andreas/REDCapCAST
1
0
Fork 0
mirror of https://github.com/agdamsbo/REDCapCAST.git synced 2024-11-22 05:20:23 +01:00
Code Issues Packages Projects Releases Wiki Activity

new tests and removed notes

Browse Source
This commit is contained in:
AG Damsbo 2023-03-06 14:37:06 +01:00
parent c7b61cb19e
commit b57e130395
1 changed files with 28 additions and 11 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

39
R/read_redcap_tables.R
View File

@ -12,10 +12,10 @@
#' @param raw_or_label raw or label tags
#' @param generics vector of auto-generated generic variable names to
#' ignore when discarding empty rows
#' @param ... extra parameters for internal REDCapR::redcap_read
#'
#' @return list of instruments
#' @importFrom REDCapR redcap_metadata_read redcap_read
#' @importFrom REDCapR redcap_metadata_read redcap_read redcap_event_instruments
#' @include utils.r
#' @export
#'
#' @examples
@ -32,12 +32,30 @@ read_redcap_tables <- function(uri,
"redcap_event_name",
"redcap_repeat_instrument",
"redcap_repeat_instance"
),
...) {
# Notes to self: Based on the metadata, this functionality could be
# introduced without using the REDCapRITS package.. To be tried..
#
# This does not handle repeated instruments!! This should be implemented.
)) {
if (!is.null(forms) | !is.null(events)){
arm_event_inst <- REDCapR::redcap_event_instruments(redcap_uri = uri,
token = token)
if (!is.null(forms)){
forms_test <- forms %in% unique(arm_event_inst$data$form)
if (any(!forms_test)){
stop("Not all supplied forms are valid")
}
}
if (!is.null(events)){
event_test <- events %in% unique(arm_event_inst$data$unique_event_name)
if (any(!forms_test)){
stop("Not all supplied event names are valid")
}
}
}
d <- REDCapR::redcap_read(
redcap_uri = uri,
@ -46,15 +64,14 @@ read_redcap_tables <- function(uri,
events = events,
forms = forms,
records = records,
raw_or_label = raw_or_label,
...
raw_or_label = raw_or_label
)
m <-
REDCapR::redcap_metadata_read (redcap_uri = uri, token = token)
l <- REDCap_split(d$data,
m$data[m$data$field_name %in% names(d$data), ],
focused_metadata(m$data,names(d$data)),
forms = "all")
lapply(l, function(i) {