diff options
Diffstat (limited to 'tests/testthat')
| -rw-r--r-- | tests/testthat/print_mmkin_parent.txt | 13 | ||||
| -rw-r--r-- | tests/testthat/setup_script.R | 2 | ||||
| -rw-r--r-- | tests/testthat/test_error_models.R | 1 | ||||
| -rw-r--r-- | tests/testthat/test_mixed.R | 4 |
4 files changed, 17 insertions, 3 deletions
diff --git a/tests/testthat/print_mmkin_parent.txt b/tests/testthat/print_mmkin_parent.txt new file mode 100644 index 00000000..620a657a --- /dev/null +++ b/tests/testthat/print_mmkin_parent.txt @@ -0,0 +1,13 @@ +<mmkin> object +Status of individual fits: + + dataset +model FOCUS_A FOCUS_C FOCUS_D + SFO OK OK OK + FOMC C OK OK + DFOP OK OK OK + HS OK OK OK + +OK: No warnings +C: Optimisation did not converge: +false convergence (8) diff --git a/tests/testthat/setup_script.R b/tests/testthat/setup_script.R index e3b56fb3..9da8b90d 100644 --- a/tests/testthat/setup_script.R +++ b/tests/testthat/setup_script.R @@ -35,7 +35,7 @@ f_1_mkin_notrans <- mkinfit("SFO", FOCUS_2006_A, quiet = TRUE, # mmkin object of parent fits for tests models <- c("SFO", "FOMC", "DFOP", "HS") fits <- mmkin(models, - list(FOCUS_C = FOCUS_2006_C, FOCUS_D = FOCUS_2006_D), + list(FOCUS_A = FOCUS_2006_A, FOCUS_C = FOCUS_2006_C, FOCUS_D = FOCUS_2006_D), quiet = TRUE, cores = n_cores) # One metabolite diff --git a/tests/testthat/test_error_models.R b/tests/testthat/test_error_models.R index 169001f1..2a1ffcc1 100644 --- a/tests/testthat/test_error_models.R +++ b/tests/testthat/test_error_models.R @@ -56,7 +56,6 @@ test_that("The default error model algorithm finds the best known AIC values for f_tc_exp_d_3 <- mmkin(c("SFO", "DFOP", "HS"), lapply(experimental_data_for_UBA_2019, function(x) x$data), error_model = "tc", - error_model_algorithm = "d_3", quiet = TRUE) AIC_exp_d_3 <- lapply(f_tc_exp_d_3, AIC) diff --git a/tests/testthat/test_mixed.R b/tests/testthat/test_mixed.R index ef73f21d..644cccc1 100644 --- a/tests/testthat/test_mixed.R +++ b/tests/testthat/test_mixed.R @@ -2,7 +2,8 @@ context("Nonlinear mixed effects models") test_that("Parent only models can be fitted using nonlinear mixed effects models", { # Some fits were done in the setup script - mmkin_sfo_2 <- mmkin("SFO", ds_sfo, fixed_initials = c(parent = 100), quiet = TRUE) + mmkin_sfo_2 <- update(mmkin_sfo_1, fixed_initials = c(parent = 100)) + expect_error(update(mmkin_sfo_1, models = c("SFOOO")), "Please supply models.*") sfo_saemix_2 <- saem(mmkin_sfo_1, quiet = TRUE, transformations = "mkin") sfo_saemix_3 <- expect_error(saem(mmkin_sfo_2, quiet = TRUE), "at least two parameters") @@ -45,6 +46,7 @@ test_that("Parent only models can be fitted using nonlinear mixed effects models }) test_that("Print methods work", { + expect_known_output(print(fits, digits = 2), "print_mmkin_parent.txt") expect_known_output(print(mmkin_biphasic_mixed, digits = 2), "print_mmkin_biphasic_mixed.txt") expect_known_output(print(nlme_biphasic, digits = 1), "print_nlme_biphasic.txt") expect_known_output(print(sfo_saemix_1, digits = 1), "print_sfo_saemix_1.txt") |