deprecated/defunctError/rlang_error/error/condition>
Error: `mutate_()` was deprecated in dplyr 0.7.0 and is now defunct.
i Please use `mutate()` instead.
i See vignette('programming') for more help

test_that("Updating triple retains cohesiveness", {
broken_brauer$features <- broken_brauer$features %>% mutate(foo = "bar")
test_that("Test check_tidy_omic edge cases", {
# duplicated feature, sample, measurement tuples
expect_snapshot(check_tidy_omic(double_data_tidy, fast_check = FALSE), error = TRUE)
degen_sample_var = rep(1:10, each = 10),
degen_feature_var = rep(1:10, times = 10)
# inconsistencies between data and design
regex = "features: are present in the design but not data.frames"
regex = "foo: are present in the data.frames but not in the design"
test_that("Factor primary keys are preserved when converting from a tidy to a triple", {
triple_from_tidy_check_status <- romic::check_tomic(triple_from_tidy, fast_check = FALSE)
tidy_with_pcs <- add_pcs(tidy, verbose = FALSE)
test_that("Numeric primary keys are preserved when converting from a tidy to a triple", {
triple_from_tidy_check_status <- check_tomic(triple_from_tidy, fast_check = FALSE)
tidy_with_pcs <- add_pcs(simple_tidy, verbose = FALSE)
# works without providing features or samples
# works when providing features and samples df
test_that("Test check_triple_omic edge cases", {
# inconsistent classes of primary and foreign keys
"feature_id classes differ between the features"
"sample_id classes differ between the samples"
"10 features were present multiple times with"
"5 samples were present multiple times with"
"50 measurements were present multiple times with"
test_that("Unstructured data preserved using tomic_to", {
feature_vars = c("BP", "MF", "systematic_name"),
test_that("Catch corner cases when reading wide data", {
"entry_number are reserved variable names"
test_that("Find primary or foreign keys in tomic table", {
test_that("Test that get_tomic_table() can retrieve various tables", {
infer_tomic_table_type(simple_tidy, samples_df %>% rename(fake_samples = samples)),
test_that("reform_tidy_omic() can create a tidy_omic object from its attributes", {
test_that("Catch corner cases when interconverting tomics", {
# check tomic only works on tidy and triple omics
"tomic is not a tidy_omic or triple_omic. This is unexpected since"