mirror of
https://github.com/agdamsbo/REDCapCAST.git
synced 2024-10-29 19:11:52 +01:00
Merge branch 'master' into longitudinal-data
This commit is contained in:
pegeler
commit
0aed5bb118
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@ -9,9 +9,12 @@ Description: Split REDCap repeating instruments output into multiple tables.
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This will take raw output from a REDCap export and split it into a base table
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and child tables for each repeating instrument.
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Depends: R (>= 3.4.0)
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Suggests: RCurl,
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Suggests:
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RCurl,
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httr,
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||||
jsonlite,
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||||
testthat
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||||
testthat,
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Hmisc
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License: GPL-3
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Encoding: UTF-8
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LazyData: true
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@ -19,5 +22,5 @@ RoxygenNote: 6.0.1
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URL: https://github.com/SpectrumHealthResearch/REDCapRITS
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BugReports: https://github.com/SpectrumHealthResearch/REDCapRITS/issues
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Collate:
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'JSON2data.frame.r'
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'process_user_input.r'
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'REDCap_split.r'
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|
|
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@ -1,37 +0,0 @@
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JSON2data.frame <- function (x) {
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if (inherits(x, "data.frame")) {
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return(x)
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} else if (inherits(x, "character")) {
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if (requireNamespace("jsonlite", quietly = TRUE)) {
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return(jsonlite::fromJSON(x))
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} else {
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stop(
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"The package 'jsonlite' is needed to convert ",
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deparse(substitute(x)),
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" into a data frame.",
|
||||
"\n Either install 'jsonlite' or pass ",
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deparse(substitute(x)),
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" as a 'data.frame'.",
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call. = FALSE
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)
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||||
|
||||
}
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|
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} else {
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stop(
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deparse(substitute(x)),
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" must be a 'data.frame' or JSON string of class 'character'.",
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call. = FALSE
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||||
)
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}
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}
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@ -4,11 +4,12 @@
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#' and child tables for each repeating instrument. Metadata
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#' is used to determine which fields should be included in each resultant table.
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#'
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#' @param records Exported project records. May be a \code{data.frame} or
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#' \code{character} vector containing JSON from an API call.
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#' @param metadata Project metadata (the data dictionary). May be a
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#' \code{data.frame} or \code{character} vector containing JSON from an API
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#' @param records Exported project records. May be a \code{data.frame},
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#' \code{response}, or \code{character} vector containing JSON from an API
