Closed mattfidler closed 1 year ago
library(ggPMX) #> Registered S3 method overwritten by 'GGally': #> method from #> +.gg ggplot2 library(testthat) theophylline <- file.path( system.file(package = "ggPMX"), "testdata", "theophylline" ) WORK_DIR <- file.path(theophylline, "Monolix") input_file <- file.path(theophylline, "data_pk.csv") my_settings <- pmx_settings( use.labels = TRUE, cats.labels = list(SEX = c("0" = "Male", "1" = "Female"), STUD = c("1" = "S", "2" = "D")), effects = list(levels = c("ka", "V", "Cl"), labels = c("Absorption_rate", "Volume", "Clearance")), covariates = pmx_cov( values = list("WT0", "AGE0"), labels = list("Weight", "Age") ) ) ctr <- pmx_mlx( config = "standing", directory = WORK_DIR, input = input_file, dv = "Y", dvid = "DVID", cats = c("SEX"), conts = c("WT0", "AGE0"), strats = "SEX", settings = my_settings, ) #> Warning: The `facets` argument of `facet_grid()` is deprecated as of ggplot2 2.2.0. #> ℹ Please use the `rows` argument instead. #> ℹ The deprecated feature was likely used in the ggPMX package. #> Please report the issue at #> <https://github.com/ggPMXdevelopment/ggPMX/issues>. #> This warning is displayed once every 8 hours. #> Call `lifecycle::last_lifecycle_warnings()` to see where this warning was #> generated. p0 <- ctr %>% pmx_plot_eta_hist(strat.facet = ~STUD) rlang::quo_text(p0$facet$params$rows) == "structure(list(EFFECT = ~EFFECT), class = c(\"quosures\", \"list\"\n))" #> [1] TRUE p <- ctr %>% pmx_plot_eta_box(strat.facet = SEX ~ STUD) expect_true(inherits(p$facet$params$rows, "quosures")) expect_true(rlang::quo_text(p$facet$params$rows) == "structure(list(SEX = ~SEX), class = c(\"quosures\", \"list\"))") expect_true(rlang::quo_text(p$facet$params$cols) == "structure(list(STUD = ~STUD), class = c(\"quosures\", \"list\"))") expect_true(all(unique(p$data$EFFECT) %in% c("Absorption_rate", "Volume", "Clearance"))) p_effect <- ctr %>% pmx_plot_eta_conts() expect_true(all(unique(p_effect$data$variable) %in% c("WT0", "AGE0"))) #> Error: all(unique(p_effect$data$variable) %in% c("WT0", "AGE0")) is not TRUE #> #> `actual`: FALSE #> `expected`: TRUE p_cov <- ctr %>% pmx_plot_eta_conts( covariates = pmx_cov( values = list("WT0", "AGE0"), labels = list("Weight", "Age") ) ) expect_true(all(unique(p_cov$data$variable) %in% c("Weight", "Age"))) # now recreate the exact same controller my_settings <- pmx_settings( use.labels = TRUE, cats.labels = list(SEX = c("0" = "Male", "1" = "Female"), STUD = c("1" = "S", "2" = "D")), effects = list(levels = c("ka", "V", "Cl"), labels = c("Absorption_rate", "Volume", "Clearance")), covariates = pmx_cov( values = list("WT0", "AGE0"), labels = list("Weight", "Age") ) ) ctr <- pmx_mlx( config = "standing", directory = WORK_DIR, input = input_file, dv = "Y", dvid = "DVID", cats = c("SEX"), conts = c("WT0", "AGE0"), strats = "SEX", settings = my_settings, ) p0 <- ctr %>% pmx_plot_eta_hist(strat.facet = ~STUD) rlang::quo_text(p0$facet$params$rows) == "structure(list(EFFECT = ~EFFECT), class = c(\"quosures\", \"list\"\n))" #> [1] TRUE p <- ctr %>% pmx_plot_eta_box(strat.facet = SEX ~ STUD) expect_true(inherits(p$facet$params$rows, "quosures")) expect_true(rlang::quo_text(p$facet$params$rows) == "structure(list(SEX = ~SEX), class = c(\"quosures\", \"list\"))") expect_true(rlang::quo_text(p$facet$params$cols) == "structure(list(STUD = ~STUD), class = c(\"quosures\", \"list\"))") expect_true(all(unique(p$data$EFFECT) %in% c("Absorption_rate", "Volume", "Clearance"))) p_effect <- ctr %>% pmx_plot_eta_conts() expect_true(all(unique(p_effect$data$variable) %in% c("WT0", "AGE0"))) #> Error: all(unique(p_effect$data$variable) %in% c("WT0", "AGE0")) is not TRUE #> #> `actual`: FALSE #> `expected`: TRUE
Created on 2023-04-10 with reprex v2.0.2
Not the issue. In the reprex it is picking up a label that hasn't been defined yet
Created on 2023-04-10 with reprex v2.0.2