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Merged
merged 4 commits into from
Oct 15, 2025
Merged

followup after TealAppDriver$initialize changes #1429

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42244e4
followup after TealAppDriver$initialize changes
gogonzo Oct 10, 2025
f0148e0
chore: update `init_teal_app_driver` so we can also use it for teal a…
vedhav Oct 15, 2025
c0e4dfa
chore: use the `TealAppDriver_changes` branch from teal
vedhav Oct 15, 2025
e06e3ea
Update DESCRIPTION
vedhav Oct 15, 2025
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1 change: 0 additions & 1 deletion R/tm_a_mmrm.R
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -1553,6 +1553,5 @@ srv_mmrm <- function(id,
set_chunk_dims(pws, reactive({
decorated_objs_q[[obj_ix_r()]]()
}))

})
}
56 changes: 29 additions & 27 deletions tests/testthat/test-shinytest2-tm_a_gee.R
View file
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Original file line number Diff line number Diff line change
Expand Up @@ -18,25 +18,27 @@ app_driver_tm_a_gee <- function() {
teal.data::join_keys(data) <- teal.data::default_cdisc_join_keys[names(data)]

init_teal_app_driver(
data = data,
modules = tm_a_gee(
label = "GEE",
dataname = "ADQS",
parentname = "ADSL",
aval_var = teal.transform::choices_selected("AVALBIN", fixed = TRUE),
id_var = teal.transform::choices_selected(c("USUBJID", "SUBJID"), "USUBJID"),
arm_var = teal.transform::choices_selected(c("ARM", "ARMCD"), "ARM"),
visit_var = teal.transform::choices_selected(c("AVISIT", "AVISITN"), "AVISIT"),
paramcd = teal.transform::choices_selected(
choices = teal.transform::value_choices(data[["ADQS"]], "PARAMCD", "PARAM"),
selected = "FKSI-FWB"
),
cov_var = teal.transform::choices_selected(c("BASE", "AGE", "SEX", "BASE:AVISIT"), NULL),
conf_level = teal.transform::choices_selected(c(0.95, 0.9, 0.8, -1), 0.95, keep_order = TRUE),
arm_ref_comp = NULL,
pre_output = NULL,
post_output = NULL,
basic_table_args = teal.widgets::basic_table_args()
teal::init(
data = data,
modules = tm_a_gee(
label = "GEE",
dataname = "ADQS",
parentname = "ADSL",
aval_var = teal.transform::choices_selected("AVALBIN", fixed = TRUE),
id_var = teal.transform::choices_selected(c("USUBJID", "SUBJID"), "USUBJID"),
arm_var = teal.transform::choices_selected(c("ARM", "ARMCD"), "ARM"),
visit_var = teal.transform::choices_selected(c("AVISIT", "AVISITN"), "AVISIT"),
paramcd = teal.transform::choices_selected(
choices = teal.transform::value_choices(data[["ADQS"]], "PARAMCD", "PARAM"),
selected = "FKSI-FWB"
),
cov_var = teal.transform::choices_selected(c("BASE", "AGE", "SEX", "BASE:AVISIT"), NULL),
conf_level = teal.transform::choices_selected(c(0.95, 0.9, 0.8, -1), 0.95, keep_order = TRUE),
arm_ref_comp = NULL,
pre_output = NULL,
post_output = NULL,
basic_table_args = teal.widgets::basic_table_args()
)
)
)
}
Expand All @@ -48,7 +50,7 @@ testthat::test_that("e2e - tm_a_gee: Module initializes in teal without errors a
app_driver <- app_driver_tm_a_gee()
app_driver$expect_no_shiny_error()
app_driver$expect_no_validation_error()
testthat::expect_true(app_driver$is_visible(app_driver$active_module_element("table-table-with-settings")))
testthat::expect_true(app_driver$is_visible(app_driver$namespaces(TRUE)$module("table-table-with-settings")))
app_driver$stop()
})

Expand Down Expand Up @@ -98,7 +100,7 @@ testthat::test_that(

testthat::expect_equal(app_driver$get_active_module_input("cor_struct"), "unstructured")