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#' call.
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#' @param metadata Project metadata (the data dictionary). May be a
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#' \code{data.frame}, \code{response}, or \code{character} vector containing
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#' JSON from an API call.
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#' @author Paul W. Egeler, M.S., GStat
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#' @examples
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#' \dontrun{
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@ -65,13 +66,13 @@
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#' }
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#' @return A list of \code{"data.frame"}s: one base table and zero or more
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#' tables for each repeating instrument.
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#' @include JSON2data.frame.r
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#' @include process_user_input.r
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#' @export
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REDCap_split <- function(records, metadata) {
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# Process user input
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records <- JSON2data.frame(records)
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metadata <- JSON2data.frame(metadata)
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records <- process_user_input(records)
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metadata <- process_user_input(metadata)
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# Get the variable names in the dataset
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vars_in_data <- names(records)
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|
|
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41
R/R/process_user_input.r
Normal file
41
R/R/process_user_input.r
Normal file
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@ -0,0 +1,41 @@
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process_user_input <- function (x) {
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UseMethod("process_user_input", x)
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}
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process_user_input.default <- function(x, ...) {
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stop(
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deparse(substitute(x)),
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" must be a 'data.frame',",
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" a 'response',",
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" or a 'character' vector containing JSON.",
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call. = FALSE
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)
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}
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process_user_input.data.frame <- function(x, ...) {
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x
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}
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process_user_input.character <- function(x, ...) {
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if (!requireNamespace("jsonlite", quietly = TRUE)) {
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stop(
|
||||
"The package 'jsonlite' is needed to convert ",
|
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deparse(substitute(x)),
|
||||
" into a data frame.",
|
||||
"\n Either install 'jsonlite' or pass ",
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deparse(substitute(x)),
|
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" as a 'data.frame'.",
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call. = FALSE
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)
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}
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jsonlite::fromJSON(x)
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}
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process_user_input.response <- function(x, ...) {
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process_user_input(rawToChar(x$content))
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}
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@ -7,12 +7,13 @@
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REDCap_split(records, metadata)
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}
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\arguments{
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\item{records}{Exported project records. May be a \code{data.frame} or
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\code{character} vector containing JSON from an API call.}
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\item{records}{Exported project records. May be a \code{data.frame},
