Commit ⋅ OuhscBbmc/REDCapR

#' [POSIXct](https://stat.ethz.ch/R-manual/R-devel/library/base/html/as.POSIXlt.html)
#' value.
#' If not specified, REDCap will assume no end time.
#' @param blank_for_gray_form_status A boolean value that specifies whether
#' or not to export blank values for instrument complete status fields that have
#' a gray status icon. All instrument complete status fields having a gray icon
#' can be exported either as a blank value or as "0" (Incomplete). Blank values
#' are recommended in a data export if the data will be re-imported into a
#' REDCap project. Default is `FALSE`.
#'
#' @param col_types A [readr::cols()] object passed internally to
#' [readr::read_csv()].  Optional.
#' @param guess_type A boolean value indicating if all columns should be

@@ -196,6 +203,7 @@

  filter_logic                  = "",
  datetime_range_begin          = as.POSIXct(NA),
  datetime_range_end            = as.POSIXct(NA),
  blank_for_gray_form_status    = FALSE,

  col_types                     = NULL,
  guess_type                    = TRUE,

@@ -227,6 +235,7 @@

  checkmate::assert_logical(  export_data_access_groups , any.missing=FALSE,     len=1)
  checkmate::assert_posixct(  datetime_range_begin      , any.missing=TRUE , len=1, null.ok=TRUE)
  checkmate::assert_posixct(  datetime_range_end        , any.missing=TRUE , len=1, null.ok=TRUE)
  checkmate::assert_logical( blank_for_gray_form_status , any.missing=FALSE, len=1)

  checkmate::assert_logical(  guess_type                , any.missing=FALSE,     len=1)
  if (!is.null(guess_max)) warning("The `guess_max` parameter in `REDCapR::redcap_read()` is deprecated.")

@@ -278,6 +287,7 @@

    filter_logic       = filter_logic,
    datetime_range_begin   = datetime_range_begin,
    datetime_range_end     = datetime_range_end,
    blank_for_gray_form_status = blank_for_gray_form_status,
    guess_type         = guess_type,
    http_response_encoding = http_response_encoding,
    locale             = locale,

@@ -352,6 +362,7 @@

      filter_logic                = filter_logic,
      datetime_range_begin        = datetime_range_begin,
      datetime_range_end          = datetime_range_end,
      blank_for_gray_form_status  = blank_for_gray_form_status,

      col_types                   = col_types,
      guess_type                  = FALSE,

@@ -55,6 +55,12 @@

#' (https://stat.ethz.ch/R-manual/R-devel/library/base/html/as.POSIXlt.html)
#' value.
#' If not specified, REDCap will assume no end time.
#' @param blank_for_gray_form_status A boolean value that specifies whether
#' or not to export blank values for instrument complete status fields that have
#' a gray status icon. All instrument complete status fields having a gray icon
#' can be exported either as a blank value or as "0" (Incomplete). Blank values
#' are recommended in a data export if the data will be re-imported into a
#' REDCap project. Default is `FALSE`.
#'
#' @param verbose A boolean value indicating if `message`s should be printed
#' to the R console during the operation.  The verbose output might contain

@@ -155,6 +161,7 @@

  filter_logic                  = "",
  datetime_range_begin          = as.POSIXct(NA),
  datetime_range_end            = as.POSIXct(NA),
  blank_for_gray_form_status    = FALSE,

  # placeholder: guess_type
  # placeholder: guess_max

@@ -183,6 +190,7 @@

  checkmate::assert_character(filter_logic              , any.missing=FALSE, len=1, pattern="^.{0,}$")
  checkmate::assert_posixct(  datetime_range_begin      , any.missing=TRUE , len=1, null.ok=TRUE)
  checkmate::assert_posixct(  datetime_range_end        , any.missing=TRUE , len=1, null.ok=TRUE)
  checkmate::assert_logical( blank_for_gray_form_status , any.missing=FALSE, len=1)

  # placeholder: checkmate::assert_logical(  guess_type                , any.missing=FALSE, len=1)
  # placeholder: checkmate::assert_integerish(guess_max                , any.missing=FALSE, len=1, lower=1)

