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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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@@ -140,12 +140,12 @@ demonstration of the functions.</p>
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@@ -299,15 +299,15 @@ demonstration of the functions.</p>
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@@ -1020,23 +1020,23 @@ 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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   font-size: 75%;
   vertical-align: 0.4em;
   position: initial;
 }
 
-#ajhefpurhk .gt_asterisk {
+#lpuybuuknr .gt_asterisk {
   font-size: 100%;
   vertical-align: 0;
 }
 
-#ajhefpurhk .gt_indent_1 {
+#lpuybuuknr .gt_indent_1 {
   text-indent: 5px;
 }
 
-#ajhefpurhk .gt_indent_2 {
+#lpuybuuknr .gt_indent_2 {
   text-indent: 10px;
 }
 
-#ajhefpurhk .gt_indent_3 {
+#lpuybuuknr .gt_indent_3 {
   text-indent: 15px;
 }
 
-#ajhefpurhk .gt_indent_4 {
+#lpuybuuknr .gt_indent_4 {
   text-indent: 20px;
 }
 
-#ajhefpurhk .gt_indent_5 {
+#lpuybuuknr .gt_indent_5 {
   text-indent: 25px;
 }
 </style>

news/index.html

@@ -56,9 +56,10 @@
 <h4 id="functions-24-2-1">Functions<a class="anchor" aria-label="anchor" href="#functions-24-2-1"></a></h4>
 <ul><li><p>Fix: <code><a href="../reference/ds2dd.html">ds2dd()</a></code>: uses correct default dd column names. Will be deprecated.</p></li>
 <li><p>Fix: <code><a href="../reference/easy_redcap.html">easy_redcap()</a></code>: fixed to actually allow project naming. also specifically asks for uri.</p></li>
+<li><p>Fix: <code><a href="../reference/read_redcap_tables.html">read_redcap_tables()</a></code>: now handles non-longitudinal project without repeatable instruments.</p></li>
 <li><p>NEW: <code><a href="../reference/ds2dd_detailed.html">ds2dd_detailed()</a></code>: extension of the <code><a href="../reference/ds2dd.html">ds2dd()</a></code>, which serves to preserve as much metadata as possible automatically. Depends on a group of helper functions also introduced. Of special note is the <code><a href="../reference/guess_time_only_filter.html">guess_time_only_filter()</a></code>, which will try to guess which columns/variables should be formatted as time only formats. Supports hms time format. DETAILED INSTRUCTION AND VIGNETTE IS PENDING.</p></li>
 <li><p>NEW: <code><a href="../reference/read_redcap_instrument.html">read_redcap_instrument()</a></code> convenience function to retrieve complete instrument. Goes a little against the focused approach. DETAILED INSTRUCTION IS PENDING.</p></li>
-<li><p>NEW: <code><a href="../reference/ds2ical.html">ds2ical()</a></code> converts data set to ical format with easy glue string for summary and description. Export ics file with <code><a href="https://rdrr.io/pkg/calendar/man/ic_write.html" class="external-link">calendar::ic_write()</a></code>.</p></li>
+<li><p>NEW: <code><a href="../reference/ds2ical.html">ds2ical()</a></code> converts data set to ical format with easy glue string for summary and description. Export .ics file with <code><a href="https://rdrr.io/pkg/calendar/man/ic_write.html" class="external-link">calendar::ic_write()</a></code>.</p></li>
 </ul></div>
 <div class="section level4">
 <h4 id="other-24-2-1">Other<a class="anchor" aria-label="anchor" href="#other-24-2-1"></a></h4>

pkgdown.yml

@@ -3,7 +3,7 @@ pkgdown: 2.0.7
 pkgdown_sha: ~
 articles:
   Introduction: Introduction.html
-last_built: 2024-02-05T13:58Z
+last_built: 2024-02-05T20:45Z
 urls:
   reference: https://agdamsbo.github.io/REDCapCAST/reference
   article: https://agdamsbo.github.io/REDCapCAST/articles

reference/ds2ical.html

@@ -59,11 +59,11 @@
     <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
     <div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">ds2ical</span><span class="op">(</span></span>
 <span>  <span class="va">data</span>,</span>
-<span>  <span class="va">start</span>,</span>
+<span>  start <span class="op">=</span> <span class="va">start</span>,</span>
-<span>  <span class="va">location</span>,</span>
+<span>  end <span class="op">=</span> <span class="va">end</span>,</span>
+<span>  location <span class="op">=</span> <span class="va">location</span>,</span>
 <span>  summary.glue.string <span class="op">=</span> <span class="st">"ID {id} [{assessor}]"</span>,</span>
-<span>  description.glue.string <span class="op">=</span> <span class="cn">NULL</span>,</span>
+<span>  description.glue.string <span class="op">=</span> <span class="cn">NULL</span></span>
-<span>  event.length <span class="op">=</span> <span class="fu">lubridate</span><span class="fu">::</span><span class="fu"><a href="https://lubridate.tidyverse.org/reference/period.html" class="external-link">hours</a></span><span class="op">(</span><span class="fl">2</span><span class="op">)</span></span>
 <span><span class="op">)</span></span></code></pre></div>
     </div>
 