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\code{response}, or \code{character} vector containing JSON from an API
|
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call.}
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\item{metadata}{Project metadata (the data dictionary). May be a
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\code{data.frame} or \code{character} vector containing JSON from an API
|
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call.}
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\code{data.frame}, \code{response}, or \code{character} vector containing
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JSON from an API call.}
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}
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\value{
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A list of \code{"data.frame"}s: one base table and zero or more
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|
|
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@ -0,0 +1,46 @@
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row,redcap_repeat_instrument,redcap_repeat_instance,mpg,cyl,disp,hp,drat,wt,qsec,vs,am,gear,carb,color_available___red,color_available___green,color_available___blue,color_available___black,motor_trend_cars_complete,letter_group___a,letter_group___b,letter_group___c,choice,grouping_complete,price,color,customer,sale_complete
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"AMC Javelin",,,15.2,8,304,150,3.15,3.435,17.3,0,0,3,2,1,1,1,0,1,1,1,0,choice2,2,,,,
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"AMC Javelin",sale,1,,,,,,,,,,,,,,,,,,,,,,12000.50,1,Bob,0
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"AMC Javelin",sale,2,,,,,,,,,,,,,,,,,,,,,,13750.77,3,Sue,2
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"AMC Javelin",sale,3,,,,,,,,,,,,,,,,,,,,,,15004.57,2,Kim,0
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"Cadillac Fleetwood",,,10.4,8,472,205,2.93,5.25,17.98,0,0,3,4,0,0,0,0,0,0,0,0,,0,,,,
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"Camaro Z28",,,13.3,8,350,245,3.73,3.84,15.41,0,0,3,4,0,0,0,0,0,1,0,1,choice1,2,,,,
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"Camaro Z28",sale,1,,,,,,,,,,,,,,,,,,,,,,7800.00,2,Janice,2
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"Camaro Z28",sale,2,,,,,,,,,,,,,,,,,,,,,,8000.00,3,Tim,0
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"Chrysler Imperial",,,14.7,8,440,230,3.23,5.345,17.42,0,0,3,4,0,0,0,0,0,0,1,1,choice1,2,,,,
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"Chrysler Imperial",sale,1,,,,,,,,,,,,,,,,,,,,,,7500.00,1,Jim,2
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"Datsun 710",,,22.8,4,108,93,3.85,2.32,18.61,1,1,4,1,0,0,0,0,0,0,1,1,,0,,,,
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"Dodge Challenger",,,15.5,8,318,150,2.76,3.52,16.87,0,0,3,2,0,0,0,0,0,0,0,0,,0,,,,
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"Duster 360",,,14.3,8,360,245,3.21,3.57,15.84,0,0,3,4,0,0,0,0,0,0,1,1,choice1,1,,,,
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"Duster 360",sale,1,,,,,,,,,,,,,,,,,,,,,,8756.40,4,Sarah,1
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"Duster 360",sale,2,,,,,,,,,,,,,,,,,,,,,,6800.88,2,Pablo,0
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"Duster 360",sale,3,,,,,,,,,,,,,,,,,,,,,,8888.88,1,Erica,0
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"Duster 360",sale,4,,,,,,,,,,,,,,,,,,,,,,970.00,4,Juan,0
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"Ferrari Dino",,,19.7,6,145,175,3.62,2.77,15.5,0,1,5,6,0,0,0,0,0,0,0,0,,0,,,,
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"Fiat 128",,,32.4,4,78.7,66,4.08,2.2,19.47,1,1,4,1,0,0,0,0,0,0,0,0,,0,,,,
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"Fiat X1-9",,,27.3,4,79,66,4.08,1.935,18.9,1,1,4,1,0,0,0,0,0,0,0,0,,0,,,,
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"Ford Pantera L",,,15.8,8,351,264,4.22,3.17,14.5,0,1,5,4,0,0,0,0,0,0,0,0,,0,,,,
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"Honda Civic",,,30.4,4,75.7,52,4.93,1.615,18.52,1,1,4,2,0,0,0,0,0,0,0,0,,0,,,,
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"Hornet 4 Drive",,,21.4,6,258,110,3.08,3.215,19.44,1,0,3,1,0,0,0,0,0,0,0,0,,0,,,,
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"Hornet Sportabout",,,18.7,8,360,175,3.15,3.44,17.02,0,0,3,2,0,0,0,0,0,0,0,0,,0,,,,
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"Lincoln Continental",,,10.4,8,460,215,3,5.424,17.82,0,0,3,4,0,0,0,0,0,0,0,0,,0,,,,
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"Lotus Europa",,,30.4,4,95.1,113,3.77,1.513,16.9,1,1,5,2,0,0,0,0,0,0,0,0,,0,,,,
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"Maserati Bora",,,15,8,301,335,3.54,3.57,14.6,0,1,5,8,0,0,0,0,0,0,0,0,,0,,,,
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"Mazda RX4",,,21,6,160,110,3.9,2.62,16.46,0,1,4,4,0,0,0,0,0,0,0,0,,0,,,,
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"Mazda RX4 Wag",,,21,6,160,110,3.9,2.875,17.02,0,1,4,4,0,0,0,0,0,1,1,0,,0,,,,
