first submission attempt

.Rbuildignore

@@ -12,3 +12,4 @@
 ^LICENSE\.md$
 ^logo\.R$
 ^cran-comments\.md$
+^CRAN-SUBMISSION$

CRAN-SUBMISSION

@@ -0,0 +1,3 @@
+Version: 23.6.1
+Date: 2023-06-02 12:31:16 UTC
+SHA: 32bab4ea0ba141061f613a880aa8239c559fba43

DESCRIPTION

@@ -5,19 +5,20 @@ Authors@R: c(
     person("Andreas Gammelgaard", "Damsbo", email = "agdamsbo@clin.au.dk", role = c("aut", "cre"),
            comment = c(ORCID = "0000-0002-7559-1154")),
            person("Paul", "Egeler", email = "paul.egeler@spectrumhealth.org", role = "aut"))
-Description: Forked from REDCapRITS by Paul Egeler and Spectrum Health. 
+Description: Forked from 'REDCapRITS' by Paul Egeler and Spectrum Health. 
     See <https://github.com/SpectrumHealthResearch/REDCapRITS>.
-    Handles castellated datasets from REDCap projects with repeating instruments. 
+    Handles castellated datasets from 'REDCap' projects with repeating instruments. 
-    Assists in splitting raw REDCap data exports to base table and child tables 
+    Assists in casting tidy tables from raw 'REDCap' data exports for each 
-    for each repeated instrument. Keeps a focused data export approach, by
+    repeated instrument. Keeps a focused data export approach, by allowing to 
-    allowing to only export required data from the database.
+    only export required data from the database.
-    REDCap (Research Electronic Data Capture) is a secure, web-based software
+    'REDCap' (Research Electronic Data Capture) is a secure, web-based software
     platform designed to support data capture for research studies, providing
     1) an intuitive interface for validated data capture; 2) audit trails for
     tracking data manipulation and export procedures; 3) automated export
     procedures for seamless data downloads to common statistical packages; and
     4) procedures for data integration and interoperability with external sources
-    (<doi:10.1016/j.jbi.2008.08.010>; <doi:10.1016/j.jbi.2019.103208>).
+    (Harris et al (2009) <doi:10.1016/j.jbi.2008.08.010>; 
+    Harris et al (2019) <doi:10.1016/j.jbi.2019.103208>).
 Depends: R (>= 3.4.0)
 Suggests:
     spelling,

R/REDCap_split.r

@@ -58,17 +58,19 @@
 #'
 #' # You must set the working directory first since the REDCap data export
 #' # script contains relative file references.
+#' old <- getwd()
 #' setwd("/path/to/data/")
 #'
 #' # Run the data export script supplied by REDCap.
 #' # This will create a data.frame of your records called 'data'
 #' source("ExampleProject_R_2018-06-03_1700.r")
 #'
-#' # Get the metadata
+#' # Get the metadatan
 #' metadata <- read.csv("ExampleProject_DataDictionary_2018-06-03.csv")
 #'
 #' # Split the tables
 #' REDCapRITS::REDCap_split(data, metadata)
+#' setwd(old)
 #' }
 #' @return A list of \code{"data.frame"}s. The number of tables will differ
 #'   depending on the \code{forms} option selected.

docs/articles/Introduction.html

@@ -98,23 +98,23 @@ demonstration of the functions.</p>
 </h2>
 <div class="sourceCode" id="cb2"><pre class="downlit sourceCode r">
 <code class="sourceCode R"><span><span class="va">redcapcast_data</span> <span class="op">|&gt;</span> <span class="fu">gt</span><span class="fu">::</span><span class="fu"><a href="https://gt.rstudio.com/reference/gt.html" class="external-link">gt</a></span><span class="op">(</span><span class="op">)</span></span></code></pre></div>
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@@ -1001,23 +1001,23 @@ demonstration of the functions.</p>
 </div>
 <div class="sourceCode" id="cb3"><pre class="downlit sourceCode r">
 <code class="sourceCode R"><span><span class="va">redcapcast_meta</span> <span class="op">|&gt;</span> <span class="fu">gt</span><span class="fu">::</span><span class="fu"><a href="https://gt.rstudio.com/reference/gt.html" class="external-link">gt</a></span><span class="op">(</span><span class="op">)</span></span></code></pre></div>
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   padding-left: 5px;
@@ -1323,11 +1323,11 @@ demonstration of the functions.</p>
   border-bottom-color: #D3D3D3;
 }
 
-#howggqvkiz .gt_striped {
+#gzbgzhlwxt .gt_striped {
   background-color: rgba(128, 128, 128, 0.05);
 }
 
-#howggqvkiz .gt_table_body {
+#gzbgzhlwxt .gt_table_body {
   border-top-style: solid;
   border-top-width: 2px;
   border-top-color: #D3D3D3;
@@ -1336,7 +1336,7 @@ demonstration of the functions.</p>
   border-bottom-color: #D3D3D3;
 }
 