@@ -74,11 +74,15 @@
 
 
 <dt>start</dt>
-<dd><p>event start column</p></dd>
+<dd><p>dplyr style event start datetime column name</p></dd>
+
+
+<dt>end</dt>
+<dd><p>dplyr style event end datetime column name</p></dd>
 
 
 <dt>location</dt>
-<dd><p>event location column</p></dd>
+<dd><p>dplyr style event location column name</p></dd>
 
 
 <dt>summary.glue.string</dt>
@@ -90,11 +94,6 @@ name (summary). Can take any column from data set.</p></dd>
 <dd><p>character string to pass to glue::glue() for
 event description. Can take any column from data set.</p></dd>
 
-
-<dt>event.length</dt>
-<dd><p>use lubridate functions to generate "Period" class
-element (default is lubridate::hours(2))</p></dd>
-
 </dl></div>
     <div class="section level2">
     <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
@@ -106,22 +105,22 @@ element (default is lubridate::hours(2))</p></dd>
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
     <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="va">df</span> <span class="op">&lt;-</span> <span class="fu">dplyr</span><span class="fu">::</span><span class="fu"><a href="https://tibble.tidyverse.org/reference/tibble.html" class="external-link">tibble</a></span><span class="op">(</span>start <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/Sys.time.html" class="external-link">Sys.time</a></span><span class="op">(</span><span class="op">)</span>, <span class="fu"><a href="https://rdrr.io/r/base/Sys.time.html" class="external-link">Sys.time</a></span><span class="op">(</span><span class="op">)</span> <span class="op">+</span> <span class="fu">lubridate</span><span class="fu">::</span><span class="fu"><a href="https://lubridate.tidyverse.org/reference/period.html" class="external-link">days</a></span><span class="op">(</span><span class="fl">2</span><span class="op">)</span><span class="op">)</span>,</span></span>
-<span class="r-in"><span>id <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"1"</span>, <span class="fl">3</span><span class="op">)</span>, assessor <span class="op">=</span> <span class="st">"A"</span>, location <span class="op">=</span> <span class="st">"111"</span>, note <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="cn">NA</span>, <span class="st">"OBS"</span><span class="op">)</span><span class="op">)</span></span></span>
+<span class="r-in"><span>id <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"1"</span>, <span class="fl">3</span><span class="op">)</span>, assessor <span class="op">=</span> <span class="st">"A"</span>, location <span class="op">=</span> <span class="st">"111"</span>, note <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="cn">NA</span>, <span class="st">"OBS"</span><span class="op">)</span><span class="op">)</span> <span class="op">|&gt;</span></span></span>
-<span class="r-in"><span><span class="va">df</span> <span class="op">|&gt;</span> <span class="fu">ds2ical</span><span class="op">(</span><span class="va">start</span>, <span class="va">location</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="fu">dplyr</span><span class="fu">::</span><span class="fu"><a href="https://dplyr.tidyverse.org/reference/mutate.html" class="external-link">mutate</a></span><span class="op">(</span>end<span class="op">=</span> <span class="va">start</span><span class="op">+</span><span class="fu">lubridate</span><span class="fu">::</span><span class="fu"><a href="https://lubridate.tidyverse.org/reference/period.html" class="external-link">hours</a></span><span class="op">(</span><span class="fl">2</span><span class="op">)</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="va">df</span> <span class="op">|&gt;</span> <span class="fu">ds2ical</span><span class="op">(</span><span class="op">)</span></span></span>
 <span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #949494;"># A tibble: 2 × 5</span></span>
 <span class="r-out co"><span class="r-pr">#&gt;</span>   SUMMARY  DTSTART             DTEND               LOCATION UID                 </span>
 <span class="r-out co"><span class="r-pr">#&gt;</span>   <span style="color: #949494; font-style: italic;">&lt;glue&gt;</span>   <span style="color: #949494; font-style: italic;">&lt;dttm&gt;</span>              <span style="color: #949494; font-style: italic;">&lt;dttm&gt;</span>              <span style="color: #949494; font-style: italic;">&lt;chr&gt;</span>    <span style="color: #949494; font-style: italic;">&lt;chr&gt;</span>               </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;">1</span> ID 1 [A] 2024-02-05 <span style="color: #949494;">13:58:10</span> 2024-02-05 <span style="color: #949494;">15:58:10</span> 111      ical-6058ef88-8df2-…</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;">1</span> ID 1 [A] 2024-02-05 <span style="color: #949494;">20:45:57</span> 2024-02-05 <span style="color: #949494;">22:45:57</span> 111      ical-6058ef88-8df2-…</span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;">2</span> ID 3 [A] 2024-02-07 <span style="color: #949494;">13:58:10</span> 2024-02-07 <span style="color: #949494;">15:58:10</span> 111      ical-8d9bc2f4-09ef-…</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;">2</span> ID 3 [A] 2024-02-07 <span style="color: #949494;">20:45:57</span> 2024-02-07 <span style="color: #949494;">22:45:57</span> 111      ical-8d9bc2f4-09ef-…</span>