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"Merc 230",,,22.8,4,140.8,95,3.92,3.15,22.9,1,0,4,2,0,0,0,0,0,1,1,0,choice2,0,,,,
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"Merc 230",sale,1,,,,,,,,,,,,,,,,,,,,,,7800.98,2,Ted,0
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"Merc 230",sale,2,,,,,,,,,,,,,,,,,,,,,,7954.00,1,Quentin,0
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"Merc 230",sale,3,,,,,,,,,,,,,,,,,,,,,,6800.55,3,Sharon,2
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||||
"Merc 240D",,,24.4,4,146.7,62,3.69,3.19,20,1,0,4,2,0,0,0,0,0,0,0,0,,0,,,,
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"Merc 280",,,19.2,6,167.6,123,3.92,3.44,18.3,1,0,4,4,0,0,0,0,0,0,0,0,,0,,,,
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"Merc 280C",,,17.8,6,167.6,123,3.92,3.44,18.9,1,0,4,4,0,0,0,0,0,0,0,0,,0,,,,
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"Merc 450SE",,,16.4,8,275.8,180,3.07,4.07,17.4,0,0,3,3,0,0,0,0,0,0,0,0,,0,,,,
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"Merc 450SL",,,17.3,8,275.8,180,3.07,3.73,17.6,0,0,3,3,0,0,0,0,0,0,0,0,,0,,,,
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"Merc 450SLC",,,15.2,8,275.8,180,3.07,3.78,18,0,0,3,3,0,0,0,0,0,0,0,0,,0,,,,
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"Pontiac Firebird",,,19.2,8,400,175,3.08,3.845,17.05,0,0,3,2,0,0,0,0,0,0,0,0,,0,,,,
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"Porsche 914-2",,,26,4,120.3,91,4.43,2.14,16.7,0,1,5,2,0,0,0,0,0,0,0,0,,0,,,,
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"Toyota Corolla",,,33.9,4,71.1,65,4.22,1.835,19.9,1,1,4,1,0,0,0,0,0,0,0,0,,0,,,,
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||||
"Toyota Corona",,,21.5,4,120.1,97,3.7,2.465,20.01,1,0,3,1,0,0,0,0,0,0,0,0,,0,,,,
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Valiant,,,18.1,6,225,105,2.76,3.46,20.22,1,0,3,1,0,0,0,0,0,0,0,0,,0,,,,
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"Volvo 142E",,,21.4,4,121,109,4.11,2.78,18.6,1,1,4,2,0,0,0,0,0,0,0,0,,0,,,,
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|
|
|
@ -0,0 +1,19 @@
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"Variable / Field Name","Form Name","Section Header","Field Type","Field Label","Choices, Calculations, OR Slider Labels","Field Note","Text Validation Type OR Show Slider Number","Text Validation Min","Text Validation Max",Identifier?,"Branching Logic (Show field only if...)","Required Field?","Custom Alignment","Question Number (surveys only)","Matrix Group Name","Matrix Ranking?","Field Annotation"
|
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row,motor_trend_cars,,text,Name,,,,,,,,,,,,,
|
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mpg,motor_trend_cars,,text,"Miles/(US) gallon",,,number,,,,,,,,,,
|
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cyl,motor_trend_cars,,radio,"Number of cylinders","3, 3 | 4, 4 | 5, 5 | 6, 6 | 7, 7 | 8, 8",,,,,,,,,,,,
|
||||
disp,motor_trend_cars,,text,Displacement,,(cu.in.),number,,,,,,,,,,
|
||||
hp,motor_trend_cars,,text,"Gross horsepower",,,number,,,,,,,,,,
|
||||
drat,motor_trend_cars,,text,"Rear axle ratio",,,number,,,,,,,,,,
|
||||
wt,motor_trend_cars,,text,Weight,,"(1000 lbs)",number,,,,,,,,,,
|
||||
qsec,motor_trend_cars,,text,"1/4 mile time",,,number,,,,,,,,,,
|
||||
vs,motor_trend_cars,,yesno,"V engine?",,,,,,,,,,,,,
|
||||
am,motor_trend_cars,,dropdown,Transmission,"0, Automatic | 1, Manual"," (0 = automatic, 1 = manual)",,,,,,,,,,,
|
||||
gear,motor_trend_cars,,radio,"Number of forward gears","3, 3 | 4, 4 | 5, 5",,,,,,,,,,,,
|
||||
carb,motor_trend_cars,,radio,"Number of carburetors","1, 1 | 2, 2 | 3, 3 | 4, 4 | 5, 5 | 6, 6 | 7, 7 | 8, 8",,,,,,,,,,,,
|
||||
color_available,motor_trend_cars,,checkbox,"Colors Available","red, Red | green, Green | blue, Blue | black, Black",,,,,,,,,,,,
|
||||
letter_group,grouping,,checkbox,"Which group?","a, A | b, B | c, C",,,,,,,,,,,,
|
||||
choice,grouping,,radio,"Choose one","choice1, Choice 1 | choice2, Choice 2",,,,,,,,,,,,
|
||||
price,sale,,text,"Sale price",,,number_2dp,,,,,,,,,,
|
||||
color,sale,,dropdown,Color,"1, red | 2, green | 3, blue | 4, black",,,,,,,,,,,,
|
||||
customer,sale,,text,"Customer Name",,,,,,,,,RH,,,,
|
||||
|
77
R/tests/testthat/data/ExampleProject_R_2018-06-07_1129.r
Normal file
77
R/tests/testthat/data/ExampleProject_R_2018-06-07_1129.r
Normal file
|
|
@ -0,0 +1,77 @@
|
|||
REDCap_process_csv <- function(data) {
|
||||
#Load Hmisc library
|
||||
if (!require(Hmisc))
|
||||
stop("This test requires the 'Hmisc' package")
|
||||
|
||||
label(data$row)="Name"
|
||||
label(data$redcap_repeat_instrument)="Repeat Instrument"
|
||||
label(data$redcap_repeat_instance)="Repeat Instance"
|
||||
label(data$mpg)="Miles/(US) gallon"
|
||||
label(data$cyl)="Number of cylinders"
|
||||
label(data$disp)="Displacement"
|
||||
label(data$hp)="Gross horsepower"
|
||||
label(data$drat)="Rear axle ratio"
|
||||
label(data$wt)="Weight"
|
||||
label(data$qsec)="1/4 mile time"
|
||||
label(data$vs)="V engine?"