@@ -215,7 +223,8 @@

    exportDataAccessGroups  = export_data_access_groups,
    filterLogic             = filter_logic,
    dateRangeBegin          = datetime_range_begin,
    dateRangeEnd            = datetime_range_end
    dateRangeEnd            = datetime_range_end,
    exportBlankForGrayFormStatus = blank_for_gray_form_status
    # record, fields, forms & events are specified below
  )


@@ -58,6 +58,13 @@

#' [POSIXct](https://stat.ethz.ch/R-manual/R-devel/library/base/html/as.POSIXlt.html)
#' value.
#' If not specified, REDCap will assume no end time.
#' @param blank_for_gray_form_status A boolean value that specifies whether
#' or not to export blank values for instrument complete status fields that have
#' a gray status icon. All instrument complete status fields having a gray icon
#' can be exported either as a blank value or as "0" (Incomplete). Blank values
#' are recommended in a data export if the data will be re-imported into a
#' REDCap project. Default is `FALSE`.
#'
#' @param col_types A [readr::cols()] object passed internally to
#' [readr::read_csv()].  Optional.
#' @param guess_type A boolean value indicating if all columns should be

@@ -181,6 +188,7 @@

  filter_logic                  = "",
  datetime_range_begin          = as.POSIXct(NA),
  datetime_range_end            = as.POSIXct(NA),
  blank_for_gray_form_status    = FALSE,

  col_types                     = NULL,
  guess_type                    = TRUE,

@@ -212,6 +220,7 @@

  checkmate::assert_character(filter_logic              , any.missing=FALSE, len=1, pattern="^.{0,}$")
  checkmate::assert_posixct(  datetime_range_begin      , any.missing=TRUE , len=1, null.ok=TRUE)
  checkmate::assert_posixct(  datetime_range_end        , any.missing=TRUE , len=1, null.ok=TRUE)
  checkmate::assert_logical( blank_for_gray_form_status , any.missing=FALSE, len=1)

  checkmate::assert_logical(  guess_type                , any.missing=FALSE, len=1)
  checkmate::assert_integerish(guess_max                , any.missing=FALSE, len=1, lower=1)

@@ -249,7 +258,8 @@

    exportDataAccessGroups  = tolower(as.character(export_data_access_groups)),
    filterLogic             = filter_logic,
    dateRangeBegin          = datetime_range_begin,
    dateRangeEnd            = datetime_range_end
    dateRangeEnd            = datetime_range_end,
    exportBlankForGrayFormStatus = blank_for_gray_form_status
    # record, fields, forms & events are specified below
  )


Files		•	•	•	Coverage
R	2,041	1,955	0	86	95.79%
Project Totals (38 files)	2,041	1,955	0	86	95.79%

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comment: false

coverage:
  status:
    project:
      default:
        target: auto
        threshold: 3%
    patch:
      default:
        target: auto
        threshold: 3%

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196	203		filter_logic = "",
197	204		datetime_range_begin = as.POSIXct(NA),
198	205		datetime_range_end = as.POSIXct(NA),
	206	+	blank_for_gray_form_status = FALSE,
199	207
200	208		col_types = NULL,
201	209		guess_type = TRUE,

227	235		checkmate::assert_logical( export_data_access_groups , any.missing=FALSE, len=1)
228	236		checkmate::assert_posixct( datetime_range_begin , any.missing=TRUE , len=1, null.ok=TRUE)
229	237		checkmate::assert_posixct( datetime_range_end , any.missing=TRUE , len=1, null.ok=TRUE)
	238	+	checkmate::assert_logical( blank_for_gray_form_status , any.missing=FALSE, len=1)
230	239
231	240		checkmate::assert_logical( guess_type , any.missing=FALSE, len=1)
232	241		if (!is.null(guess_max)) warning("The `guess_max` parameter in `REDCapR::redcap_read()` is deprecated.")

