#107 cmd checks

pharmaverse · Dec 2, 2024 · 091dc95 · 091dc95
1 parent 6e308e1
commit 091dc95
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Showing 12 changed files with 91 additions and 8 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -68,7 +68,8 @@ Suggests:
     spelling,
     testthat (>= 3.1.7),
     DT,
-    readr
+    readr,
+    withr
 VignetteBuilder: knitr
 Config/testthat/edition: 3
 Config/testthat/parallel: true
diff --git a/NAMESPACE b/NAMESPACE
@@ -21,6 +21,8 @@ export(generate_code)
 export(generate_oak_id_vars)
 export(hardcode_ct)
 export(hardcode_no_ct)
+export(is_character)
+export(is_numeric)
 export(oak_id_vars)
 export(problems)
 export(read_ct_spec)

diff --git a/R/generate_code.R b/R/generate_code.R
@@ -75,7 +75,7 @@ is_numeric <- function(var_in) {
 #'
 #' @param var_in The variable to check.
 #'
-#' @return
+#' @return Logical indicating if the variable is character.
 #' @export
 #'
 is_character <- function(var_in) {
@@ -248,10 +248,9 @@ remove_last_pipe <- function(code_blocks) {
 #' @param spec The specification data frame.
 #' @param domain The SDTM domain to get the specification for.
 #'
-#' @return
+#' @return A tibble with the specification for the domain.
 #' @keywords internal
 #'
-#' @examples
 get_domain_spec <- function(spec, domain) {
   expected_columns <- c(
     "raw_dataset",

diff --git a/R/globals.R b/R/globals.R
@@ -1,4 +1,6 @@
 utils::globalVariables(c(
   "USUBJID", "VISIT", "dom_dt", "dom_tm", "ref_dt",
-  "ref_tm"
+  "ref_tm", "target_sdtm_domain", "target_sdtm_variable",
+  "mapping_algorithm", "entity_sub_algorithm", "entity_sub_algorithm",
+  "entity_sub_algorithm_temp", "condition_add_raw_dat", "raw_dataset"
 ))
diff --git a/man/cm_template_prefix.Rd b/man/cm_template_prefix.Rd
diff --git a/man/expected_columns.Rd b/man/expected_columns.Rd
diff --git a/man/generate_code.Rd b/man/generate_code.Rd
diff --git a/man/get_domain_spec.Rd b/man/get_domain_spec.Rd
diff --git a/man/is_character.Rd b/man/is_character.Rd
diff --git a/man/is_numeric.Rd b/man/is_numeric.Rd
diff --git a/man/parse_into_c_call.Rd b/man/parse_into_c_call.Rd
diff --git a/man/read_spec.Rd b/man/read_spec.Rd