|
||||
label(data$am)="Transmission"
|
||||
label(data$gear)="Number of forward gears"
|
||||
label(data$carb)="Number of carburetors"
|
||||
label(data$color_available___red)="Colors Available (choice=Red)"
|
||||
label(data$color_available___green)="Colors Available (choice=Green)"
|
||||
label(data$color_available___blue)="Colors Available (choice=Blue)"
|
||||
label(data$color_available___black)="Colors Available (choice=Black)"
|
||||
label(data$motor_trend_cars_complete)="Complete?"
|
||||
label(data$letter_group___a)="Which group? (choice=A)"
|
||||
label(data$letter_group___b)="Which group? (choice=B)"
|
||||
label(data$letter_group___c)="Which group? (choice=C)"
|
||||
label(data$choice)="Choose one"
|
||||
label(data$grouping_complete)="Complete?"
|
||||
label(data$price)="Sale price"
|
||||
label(data$color)="Color"
|
||||
label(data$customer)="Customer Name"
|
||||
label(data$sale_complete)="Complete?"
|
||||
#Setting Units
|
||||
|
||||
|
||||
#Setting Factors(will create new variable for factors)
|
||||
data$redcap_repeat_instrument.factor = factor(data$redcap_repeat_instrument,levels=c("sale"))
|
||||
data$cyl.factor = factor(data$cyl,levels=c("3","4","5","6","7","8"))
|
||||
data$vs.factor = factor(data$vs,levels=c("1","0"))
|
||||
data$am.factor = factor(data$am,levels=c("0","1"))
|
||||
data$gear.factor = factor(data$gear,levels=c("3","4","5"))
|
||||
data$carb.factor = factor(data$carb,levels=c("1","2","3","4","5","6","7","8"))
|
||||
data$color_available___red.factor = factor(data$color_available___red,levels=c("0","1"))
|
||||
data$color_available___green.factor = factor(data$color_available___green,levels=c("0","1"))
|
||||
data$color_available___blue.factor = factor(data$color_available___blue,levels=c("0","1"))
|
||||
data$color_available___black.factor = factor(data$color_available___black,levels=c("0","1"))
|
||||
data$motor_trend_cars_complete.factor = factor(data$motor_trend_cars_complete,levels=c("0","1","2"))
|
||||
data$letter_group___a.factor = factor(data$letter_group___a,levels=c("0","1"))
|
||||
data$letter_group___b.factor = factor(data$letter_group___b,levels=c("0","1"))
|
||||
data$letter_group___c.factor = factor(data$letter_group___c,levels=c("0","1"))
|
||||
data$choice.factor = factor(data$choice,levels=c("choice1","choice2"))
|
||||
data$grouping_complete.factor = factor(data$grouping_complete,levels=c("0","1","2"))
|
||||
data$color.factor = factor(data$color,levels=c("1","2","3","4"))
|
||||
data$sale_complete.factor = factor(data$sale_complete,levels=c("0","1","2"))
|
||||
|
||||
levels(data$redcap_repeat_instrument.factor)=c("Sale")
|
||||
levels(data$cyl.factor)=c("3","4","5","6","7","8")
|
||||
levels(data$vs.factor)=c("Yes","No")
|
||||
levels(data$am.factor)=c("Automatic","Manual")
|
||||
levels(data$gear.factor)=c("3","4","5")
|
||||
levels(data$carb.factor)=c("1","2","3","4","5","6","7","8")
|
||||
levels(data$color_available___red.factor)=c("Unchecked","Checked")
|
||||
levels(data$color_available___green.factor)=c("Unchecked","Checked")
|
||||
levels(data$color_available___blue.factor)=c("Unchecked","Checked")
|
||||
levels(data$color_available___black.factor)=c("Unchecked","Checked")
|
||||
levels(data$motor_trend_cars_complete.factor)=c("Incomplete","Unverified","Complete")
|
||||
levels(data$letter_group___a.factor)=c("Unchecked","Checked")
|
||||
levels(data$letter_group___b.factor)=c("Unchecked","Checked")
|
||||
levels(data$letter_group___c.factor)=c("Unchecked","Checked")
|
||||
levels(data$choice.factor)=c("Choice 1","Choice 2")
|
||||
levels(data$grouping_complete.factor)=c("Incomplete","Unverified","Complete")
|
||||
levels(data$color.factor)=c("red","green","blue","black")
|
||||
levels(data$sale_complete.factor)=c("Incomplete","Unverified","Complete")
|
||||
|
||||
data
|
||||
}
|
||||
362
R/tests/testthat/data/ExampleProject_metadata.json
Normal file
362
R/tests/testthat/data/ExampleProject_metadata.json