278	287		filter_logic = filter_logic,
279	288		datetime_range_begin = datetime_range_begin,
280	289		datetime_range_end = datetime_range_end,
	290	+	blank_for_gray_form_status = blank_for_gray_form_status,
281	291		guess_type = guess_type,
282	292		http_response_encoding = http_response_encoding,
283	293		locale = locale,

352	362		filter_logic = filter_logic,
353	363		datetime_range_begin = datetime_range_begin,
354	364		datetime_range_end = datetime_range_end,
	365	+	blank_for_gray_form_status = blank_for_gray_form_status,
355	366
356	367		col_types = col_types,
357	368		guess_type = FALSE,

155	161		filter_logic = "",
156	162		datetime_range_begin = as.POSIXct(NA),
157	163		datetime_range_end = as.POSIXct(NA),
	164	+	blank_for_gray_form_status = FALSE,
158	165
159	166		# placeholder: guess_type
160	167		# placeholder: guess_max

71	71		#' [POSIXct](https://stat.ethz.ch/R-manual/R-devel/library/base/html/as.POSIXlt.html)
72	72		#' value.
73	73		#' If not specified, REDCap will assume no end time.
	74	+	#' @param blank_for_gray_form_status A boolean value that specifies whether
	75	+	#' or not to export blank values for instrument complete status fields that have
	76	+	#' a gray status icon. All instrument complete status fields having a gray icon
	77	+	#' can be exported either as a blank value or as "0" (Incomplete). Blank values
	78	+	#' are recommended in a data export if the data will be re-imported into a
	79	+	#' REDCap project. Default is `FALSE`.
	80	+	#'
74	81		#' @param col_types A [readr::cols()] object passed internally to
75	82		#' [readr::read_csv()]. Optional.
76	83		#' @param guess_type A boolean value indicating if all columns should be

55	55		#' (https://stat.ethz.ch/R-manual/R-devel/library/base/html/as.POSIXlt.html)
56	56		#' value.
57	57		#' If not specified, REDCap will assume no end time.
	58	+	#' @param blank_for_gray_form_status A boolean value that specifies whether
	59	+	#' or not to export blank values for instrument complete status fields that have
	60	+	#' a gray status icon. All instrument complete status fields having a gray icon
	61	+	#' can be exported either as a blank value or as "0" (Incomplete). Blank values
	62	+	#' are recommended in a data export if the data will be re-imported into a
	63	+	#' REDCap project. Default is `FALSE`.
58	64		#'
59	65		#' @param verbose A boolean value indicating if `message`s should be printed
60	66		#' to the R console during the operation. The verbose output might contain

183	190		checkmate::assert_character(filter_logic , any.missing=FALSE, len=1, pattern="^.{0,}$")
184	191		checkmate::assert_posixct( datetime_range_begin , any.missing=TRUE , len=1, null.ok=TRUE)
185	192		checkmate::assert_posixct( datetime_range_end , any.missing=TRUE , len=1, null.ok=TRUE)
	193	+	checkmate::assert_logical( blank_for_gray_form_status , any.missing=FALSE, len=1)
186	194
187	195		# placeholder: checkmate::assert_logical( guess_type , any.missing=FALSE, len=1)
188	196		# placeholder: checkmate::assert_integerish(guess_max , any.missing=FALSE, len=1, lower=1)

215	223		exportDataAccessGroups = export_data_access_groups,
216	224		filterLogic = filter_logic,
217	225		dateRangeBegin = datetime_range_begin,
218		-	dateRangeEnd = datetime_range_end
	226	+	dateRangeEnd = datetime_range_end,
	227	+	exportBlankForGrayFormStatus = blank_for_gray_form_status
219	228		# record, fields, forms & events are specified below
220	229		)
221	230

249	258		exportDataAccessGroups = tolower(as.character(export_data_access_groups)),
250	259		filterLogic = filter_logic,
251	260		dateRangeBegin = datetime_range_begin,
252		-	dateRangeEnd = datetime_range_end
	261	+	dateRangeEnd = datetime_range_end,
	262	+	exportBlankForGrayFormStatus = blank_for_gray_form_status
253	263		# record, fields, forms & events are specified below
254	264		)
255	265

1	comment: false
2
3	coverage:
4	status:
5	project:
6	default:
7	target: auto
8	threshold: 3%
9	patch:
10	default:
11	target: auto
12	threshold: 3%

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