Complete update of online docs for v1.2.0

1 files changed, 53 insertions, 20 deletions

diff --git a/docs/reference/CAKE_export.html b/docs/reference/CAKE_export.html
index 4a0b599b..f1edaab2 100644
--- a/docs/reference/CAKE_export.html
+++ b/docs/reference/CAKE_export.html
@@ -18,7 +18,7 @@ specified as well."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/aj
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">mkin</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.1.0</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.2.0</span>
       </span>
     </div>
 
@@ -45,19 +45,25 @@ specified as well."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/aj
       <a href="../articles/web_only/dimethenamid_2018.html">Example evaluations of dimethenamid data from 2018 with nonlinear mixed-effects models</a>
     </li>
     <li>
-      <a href="../articles/web_only/FOCUS_Z.html">Example evaluation of FOCUS Example Dataset Z</a>
+      <a href="../articles/web_only/multistart.html">Short demo of the multistart method</a>
     </li>
     <li>
       <a href="../articles/web_only/compiled_models.html">Performance benefit by using compiled model definitions in mkin</a>
     </li>
     <li>
+      <a href="../articles/web_only/FOCUS_Z.html">Example evaluation of FOCUS Example Dataset Z</a>
+    </li>
+    <li>
       <a href="../articles/twa.html">Calculation of time weighted average concentrations with mkin</a>
     </li>
     <li>
       <a href="../articles/web_only/NAFTA_examples.html">Example evaluation of NAFTA SOP Attachment examples</a>
     </li>
     <li>
-      <a href="../articles/web_only/benchmarks.html">Some benchmark timings</a>
+      <a href="../articles/web_only/benchmarks.html">Benchmark timings for mkin</a>
+    </li>
+    <li>
+      <a href="../articles/web_only/saem_benchmarks.html">Benchmark timings for saem.mmkin</a>
     </li>
   </ul></li>
 <li>
@@ -89,21 +95,21 @@ specified as well.</p>
     </div>
 
     <div id="ref-usage">
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">CAKE_export</span><span class="op">(</span>
-  <span class="va">ds</span>,
-  map <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>parent <span class="op">=</span> <span class="st">"Parent"</span><span class="op">)</span>,
-  links <span class="op">=</span> <span class="cn">NA</span>,
-  filename <span class="op">=</span> <span class="st">"CAKE_export.csf"</span>,
-  path <span class="op">=</span> <span class="st">"."</span>,
-  overwrite <span class="op">=</span> <span class="cn">FALSE</span>,
-  study <span class="op">=</span> <span class="st">"Degradinol aerobic soil degradation"</span>,
-  description <span class="op">=</span> <span class="st">""</span>,
-  time_unit <span class="op">=</span> <span class="st">"days"</span>,
-  res_unit <span class="op">=</span> <span class="st">"% AR"</span>,
-  comment <span class="op">=</span> <span class="st">""</span>,
-  date <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/Sys.time.html" class="external-link">Sys.Date</a></span><span class="op">(</span><span class="op">)</span>,
-  optimiser <span class="op">=</span> <span class="st">"IRLS"</span>
-<span class="op">)</span></code></pre></div>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">CAKE_export</span><span class="op">(</span></span>
+<span>  <span class="va">ds</span>,</span>
+<span>  map <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>parent <span class="op">=</span> <span class="st">"Parent"</span><span class="op">)</span>,</span>
+<span>  links <span class="op">=</span> <span class="cn">NA</span>,</span>
+<span>  filename <span class="op">=</span> <span class="st">"CAKE_export.csf"</span>,</span>
+<span>  path <span class="op">=</span> <span class="st">"."</span>,</span>
+<span>  overwrite <span class="op">=</span> <span class="cn">FALSE</span>,</span>
+<span>  study <span class="op">=</span> <span class="st">"Degradinol aerobic soil degradation"</span>,</span>
+<span>  description <span class="op">=</span> <span class="st">""</span>,</span>
+<span>  time_unit <span class="op">=</span> <span class="st">"days"</span>,</span>
+<span>  res_unit <span class="op">=</span> <span class="st">"% AR"</span>,</span>
+<span>  comment <span class="op">=</span> <span class="st">""</span>,</span>
+<span>  date <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/Sys.time.html" class="external-link">Sys.Date</a></span><span class="op">(</span><span class="op">)</span>,</span>
+<span>  optimiser <span class="op">=</span> <span class="st">"IRLS"</span></span>
+<span><span class="op">)</span></span></code></pre></div>
     </div>
 
     <div id="arguments">
@@ -111,38 +117,65 @@ specified as well.</p>
     <dl><dt>ds</dt>
 <dd><p>A named list of datasets in long format as compatible with
 <code><a href="mkinfit.html">mkinfit</a></code>.</p></dd>
+
+
 <dt>map</dt>
 <dd><p>A character vector with CAKE compartment names (Parent, A1, ...),
 named with the names used in the list of datasets.</p></dd>
+
+
 <dt>links</dt>
 <dd><p>An optional character vector of target compartments, named with
 the names of the source compartments. In order to make this easier, the
 names are used as in the datasets supplied.</p></dd>
+
+
 <dt>filename</dt>
 <dd><p>Where to write the result. Should end in .csf in order to be
 compatible with CAKE.</p></dd>
+
+
 <dt>path</dt>
 <dd><p>An optional path to the output file.</p></dd>
+
+
 <dt>overwrite</dt>
 <dd><p>If TRUE, existing files are overwritten.</p></dd>
+
+
 <dt>study</dt>
 <dd><p>The name of the study.</p></dd>
+
+
 <dt>description</dt>
 <dd><p>An optional description.</p></dd>
+
+
 <dt>time_unit</dt>
 <dd><p>The time unit for the residue data.</p></dd>
+
+
 <dt>res_unit</dt>
 <dd><p>The unit used for the residues.</p></dd>
+
+
 <dt>comment</dt>
 <dd><p>An optional comment.</p></dd>
+
+
 <dt>date</dt>
 <dd><p>The date of file creation.</p></dd>
+
+
 <dt>optimiser</dt>
 <dd><p>Can be OLS or IRLS.</p></dd>
+
 </dl></div>
     <div id="value">
     <h2>Value</h2>
-    <p>The function is called for its side effect.</p>
+    
+
+<p>The function is called for its side effect.</p>
     </div>
     <div id="author">
     <h2>Author</h2>
@@ -161,7 +194,7 @@ compatible with CAKE.</p></dd>
 </div>
 
 <div class="pkgdown">
-  <p></p><p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.3.</p>
+  <p></p><p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.6.</p>
 </div>
 
       </footer></div>