Normal file
|
|
@ -0,0 +1,362 @@
|
|||
[
|
||||
{
|
||||
"field_name": "row",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "text",
|
||||
"field_label": "Name",
|
||||
"select_choices_or_calculations": "",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "mpg",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "text",
|
||||
"field_label": "Miles/(US) gallon",
|
||||
"select_choices_or_calculations": "",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "number",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "cyl",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "radio",
|
||||
"field_label": "Number of cylinders",
|
||||
"select_choices_or_calculations": "3, 3 | 4, 4 | 5, 5 | 6, 6 | 7, 7 | 8, 8",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "disp",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "text",
|
||||
"field_label": "Displacement",
|
||||
"select_choices_or_calculations": "",
|
||||
"field_note": "(cu.in.)",
|
||||
"text_validation_type_or_show_slider_number": "number",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "hp",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "text",
|
||||
"field_label": "Gross horsepower",
|
||||
"select_choices_or_calculations": "",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "number",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "drat",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "text",
|
||||
"field_label": "Rear axle ratio",
|
||||
"select_choices_or_calculations": "",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "number",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "wt",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "text",
|
||||
"field_label": "Weight",
|
||||
"select_choices_or_calculations": "",
|
||||
"field_note": "(1000 lbs)",
|
||||
"text_validation_type_or_show_slider_number": "number",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "qsec",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "text",
|
||||
"field_label": "1/4 mile time",
|
||||
"select_choices_or_calculations": "",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "number",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "vs",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "yesno",
|
||||
"field_label": "V engine?",
|
||||
"select_choices_or_calculations": "",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "am",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "dropdown",
|
||||
"field_label": "Transmission",
|
||||
"select_choices_or_calculations": "0, Automatic | 1, Manual",
|
||||
"field_note": " (0 = automatic, 1 = manual)",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "gear",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "radio",
|
||||
"field_label": "Number of forward gears",
|
||||
"select_choices_or_calculations": "3, 3 | 4, 4 | 5, 5",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "carb",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "radio",
|
||||
"field_label": "Number of carburetors",
|
||||
"select_choices_or_calculations": "1, 1 | 2, 2 | 3, 3 | 4, 4 | 5, 5 | 6, 6 | 7, 7 | 8, 8",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "color_available",
|
||||
"form_name": "motor_trend_cars",
|
||||
"section_header": "",
|
||||
"field_type": "checkbox",
|
||||
"field_label": "Colors Available",
|
||||
"select_choices_or_calculations": "red, Red | green, Green | blue, Blue | black, Black",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "letter_group",
|
||||
"form_name": "grouping",
|
||||
"section_header": "",
|
||||
"field_type": "checkbox",
|
||||
"field_label": "Which group?",
|
||||
"select_choices_or_calculations": "a, A | b, B | c, C",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "choice",
|
||||
"form_name": "grouping",
|
||||
"section_header": "",
|
||||
"field_type": "radio",
|
||||
"field_label": "Choose one",
|
||||