radio_buttons <- app_driver$active_module_element_text("output_table")
radio_buttons <- app_driver$namespaces(TRUE)$module("output_table")
testthat::expect_match(
radio_buttons,
"Output Type.*LS means.*Covariance.*Coefficients",
Expand Down Expand Up @@ -135,7 +137,7 @@ testthat::test_that("e2e - tm_a_gee: Deselection of id_var throws validation err
testthat::expect_identical(app_driver$get_active_module_table_output("table-table-with-settings"), data.frame())
app_driver$expect_validation_error()
testthat::expect_equal(
app_driver$active_module_element_text("id_var-dataset_ADQS_singleextract-select_input > div > span"),
app_driver$namespaces(TRUE)$module("id_var-dataset_ADQS_singleextract-select_input > div > span"),
"A Subject identifier is required"
)
app_driver$stop()
Expand Down Expand Up @@ -166,7 +168,7 @@ testthat::test_that("e2e - tm_a_gee: Deselection of arm_var throws validation er
testthat::expect_identical(app_driver$get_active_module_table_output("table-table-with-settings"), data.frame())
app_driver$expect_validation_error()
testthat::expect_equal(
app_driver$active_module_element_text("arm_var-dataset_ADSL_singleextract-select_input > div > span"),
app_driver$namespaces(TRUE)$module("arm_var-dataset_ADSL_singleextract-select_input > div > span"),
"A treatment variable is required"
)
app_driver$stop()
Expand Down Expand Up @@ -200,7 +202,7 @@ testthat::test_that("e2e - tm_a_gee: Deselection of visit_var throws validation
testthat::expect_identical(app_driver$get_active_module_table_output("table-table-with-settings"), data.frame())
app_driver$expect_validation_error()
testthat::expect_equal(
app_driver$active_module_element_text("visit_var-dataset_ADQS_singleextract-select_input > div > span"),
app_driver$namespaces(TRUE)$module("visit_var-dataset_ADQS_singleextract-select_input > div > span"),
"A visit variable is required"
)
app_driver$stop()
Expand Down Expand Up @@ -230,7 +232,7 @@ testthat::test_that("e2e - tm_a_gee: Deselection of paramcd throws validation er
testthat::expect_identical(app_driver$get_active_module_table_output("table-table-with-settings"), data.frame())
app_driver$expect_validation_error()
testthat::expect_equal(
app_driver$active_module_element_text("paramcd-dataset_ADQS_singleextract-filter1-vals_input > div > span"),
app_driver$namespaces(TRUE)$module("paramcd-dataset_ADQS_singleextract-filter1-vals_input > div > span"),
"An endpoint is required"
)
app_driver$stop()
Expand Down Expand Up @@ -277,7 +279,7 @@ testthat::test_that("e2e - tm_a_gee: Selection of conf_level out of [0,1] range
testthat::expect_identical(app_driver$get_active_module_table_output("table-table-with-settings"), data.frame())
app_driver$expect_validation_error()
testthat::expect_equal(
app_driver$active_module_element_text("conf_level_input > div > span"),
app_driver$namespaces(TRUE)$module("conf_level_input > div > span"),
"Confidence level must be between 0 and 1"
)
app_driver$stop()
Expand All @@ -291,7 +293,7 @@ testthat::test_that("e2e - tm_a_gee: Deselection of conf_level throws validation
testthat::expect_identical(app_driver$get_active_module_table_output("table-table-with-settings"), data.frame())
app_driver$expect_validation_error()
testthat::expect_equal(
app_driver$active_module_element_text("conf_level_input > div > span"),
app_driver$namespaces(TRUE)$module("conf_level_input > div > span"),
"Please choose a confidence level"
)
app_driver$stop()
Expand Down
90 changes: 46 additions & 44 deletions tests/testthat/test-shinytest2-tm_a_mmrm.R
View file
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Original file line number Diff line number Diff line change
Expand Up @@ -25,43 +25,45 @@ app_driver_tm_a_mmrm <- function(fit_model = TRUE) {
arm_var <- choices_selected(c("ARM", "ARMCD"), "ARM")

app_driver <- init_teal_app_driver(
data = data,
modules = tm_a_mmrm(
label = "MMRM",
dataname = "ADQS",
parentname = ifelse(inherits(arm_var, "data_extract_spec"),
teal.transform::datanames_input(arm_var), "ADSL"
),
aval_var = choices_selected(c("AVAL", "CHG"), "AVAL"),
id_var = choices_selected(c("USUBJID", "SUBJID"), "USUBJID"),
arm_var = arm_var,
visit_var = choices_selected(c("AVISIT", "AVISITN"), "AVISIT"),
arm_ref_comp = arm_ref_comp,
paramcd = choices_selected(
choices = value_choices(data[["ADQS"]], "PARAMCD", "PARAM"),
selected = "FKSI-FWB"
),
cov_var = choices_selected(c("BASE", "AGE", "SEX", "BASE:AVISIT"), NULL),
method = teal.transform::choices_selected(c(
"Satterthwaite", "Kenward-Roger",
"Kenward-Roger-Linear"
), "Satterthwaite", keep_order = TRUE),
conf_level = teal.transform::choices_selected(c(0.95, 0.9, 0.8), 0.95,
keep_order =
TRUE
),
plot_height = c(700L, 200L, 2000L),
plot_width = NULL,
total_label = default_total_label(),
pre_output = NULL,
post_output = NULL,
basic_table_args = teal.widgets::basic_table_args(),
ggplot2_args = teal.widgets::ggplot2_args()
teal::init(
data = data,
modules = tm_a_mmrm(
label = "MMRM",
dataname = "ADQS",
parentname = ifelse(inherits(arm_var, "data_extract_spec"),
teal.transform::datanames_input(arm_var), "ADSL"
),
aval_var = choices_selected(c("AVAL", "CHG"), "AVAL"),
id_var = choices_selected(c("USUBJID", "SUBJID"), "USUBJID"),
arm_var = arm_var,
visit_var = choices_selected(c("AVISIT", "AVISITN"), "AVISIT"),
arm_ref_comp = arm_ref_comp,
paramcd = choices_selected(
choices = value_choices(data[["ADQS"]], "PARAMCD", "PARAM"),
selected = "FKSI-FWB"
),
cov_var = choices_selected(c("BASE", "AGE", "SEX", "BASE:AVISIT"), NULL),
method = teal.transform::choices_selected(c(
"Satterthwaite", "Kenward-Roger",
"Kenward-Roger-Linear"
), "Satterthwaite", keep_order = TRUE),
conf_level = teal.transform::choices_selected(c(0.95, 0.9, 0.8), 0.95,
keep_order =
TRUE
),
plot_height = c(700L, 200L, 2000L),
plot_width = NULL,
total_label = default_total_label(),
pre_output = NULL,
post_output = NULL,
basic_table_args = teal.widgets::basic_table_args(),
ggplot2_args = teal.widgets::ggplot2_args()
)
),
timeout = 30000
)
if (fit_model) {
app_driver$click(selector = app_driver$active_module_element("button_start"))
app_driver$click(selector = app_driver$namespaces(TRUE)$module("button_start"))
app_driver$wait_for_idle()
}
app_driver
Expand All @@ -86,7 +88,7 @@ testthat::test_that(
app_driver$expect_no_shiny_error()
app_driver$expect_no_validation_error()

