52 standardise optional notation

R/argument_convention.R

@@ -19,7 +19,7 @@
 #' @param aval_var (`character`)\cr name of the analysis value variable.
 #' @param baseline_var (`character`)\cr name of the variable for baseline values of the analysis variable.
 #' @param base_var `r lifecycle::badge("deprecated")` Please use the `baseline_var` argument instead.
-#' @param basic_table_args optional, (`basic_table_args`)\cr object created by [teal.widgets::basic_table_args()]
+#' @param basic_table_args (`basic_table_args`) optional\cr object created by [teal.widgets::basic_table_args()]
 #'   with settings for the module table. The argument is merged with option `teal.basic_table_args` and with default
 #'   module arguments (hard coded in the module body).
 #'   For more details, see the vignette: `vignette("custom-basic-table-arguments", package = "teal.widgets")`.
@@ -46,7 +46,7 @@
 #' @param event_type (`character`)\cr type of event that is summarized (e.g. adverse event, treatment). Default
 #'   is `"event"`.
 #' @param font_size (`numeric`)\cr font size value.
-#' @param ggplot2_args optional, (`ggplot2_args`)\cr object created by [teal.widgets::ggplot2_args()] with settings
+#' @param ggplot2_args (`ggplot2_args`) optional\cr object created by [teal.widgets::ggplot2_args()] with settings
 #'   for the module plot. The argument is merged with option `teal.ggplot2_args` and with default module arguments
 #'   (hard coded in the module body).
 #'   For more details, see the vignette: `vignette("custom-ggplot2-arguments", package = "teal.widgets")`.
@@ -88,7 +88,7 @@
 #'   records in `treatment_flag_var`.
 #' @param treatment_flag_var (`character`)\cr name of the on treatment flag variable.
 #' @param useNA (`character`)\cr whether missing data (`NA`) should be displayed as a level.
-#' @param var_labels optional, (named `character`)\cr variable labels for relabeling the analysis variables.
+#' @param var_labels (named `character`) optional\cr variable labels for relabeling the analysis variables.
 #' @param visit_var (`character`)\cr variable names that can be used as `visit` variable. Must be a factor in
 #'   `dataname`.
 #' @param worst_flag_indicator (`character`)\cr value indicating worst grade.
@@ -115,7 +115,7 @@ NULL
 #'   excluded to reduce duplication as each module function inherits parameters from its corresponding template
 #'   function.
 #'
-#' @param arm_ref_comp optional, (`list`)\cr If specified it must be a named list with each element corresponding to
+#' @param arm_ref_comp (`list`) optional,\cr if specified it must be a named list with each element corresponding to
 #'   an arm variable in `ADSL` and the element must be another list (possibly
 #'   with delayed [teal.transform::variable_choices()] or delayed [teal.transform::value_choices()]
 #'   with the elements named `ref` and `comp` that the defined the default
@@ -175,13 +175,13 @@ NULL
 #'   available choices and preselected option for the parameter code variable from `dataname`.
 #' @param parentname (`character`)\cr parent analysis data used in teal module, usually this refers to `ADSL`.
 #' @param patient_col (`character`)\cr name of patient ID variable.
-#' @param plot_height optional, (`numeric`)\cr a vector of length three with `c(value, min, max)`. Specifies the
+#' @param plot_height (`numeric`) optional\cr vector of length three with `c(value, min, max)`. Specifies the
 #'   height of the main plot and renders a slider on the plot to interactively adjust the plot height.
-#' @param plot_width optional, (`numeric`)\cr a vector of length three with `c(value, min, max)`. Specifies the width
+#' @param plot_width (`numeric`) optional\cr vector of length three with `c(value, min, max)`. Specifies the width
 #'   of the main plot and renders a slider on the plot to interactively adjust the plot width.
-#' @param post_output optional, (`shiny.tag`)\cr with text placed after the output to put the output into context.
+#' @param post_output (`shiny.tag`) optional,\cr with text placed after the output to put the output into context.
 #'   For example the [shiny::helpText()] elements are useful.
-#' @param pre_output optional, (`shiny.tag`)\cr with text placed before the output to put the output into context.
+#' @param pre_output (`shiny.tag`) optional,\cr with text placed before the output to put the output into context.
 #'   For example a title.
 #' @param strata_var ([teal.transform::choices_selected()])\cr names of
 #'   the variables for stratified analysis.