"select_choices_or_calculations": "choice1, Choice 1 | choice2, Choice 2",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "price",
|
||||
"form_name": "sale",
|
||||
"section_header": "",
|
||||
"field_type": "text",
|
||||
"field_label": "Sale price",
|
||||
"select_choices_or_calculations": "",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "number_2dp",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "color",
|
||||
"form_name": "sale",
|
||||
"section_header": "",
|
||||
"field_type": "dropdown",
|
||||
"field_label": "Color",
|
||||
"select_choices_or_calculations": "1, red | 2, green | 3, blue | 4, black",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
},
|
||||
{
|
||||
"field_name": "customer",
|
||||
"form_name": "sale",
|
||||
"section_header": "",
|
||||
"field_type": "text",
|
||||
"field_label": "Customer Name",
|
||||
"select_choices_or_calculations": "",
|
||||
"field_note": "",
|
||||
"text_validation_type_or_show_slider_number": "",
|
||||
"text_validation_min": "",
|
||||
"text_validation_max": "",
|
||||
"identifier": "",
|
||||
"branching_logic": "",
|
||||
"required_field": "",
|
||||
"custom_alignment": "RH",
|
||||
"question_number": "",
|
||||
"matrix_group_name": "",
|
||||
"matrix_ranking": "",
|
||||
"field_annotation": ""
|
||||
}
|
||||
]
|
||||
1352
R/tests/testthat/data/ExampleProject_records.json
Normal file
1352
R/tests/testthat/data/ExampleProject_records.json
Normal file
File diff suppressed because it is too large
Load Diff
32
R/tests/testthat/test-API.R
Normal file
32
R/tests/testthat/test-API.R
Normal file
|
|
@ -0,0 +1,32 @@
|
|||
context("Reading in JSON")
|
||||
|
||||
# Set up the path ----------------------------------------------------------
|
||||
|
||||
data_dir <- system.file("tests", "testthat", "data", package = "REDCapRITS")
|
||||
|
||||
# Check the RCurl export ---------------------------------------------------
|
||||
test_that("JSON character vector from RCurl matches reference", {
|
||||
|
||||
metadata <- jsonlite::fromJSON(
|
||||
file.path(
|
||||
data_dir,
|
||||
"ExampleProject_metadata.json"
|
||||
)
|
||||
)
|
||||
|
||||
records <- jsonlite::fromJSON(
|
||||
file.path(
|
||||
data_dir,
|
||||
"ExampleProject_records.json"
|
||||
)
|
||||
)
|
||||
|
||||
redcap_output_json1 <- REDCap_split(records, metadata)
|
||||
|
||||
expect_known_hash(redcap_output_json1, "2c8b6531597182af1248f92124161e0c")
|
||||
|
||||
})
|
||||
|
||||
# Check the httr export ---------------------------------------------------
|
||||
|
||||
# Something will go here.
|
||||
35
R/tests/testthat/test-csv-exports.R
Normal file
35
R/tests/testthat/test-csv-exports.R
Normal file
|
|
@ -0,0 +1,35 @@
|
|||
context("CSV Exports")
|
||||
|
||||
# Set up the path and data -------------------------------------------------
|
||||
|
||||
data_dir <- system.file("tests", "testthat", "data", package = "REDCapRITS")
|
||||
|
||||
metadata <- read.csv(
|
||||
file.path(
|
||||
data_dir,
|
||||
"ExampleProject_DataDictionary_2018-06-07.csv"
|
||||
)
|
||||
)
|
||||
|
||||
records <- read.csv(
|
||||
file.path(
|
||||
data_dir,
|
||||
"ExampleProject_DATA_2018-06-07_1129.csv"
|
||||
)
|
||||
)
|
||||
|
||||
# Test that basic CSV export matches reference ------------------------------
|
||||
test_that("CSV export matches reference", {
|
||||
redcap_output_csv1 <- REDCap_split(records, metadata)
|
||||
|
||||
expect_known_hash(redcap_output_csv1, "f74558d1939c17d9ff0e08a19b956e26")
|
||||
})
|
||||
|
||||
# Test that R code enhanced CSV export matches reference --------------------
|
||||
test_that("R code enhanced export matches reference", {
|
||||
source(file.path(data_dir, "ExampleProject_R_2018-06-07_1129.r"))
|
||||
|
||||
redcap_output_csv2 <- REDCap_split(REDCap_process_csv(records), metadata)
|
||||
|
||||
expect_known_hash(redcap_output_csv2, "34f82cab35bf8aae47d08cd96f743e6b")
|
||||
})
|
||||
Loading…
Reference in New Issue
Block a user