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@Jennit07 @github-actions
Jennit07 authored and github-actions[bot] committed Oct 9, 2024
1 parent 7fde7ce commit 2100cb6
Showing 1 changed file with 7 additions and 29 deletions.
36 changes: 7 additions & 29 deletions R/create_individual_file.R
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Original file line number Diff line number Diff line change
Expand Up @@ -294,7 +294,6 @@ add_all_columns <- function(episode_file, year) {
#' @param condition Condition to create new columns based on
#' @family individual_file
add_acute_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition, episode = TRUE, cost = TRUE) %>%
Expand All @@ -310,7 +309,6 @@ add_acute_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_mat_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition, episode = TRUE, cost = TRUE) %>%
Expand All @@ -326,7 +324,6 @@ add_mat_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_mh_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition, episode = TRUE, cost = TRUE) %>%
Expand All @@ -335,14 +332,13 @@ add_mh_columns <- function(episode_file, prefix, condition) {
cli::cli_alert_info("Add mental health columns function finished at {Sys.time()}")

return(episode_file)
}
}

#' Add GLS columns
#'
#' @inheritParams add_acute_columns
#' @family individual_file
add_gls_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition, episode = TRUE, cost = TRUE) %>%
Expand All @@ -358,7 +354,6 @@ add_gls_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_op_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition)
Expand All @@ -385,7 +380,6 @@ add_op_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_ae_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition, cost = TRUE) %>%
Expand All @@ -394,30 +388,27 @@ add_ae_columns <- function(episode_file, prefix, condition) {
cli::cli_alert_info("Add A&E columns function finished at {Sys.time()}")

return(episode_file)

}

#' Add PIS columns
#'
#' @inheritParams add_acute_columns
#' @family individual_file
add_pis_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition, cost = TRUE) %>%
dplyr::mutate("{prefix}_paid_items" := dplyr::if_else(eval(condition), .data$no_paid_items, NA_integer_))
cli::cli_alert_info("Add prescribing columns function finished at {Sys.time()}")

return(episode_file)
}
}

#' Add OoH columns
#'
#' @inheritParams add_acute_columns
#' @family individual_file
add_ooh_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition, cost = TRUE) %>%
Expand Down Expand Up @@ -455,7 +446,6 @@ add_ooh_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_dn_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
if ("total_no_dn_contacts" %in% names(episode_file)) {
episode_file <- episode_file %>%
Expand All @@ -473,7 +463,7 @@ add_dn_columns <- function(episode_file, prefix, condition) {
dplyr::mutate("{prefix}_contacts" := NA_integer_)
}

cli::cli_alert_info("Add district nursing columns function finished at {Sys.time()}")
cli::cli_alert_info("Add district nursing columns function finished at {Sys.time()}")

return(episode_file)
}
Expand All @@ -483,13 +473,12 @@ add_dn_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_cmh_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition) %>%
dplyr::mutate("{prefix}_contacts" := dplyr::if_else(eval(condition), 1L, NA_integer_))

cli::cli_alert_info("Add communicty mental health columns function finished at {Sys.time()}")
cli::cli_alert_info("Add communicty mental health columns function finished at {Sys.time()}")

return(episode_file)
}
Expand All @@ -499,7 +488,6 @@ add_cmh_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_dd_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
condition_delay <- substitute(condition & primary_delay_reason != "9")
episode_file <- episode_file %>%
Expand All @@ -524,13 +512,12 @@ add_dd_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_nsu_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition) %>%
dplyr::mutate("{prefix}" := dplyr::if_else(eval(condition), 1L, NA_integer_))

cli::cli_alert_info("Add non service users columns function finished at {Sys.time()}")
cli::cli_alert_info("Add non service users columns function finished at {Sys.time()}")

return(episode_file)
}
Expand All @@ -540,13 +527,12 @@ add_nsu_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_nrs_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition) %>%
dplyr::mutate("{prefix}" := dplyr::if_else(eval(condition), 1L, NA_integer_))

cli::cli_alert_info("Add nrs columns function finished at {Sys.time()}")
cli::cli_alert_info("Add nrs columns function finished at {Sys.time()}")

return(episode_file)
}
Expand All @@ -556,12 +542,11 @@ add_nrs_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_hl1_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition)

cli::cli_alert_info("Add homelessness columns function finished at {Sys.time()}")
cli::cli_alert_info("Add homelessness columns function finished at {Sys.time()}")

return(episode_file)
}
Expand All @@ -571,7 +556,6 @@ add_hl1_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_ch_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition) %>%
Expand Down Expand Up @@ -606,7 +590,6 @@ add_ch_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_hc_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)

episode_file <- episode_file %>%
Expand Down Expand Up @@ -655,7 +638,6 @@ add_hc_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_at_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition) %>%
Expand All @@ -674,7 +656,6 @@ add_at_columns <- function(episode_file, prefix, condition) {
#' @inheritParams add_acute_columns
#' @family individual_file
add_sds_columns <- function(episode_file, prefix, condition) {

condition <- substitute(condition)
episode_file <- episode_file %>%
add_standard_cols(prefix, condition) %>%
Expand All @@ -701,7 +682,6 @@ add_sds_columns <- function(episode_file, prefix, condition) {
#' cij_pattype (lgl)
#' @family individual_file
add_ipdc_cols <- function(episode_file, prefix, condition, ipdc_d = TRUE, elective = TRUE) {

condition_i <- substitute(eval(condition) & ipdc == "I")
episode_file <- episode_file %>%
dplyr::mutate(
Expand Down Expand Up @@ -749,8 +729,6 @@ add_ipdc_cols <- function(episode_file, prefix, condition, ipdc_d = TRUE, electi
#' @param cost Whether to create prefix_cost col, e.g. "Acute_cost"
#' @family individual_file
add_standard_cols <- function(episode_file, prefix, condition, episode = FALSE, cost = FALSE) {


if (episode) {
episode_file <- dplyr::mutate(episode_file, "{prefix}_episodes" := dplyr::if_else(eval(condition), 1L, NA_integer_))
}
Expand Down

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