diff options
Diffstat (limited to 'tests')
| -rw-r--r-- | tests/testthat/print_saem_biphasic_s.txt | 37 | ||||
| -rw-r--r-- | tests/testthat/print_sfo_saemix_1.txt | 21 | ||||
| -rw-r--r-- | tests/testthat/test_plot.R | 6 | ||||
| -rw-r--r-- | tests/testthat/test_saem.R | 2 |
4 files changed, 22 insertions, 44 deletions
diff --git a/tests/testthat/print_saem_biphasic_s.txt b/tests/testthat/print_saem_biphasic_s.txt deleted file mode 100644 index 3c07b715..00000000 --- a/tests/testthat/print_saem_biphasic_s.txt +++ /dev/null @@ -1,37 +0,0 @@ -Kinetic nonlinear mixed-effects model fit by SAEM -Structural model: -d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) * exp(-k2 * - time)) / (g * exp(-k1 * time) + (1 - g) * exp(-k2 * time))) - * parent -d_m1/dt = + f_parent_to_m1 * ((k1 * g * exp(-k1 * time) + k2 * (1 - g) - * exp(-k2 * time)) / (g * exp(-k1 * time) + (1 - g) * - exp(-k2 * time))) * parent - k_m1 * m1 - -Data: -509 observations of 2 variable(s) grouped in 15 datasets - -Likelihood computed by importance sampling - AIC BIC logLik - 2692 2702 -1333 - -Fitted parameters: - estimate lower upper -parent_0 1e+02 99.303 1e+02 -k_m1 2e-03 0.002 3e-03 -f_parent_to_m1 5e-01 0.448 5e-01 -k1 4e-02 0.024 6e-02 -k2 2e-02 0.009 2e-02 -g 5e-01 0.381 6e-01 -Var.parent_0 2e+00 -0.551 4e+00 -Var.k_m1 2e-02 -0.151 2e-01 -Var.f_parent_to_m1 8e-02 0.018 1e-01 -Var.k1 5e-01 0.095 9e-01 -Var.k2 6e-01 0.125 1e+00 -Var.g 7e-02 -0.245 4e-01 -a.1 3e+00 2.569 3e+00 -SD.parent_0 1e+00 0.390 2e+00 -SD.k_m1 1e-01 -0.478 8e-01 -SD.f_parent_to_m1 3e-01 0.175 4e-01 -SD.k1 7e-01 0.422 1e+00 -SD.k2 8e-01 0.471 1e+00 -SD.g 3e-01 -0.326 9e-01 diff --git a/tests/testthat/print_sfo_saemix_1.txt b/tests/testthat/print_sfo_saemix_1.txt new file mode 100644 index 00000000..d341e9e7 --- /dev/null +++ b/tests/testthat/print_sfo_saemix_1.txt @@ -0,0 +1,21 @@ +Kinetic nonlinear mixed-effects model fit by SAEM +Structural model: +d_parent/dt = - k_parent * parent + +Data: +264 observations of 1 variable(s) grouped in 15 datasets + +Likelihood computed by importance sampling + AIC BIC logLik + 1320 1324 -654 + +Fitted parameters: + estimate lower upper +parent_0 1e+02 98.78 1e+02 +k_parent 4e-02 0.03 4e-02 +Var.parent_0 8e-01 -1.76 3e+00 +Var.k_parent 9e-02 0.03 2e-01 +a.1 9e-01 0.70 1e+00 +b.1 4e-02 0.03 4e-02 +SD.parent_0 9e-01 -0.57 2e+00 +SD.k_parent 3e-01 0.20 4e-01 diff --git a/tests/testthat/test_plot.R b/tests/testthat/test_plot.R index 4d815d33..4b830fe4 100644 --- a/tests/testthat/test_plot.R +++ b/tests/testthat/test_plot.R @@ -32,12 +32,6 @@ test_that("Plotting mkinfit and mmkin objects is reproducible", { plot_err_sfo_sfo <- function() plot_err(f_sfo_sfo_desolve) vdiffr::expect_doppelganger("plot_err for FOCUS D", plot_err_sfo_sfo) - plot_errmod_fit_tc_1 <- function() plot_err(fit_tc_1, sep_obs = FALSE) - vdiffr::expect_doppelganger("plot_errmod with SFO_lin_a_tc", plot_errmod_fit_tc_1) - - plot_errmod_fit_obs_1 <- function() plot_err(fit_obs_1, sep_obs = FALSE) - vdiffr::expect_doppelganger("plot_errmod with SFO_lin_a_obs", plot_errmod_fit_obs_1) - skip_on_travis() # Biphasic fits with lots of data and fits have lots of potential for differences diff --git a/tests/testthat/test_saem.R b/tests/testthat/test_saem.R index 37456ed4..869ca120 100644 --- a/tests/testthat/test_saem.R +++ b/tests/testthat/test_saem.R @@ -102,7 +102,7 @@ test_that("Parent only models can be fitted with saemix", { test_that("Simple models with metabolite can be fitted with saemix", { - expect_known_output(print(saem_biphasic_s, digits = 1), "print_saem_biphasic_s.txt") + expect_known_output(print(sfo_saemix_1, digits = 1), "print_sfo_saemix_1.txt") test_summary <- summary(saem_biphasic_s) test_summary$saemixversion <- "Dummy 0.0 for testing" |