R/tm_a_mmrm.R

@@ -447,7 +447,7 @@ template_mmrm_plots <- function(fit_name,
 #' @inheritParams template_mmrm_plots
 #' @param method ([teal.transform::choices_selected()])\cr object with
 #'   all available choices and pre-selected option for the adjustment method.
-#' @param ggplot2_args (`ggplot2_args`) \cr optional, object created by [`teal.widgets::ggplot2_args()`]
+#' @param ggplot2_args (`ggplot2_args`) optional\cr object created by [`teal.widgets::ggplot2_args()`]
 #'   with settings for all the plots or named list of `ggplot2_args` objects for plot-specific settings.
 #'   List names should match the following: `c("default", "lsmeans", "diagnostic")`. The argument is merged
 #'   with option `teal.ggplot2_args` and with default module arguments (hard coded in the module body).

R/tm_g_forest_rsp.R

@@ -10,7 +10,7 @@
 #'  estimator plot symbol. Typically, the symbol size is proportional to the sample size used
 #'  to calculate the estimator. If `NULL`, the same symbol size is used for all subgroups.
 #' @param strata_var (`character`)\cr names of the variables for stratified analysis.
-#' @param ggplot2_args optional, (`ggplot2_args`)\cr
+#' @param ggplot2_args (`ggplot2_args`) optional\cr
 #'   object created by [teal.widgets::ggplot2_args()] with settings for the module plot. For this
 #'   module, this argument will only accept `ggplot2_args` object with `labs` list of following child
 #'   elements: `title`, `caption`. No other elements would be taken into account. The argument is

R/tm_g_ipp.R

@@ -12,7 +12,7 @@
 #'   `TRUE`.
 #' @param paramcd_first (`character`)\cr `paramcd` text to append to the plot title and y-axis label.
 #' @param add_avalu (`logical`)\cr whether `avalu_first` text should be appended to the plot title and y-axis label.
-#' @param ggplot2_args optional, (`ggplot2_args`)\cr object created by [teal.widgets::ggplot2_args()] with settings
+#' @param ggplot2_args (`ggplot2_args`) optional\cr object created by [teal.widgets::ggplot2_args()] with settings
 #'   for the module plot. For this module, this argument will only accept `ggplot2_args` object with `labs` list of
 #'   the following child elements: `title`, `subtitle`, `x`, `y`. No other elements are taken into account. The
 #'   argument is merged with option `teal.ggplot2_args` and with default module arguments (hard coded in the module

R/tm_g_lineplot.R

@@ -7,7 +7,7 @@
 #' @inheritParams template_arguments
 #' @param param (`character`)\cr parameter to filter the data by.
 #' @param incl_screen (`logical`)\cr whether the screening visit should be included.
-#' @param ggplot2_args optional, (`ggplot2_args`)\cr object created by [teal.widgets::ggplot2_args()] with settings
+#' @param ggplot2_args (`ggplot2_args`) optional\cr object created by [teal.widgets::ggplot2_args()] with settings
 #' for the module plot. For this module, this argument will only accept `ggplot2_args` object with `labs` list of
 #' following child elements: `title`, `subtitle`, `caption`, `y`, `lty`. No other elements would be taken into
 #' account. The argument is merged with option `teal.ggplot2_args` and with default module arguments (hard coded in

R/utils.R

@@ -464,7 +464,7 @@ split_choices <- function(x) {
 #' @param dataname (`character`)\cr
 #'   `dataname` from data_extract input.
 #'   This might be retrieved like `data_extract_spec(...)[[1]]$dataname`.
-#' @param filter optional, (`logical`)\cr
+#' @param filter (`logical`) optional,\cr
 #'   if the connected `extract_data_spec` has objects passed to its `filter` argument
 #'
 #' @return a string