-#howggqvkiz .gt_footnotes {
+#gzbgzhlwxt .gt_footnotes {
   color: #333333;
   background-color: #FFFFFF;
   border-bottom-style: none;
@@ -1350,7 +1350,7 @@ demonstration of the functions.</p>
   border-right-color: #D3D3D3;
 }
 
-#howggqvkiz .gt_footnote {
+#gzbgzhlwxt .gt_footnote {
   margin: 0px;
   font-size: 90%;
   padding-top: 4px;
@@ -1359,7 +1359,7 @@ demonstration of the functions.</p>
   padding-right: 5px;
 }
 
-#howggqvkiz .gt_sourcenotes {
+#gzbgzhlwxt .gt_sourcenotes {
   color: #333333;
   background-color: #FFFFFF;
   border-bottom-style: none;
@@ -1373,7 +1373,7 @@ demonstration of the functions.</p>
   border-right-color: #D3D3D3;
 }
 
-#howggqvkiz .gt_sourcenote {
+#gzbgzhlwxt .gt_sourcenote {
   font-size: 90%;
   padding-top: 4px;
   padding-bottom: 4px;
@@ -1381,63 +1381,63 @@ demonstration of the functions.</p>
   padding-right: 5px;
 }
 
-#howggqvkiz .gt_left {
+#gzbgzhlwxt .gt_left {
   text-align: left;
 }
 
-#howggqvkiz .gt_center {
+#gzbgzhlwxt .gt_center {
   text-align: center;
 }
 
-#howggqvkiz .gt_right {
+#gzbgzhlwxt .gt_right {
   text-align: right;
   font-variant-numeric: tabular-nums;
 }
 
-#howggqvkiz .gt_font_normal {
+#gzbgzhlwxt .gt_font_normal {
   font-weight: normal;
 }
 
-#howggqvkiz .gt_font_bold {
+#gzbgzhlwxt .gt_font_bold {
   font-weight: bold;
 }
 
-#howggqvkiz .gt_font_italic {
+#gzbgzhlwxt .gt_font_italic {
   font-style: italic;
 }
 
-#howggqvkiz .gt_super {
+#gzbgzhlwxt .gt_super {
   font-size: 65%;
 }
 
-#howggqvkiz .gt_footnote_marks {
+#gzbgzhlwxt .gt_footnote_marks {
   font-size: 75%;
   vertical-align: 0.4em;
   position: initial;
 }
 
-#howggqvkiz .gt_asterisk {
+#gzbgzhlwxt .gt_asterisk {
   font-size: 100%;
   vertical-align: 0;
 }
 
-#howggqvkiz .gt_indent_1 {
+#gzbgzhlwxt .gt_indent_1 {
   text-indent: 5px;
 }
 
-#howggqvkiz .gt_indent_2 {
+#gzbgzhlwxt .gt_indent_2 {
   text-indent: 10px;
 }
 
-#howggqvkiz .gt_indent_3 {
+#gzbgzhlwxt .gt_indent_3 {
   text-indent: 15px;
 }
 
-#howggqvkiz .gt_indent_4 {
+#gzbgzhlwxt .gt_indent_4 {
   text-indent: 20px;
 }
 
-#howggqvkiz .gt_indent_5 {
+#gzbgzhlwxt .gt_indent_5 {
   text-indent: 25px;
 }
 </style>

docs/index.html

@@ -8,16 +8,17 @@
 <meta name="description" content="Forked from REDCapRITS by Paul Egeler and Spectrum Health. 
     See &lt;https://github.com/SpectrumHealthResearch/REDCapRITS&gt;.
     Handles castellated datasets from REDCap projects with repeating instruments. 
-    Assists in splitting raw REDCap data exports to base table and child tables 
+    Assists in casting tidy tables from raw REDCap data exports for each 
-    for each repeated instrument. Keeps a focused data export approach, by
+    repeated instrument. Keeps a focused data export approach, by allowing to 
-    allowing to only export required data from the database.
+    only export required data from the database.
     REDCap (Research Electronic Data Capture) is a secure, web-based software
     platform designed to support data capture for research studies, providing
     1) an intuitive interface for validated data capture; 2) audit trails for
     tracking data manipulation and export procedures; 3) automated export
     procedures for seamless data downloads to common statistical packages; and
     4) procedures for data integration and interoperability with external sources
-    (&lt;doi:10.1016/j.jbi.2008.08.010&gt;; &lt;doi:10.1016/j.jbi.2019.103208&gt;).">
+    (Harris et al (2009) &lt;doi:10.1016/j.jbi.2008.08.010&gt;; 
+    Harris et al (2019) &lt;doi:10.1016/j.jbi.2019.103208&gt;).">
 <title>REDCap Castellated Data Handling • REDCapCAST</title>
 <!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="favicon-16x16.png">
 <link rel="icon" type="image/png" sizes="32x32" href="favicon-32x32.png">
@@ -33,16 +34,17 @@
 <meta property="og:description" content="Forked from REDCapRITS by Paul Egeler and Spectrum Health. 
     See &lt;https://github.com/SpectrumHealthResearch/REDCapRITS&gt;.
     Handles castellated datasets from REDCap projects with repeating instruments. 
-    Assists in splitting raw REDCap data exports to base table and child tables 
+    Assists in casting tidy tables from raw REDCap data exports for each 
-    for each repeated instrument. Keeps a focused data export approach, by
+    repeated instrument. Keeps a focused data export approach, by allowing to 
-    allowing to only export required data from the database.
+    only export required data from the database.
     REDCap (Research Electronic Data Capture) is a secure, web-based software
     platform designed to support data capture for research studies, providing
     1) an intuitive interface for validated data capture; 2) audit trails for
     tracking data manipulation and export procedures; 3) automated export
     procedures for seamless data downloads to common statistical packages; and
     4) procedures for data integration and interoperability with external sources
-    (&lt;doi:10.1016/j.jbi.2008.08.010&gt;; &lt;doi:10.1016/j.jbi.2019.103208&gt;).">
+    (Harris et al (2009) &lt;doi:10.1016/j.jbi.2008.08.010&gt;; 
+    Harris et al (2019) &lt;doi:10.1016/j.jbi.2019.103208&gt;).">
 <meta property="og:image" content="/logo.png">
 <!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
 <script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>