-<span class="r-in"><span><span class="va">df</span> <span class="op">|&gt;</span> <span class="fu">ds2ical</span><span class="op">(</span><span class="va">start</span>, <span class="va">location</span>,</span></span>
+<span class="r-in"><span><span class="va">df</span> <span class="op">|&gt;</span> <span class="fu">ds2ical</span><span class="op">(</span>summary.glue.string <span class="op">=</span> <span class="st">"ID {id} [{assessor}] {note}"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>summary.glue.string <span class="op">=</span> <span class="st">"ID {id} [{assessor}] {note}"</span><span class="op">)</span></span></span>
 <span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #949494;"># A tibble: 2 × 5</span></span>
 <span class="r-out co"><span class="r-pr">#&gt;</span>   SUMMARY      DTSTART             DTEND               LOCATION UID             </span>
 <span class="r-out co"><span class="r-pr">#&gt;</span>   <span style="color: #949494; font-style: italic;">&lt;glue&gt;</span>       <span style="color: #949494; font-style: italic;">&lt;dttm&gt;</span>              <span style="color: #949494; font-style: italic;">&lt;dttm&gt;</span>              <span style="color: #949494; font-style: italic;">&lt;chr&gt;</span>    <span style="color: #949494; font-style: italic;">&lt;chr&gt;</span>           </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;">1</span> ID 1 [A]     2024-02-05 <span style="color: #949494;">13:58:10</span> 2024-02-05 <span style="color: #949494;">15:58:10</span> 111      ical-8be1a95c-5…</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;">1</span> ID 1 [A]     2024-02-05 <span style="color: #949494;">20:45:57</span> 2024-02-05 <span style="color: #949494;">22:45:57</span> 111      ical-8be1a95c-5…</span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;">2</span> ID 3 [A] OBS 2024-02-07 <span style="color: #949494;">13:58:10</span> 2024-02-07 <span style="color: #949494;">15:58:10</span> 111      ical-5a05f23b-f…</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> <span style="color: #BCBCBC;">2</span> ID 3 [A] OBS 2024-02-07 <span style="color: #949494;">20:45:57</span> 2024-02-07 <span style="color: #949494;">22:45:57</span> 111      ical-5a05f23b-f…</span>
 <span class="r-in"><span><span class="co"># Export .ics file: (not run)</span></span></span>
-<span class="r-in"><span><span class="va">ical</span> <span class="op">&lt;-</span> <span class="va">df</span> <span class="op">|&gt;</span> <span class="fu">ds2ical</span><span class="op">(</span><span class="va">start</span>, <span class="va">location</span>, description.glue.string <span class="op">=</span> <span class="st">"{note}"</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="va">ical</span> <span class="op">&lt;-</span> <span class="va">df</span> <span class="op">|&gt;</span> <span class="fu">ds2ical</span><span class="op">(</span><span class="va">start</span>, <span class="va">end</span>, <span class="va">location</span>, description.glue.string <span class="op">=</span> <span class="st">"{note}"</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="co"># ical |&gt; calendar::ic_write(file=here::here("calendar.ics"))</span></span></span>
 </code></pre></div>
     </div>

reference/read_redcap_tables.html

@@ -78,8 +78,7 @@ instruments.</p>
 <span>  forms <span class="op">=</span> <span class="cn">NULL</span>,</span>
 <span>  raw_or_label <span class="op">=</span> <span class="st">"label"</span>,</span>
 <span>  split_forms <span class="op">=</span> <span class="st">"all"</span>,</span>
-<span>  generics <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"record_id"</span>, <span class="st">"redcap_event_name"</span>, <span class="st">"redcap_repeat_instrument"</span>,</span>
+<span>  generics <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"redcap_event_name"</span>, <span class="st">"redcap_repeat_instrument"</span>, <span class="st">"redcap_repeat_instance"</span><span class="op">)</span></span>
-<span>    <span class="st">"redcap_repeat_instance"</span><span class="op">)</span></span>
 <span><span class="op">)</span></span></code></pre></div>
     </div>