null_text <- app_driver$active_module_element_text("null_input_msg")
null_text <- app_driver$namespaces(TRUE)$module("null_input_msg")

testthat::expect_match(null_text, "Please first specify 'Model Settings' and press 'Fit Model'")

Expand Down Expand Up @@ -168,7 +170,7 @@ testthat::test_that(
skip_if_too_deep(5)
app_driver <- app_driver_tm_a_mmrm()

app_driver$click(selector = app_driver$active_module_element("button_start"))
app_driver$click(selector = app_driver$namespaces(TRUE)$module("button_start"))
app_driver$wait_for_idle()
app_driver$expect_no_validation_error()

Expand All @@ -190,7 +192,7 @@ testthat::test_that(
skip_if_too_deep(5)
app_driver <- app_driver_tm_a_mmrm()

app_driver$click(selector = app_driver$active_module_element("button_start"))
app_driver$click(selector = app_driver$namespaces(TRUE)$module("button_start"))
app_driver$wait_for_idle()
app_driver$expect_no_validation_error()

Expand Down Expand Up @@ -233,7 +235,7 @@ testthat::test_that(
skip_if_too_deep(5)
app_driver <- app_driver_tm_a_mmrm()

app_driver$click(selector = app_driver$active_module_element("button_start"))
app_driver$click(selector = app_driver$namespaces(TRUE)$module("button_start"))
app_driver$wait_for_idle()
app_driver$expect_no_validation_error()

Expand Down Expand Up @@ -278,7 +280,7 @@ for (func in output_functions) {
}

testthat::expect_match(
app_driver$active_module_element_text(
app_driver$namespaces(TRUE)$module(
sprintf(
"%s .shiny-validation-message",
ns_des_input("aval_var", "ADQS", "select_input")
Expand Down Expand Up @@ -314,7 +316,7 @@ for (func in output_functions) {
}

testthat::expect_match(
app_driver$active_module_element_text(
app_driver$namespaces(TRUE)$module(
sprintf(
"%s .shiny-validation-message",
ns_des_input("paramcd", "ADQS", "filter1-vals_input")
Expand Down Expand Up @@ -350,7 +352,7 @@ for (func in output_functions) {
}

testthat::expect_match(
app_driver$active_module_element_text(
app_driver$namespaces(TRUE)$module(
sprintf(
"%s .shiny-validation-message",
ns_des_input("visit_var", "ADQS", "select_input")
Expand Down Expand Up @@ -386,7 +388,7 @@ for (func in output_functions) {
}

testthat::expect_match(
app_driver$active_module_element_text(
app_driver$namespaces(TRUE)$module(
sprintf(
"%s .shiny-validation-message",
ns_des_input("arm_var", "ADSL", "select_input")
Expand Down Expand Up @@ -422,7 +424,7 @@ for (func in output_functions) {
}

testthat::expect_match(
app_driver$active_module_element_text(
app_driver$namespaces(TRUE)$module(
sprintf(
"%s .shiny-validation-message",
ns_des_input("id_var", "ADQS", "select_input")
Expand Down Expand Up @@ -458,7 +460,7 @@ for (func in output_functions) {
}

testthat::expect_match(
app_driver$active_module_element_text(
app_driver$namespaces(TRUE)$module(
sprintf(
"%s .shiny-validation-message",
"conf_level_input"
Expand Down Expand Up @@ -530,7 +532,7 @@ for (func in output_functions) {
}

app_driver$set_active_module_input(input_name, input_list[[input_name]])
app_driver$click(selector = app_driver$active_module_element("button_start"))
app_driver$click(selector = app_driver$namespaces(TRUE)$module("button_start"))
app_driver$wait_for_idle()
app_driver$expect_no_validation_error()

Expand Down
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