docs/pkgdown.yml

@@ -3,5 +3,5 @@ pkgdown: 2.0.7
 pkgdown_sha: ~
 articles:
   Introduction: Introduction.html
-last_built: 2023-06-02T12:29Z
+last_built: 2023-06-05T06:39Z
 

docs/reference/REDCap_split.html

@@ -156,17 +156,19 @@ instruments only or for all forms.</p></dd>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># You must set the working directory first since the REDCap data export</span></span></span>
 <span class="r-in"><span><span class="co"># script contains relative file references.</span></span></span>
+<span class="r-in"><span><span class="va">old</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/getwd.html" class="external-link">getwd</a></span><span class="op">(</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/getwd.html" class="external-link">setwd</a></span><span class="op">(</span><span class="st">"/path/to/data/"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Run the data export script supplied by REDCap.</span></span></span>
 <span class="r-in"><span><span class="co"># This will create a data.frame of your records called 'data'</span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/source.html" class="external-link">source</a></span><span class="op">(</span><span class="st">"ExampleProject_R_2018-06-03_1700.r"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="co"># Get the metadata</span></span></span>
+<span class="r-in"><span><span class="co"># Get the metadatan</span></span></span>
 <span class="r-in"><span><span class="va">metadata</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/utils/read.table.html" class="external-link">read.csv</a></span><span class="op">(</span><span class="st">"ExampleProject_DataDictionary_2018-06-03.csv"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Split the tables</span></span></span>
 <span class="r-in"><span><span class="fu">REDCapRITS</span><span class="fu">::</span><span class="fu">REDCap_split</span><span class="op">(</span><span class="va">data</span>, <span class="va">metadata</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/getwd.html" class="external-link">setwd</a></span><span class="op">(</span><span class="va">old</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
 </code></pre></div>
     </div>

inst/WORDLIST

@@ -12,12 +12,14 @@ REDCap
 REDCapR
 REDCapRITS
 SpectrumHealthResearch
+al
 api
 demonstrational
 descirption
 desireable
 doi
 dplyr
+et
 immprovements
 jbi
 mRS
@@ -28,44 +30,3 @@ og
 thorugh
 tidyverse
 uri
-agdamsbo
-Andreas
-au
-aut
-BugReports
-clin
-covr
-cre
-Damsbo
-dk
-doi
-dplyr
-egeler
-Egeler
-Gammelgaard
-github
-Hmisc
-https
-httr
-jbi
-jsonlite
-keyring
-knitr
-LazyData
-ORCID
-paul
-RCurl
-readr
-REDCap,49
-redcapcast
-REDCapCAST
-REDCapR
-REDCapRITS
-rmarkdown
-RoxygenNote
-spectrumhealth
-SpectrumHealthResearch
-testthat
-tidyr
-tidyselect
-VignetteBuilder

man/REDCap_split.Rd

@@ -84,17 +84,19 @@ REDCapRITS::REDCap_split(records, metadata)
 
 # You must set the working directory first since the REDCap data export
 # script contains relative file references.
+old <- getwd()
 setwd("/path/to/data/")
 
 # Run the data export script supplied by REDCap.
 # This will create a data.frame of your records called 'data'
 source("ExampleProject_R_2018-06-03_1700.r")
 
-# Get the metadata
+# Get the metadatan
 metadata <- read.csv("ExampleProject_DataDictionary_2018-06-03.csv")
 
 # Split the tables
 REDCapRITS::REDCap_split(data, metadata)
+setwd(old)
 }
 }
 \author{