Complete rebuild of static docs

1 files changed, 11 insertions, 14 deletions

diff --git a/docs/dev/reference/mkinpredict.html b/docs/dev/reference/mkinpredict.html
index f265a234..01c15a19 100644
--- a/docs/dev/reference/mkinpredict.html
+++ b/docs/dev/reference/mkinpredict.html
@@ -124,6 +124,7 @@ kinetic parameters and initial values for the state variables.</p>
 <span>  outtimes <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/seq.html" class="external-link">seq</a></span><span class="op">(</span><span class="fl">0</span>, <span class="fl">120</span>, by <span class="op">=</span> <span class="fl">0.1</span><span class="op">)</span>,</span>
 <span>  solution_type <span class="op">=</span> <span class="st">"deSolve"</span>,</span>
 <span>  use_compiled <span class="op">=</span> <span class="st">"auto"</span>,</span>
+<span>  use_symbols <span class="op">=</span> <span class="cn">FALSE</span>,</span>
 <span>  method.ode <span class="op">=</span> <span class="st">"lsoda"</span>,</span>
 <span>  atol <span class="op">=</span> <span class="fl">1e-08</span>,</span>
 <span>  rtol <span class="op">=</span> <span class="fl">1e-10</span>,</span>
@@ -193,6 +194,11 @@ parent compound.</p></dd>
 <a href="mkinmod.html">mkinmod</a> model is used, even if is present.</p></dd>
 
 
+<dt>use_symbols</dt>
+<dd><p>If set to <code>TRUE</code> (default), symbol info present in
+the <a href="mkinmod.html">mkinmod</a> object is used if available for accessing compiled code</p></dd>
+
+
 <dt>method.ode</dt>
 <dd><p>The solution method passed via mkinpredict to ode] in
 case the solution type is "deSolve" and we are not using compiled code.
@@ -388,27 +394,18 @@ as these always return mapped output.</p></dd>
 <span class="r-in"><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="fl">100</span>, m1 <span class="op">=</span> <span class="fl">0</span><span class="op">)</span>, <span class="fu"><a href="https://rdrr.io/r/base/seq.html" class="external-link">seq</a></span><span class="op">(</span><span class="fl">0</span>, <span class="fl">20</span>, by <span class="op">=</span> <span class="fl">0.1</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>      solution_type <span class="op">=</span> <span class="st">"analytical"</span>, use_compiled <span class="op">=</span> <span class="cn">FALSE</span><span class="op">)</span><span class="op">[</span><span class="fl">201</span>,<span class="op">]</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
-<span class="r-msg co"><span class="r-pr">#&gt;</span> Loading required package: rbenchmark</span>
 <span class="r-out co"><span class="r-pr">#&gt;</span>               test relative elapsed</span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> 4       analytical    1.000   0.007</span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> 1            eigen    1.143   0.008</span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> 2 deSolve_compiled    8.857   0.062</span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> 3          deSolve    8.857   0.062</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> 2 deSolve_compiled      1.0   0.002</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> 4       analytical      1.0   0.002</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> 1            eigen      4.0   0.008</span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> 3          deSolve     30.5   0.061</span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="co"># Predict from a fitted model</span></span></span>
 <span class="r-in"><span>  <span class="va">f</span> <span class="op">&lt;-</span> <span class="fu"><a href="mkinfit.html">mkinfit</a></span><span class="op">(</span><span class="va">SFO_SFO</span>, <span class="va">FOCUS_2006_C</span>, quiet <span class="op">=</span> <span class="cn">TRUE</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">f</span> <span class="op">&lt;-</span> <span class="fu"><a href="mkinfit.html">mkinfit</a></span><span class="op">(</span><span class="va">SFO_SFO</span>, <span class="va">FOCUS_2006_C</span>, quiet <span class="op">=</span> <span class="cn">TRUE</span>, solution_type <span class="op">=</span> <span class="st">"deSolve"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/head.html" class="external-link">head</a></span><span class="op">(</span><span class="fu">mkinpredict</span><span class="op">(</span><span class="va">f</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> DLSODA-  At current T (=R1), MXSTEP (=I1) steps   </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span>       taken on this call before reaching TOUT     </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> In above message, I1 = 1</span>
-<span class="r-out co"><span class="r-pr">#&gt;</span>  </span>
-<span class="r-out co"><span class="r-pr">#&gt;</span> In above message, R1 = 9.99904e-07</span>
-<span class="r-out co"><span class="r-pr">#&gt;</span>  </span>
-<span class="r-wrn co"><span class="r-pr">#&gt;</span> <span class="warning">Warning: </span>an excessive amount of work (&gt; maxsteps ) was done, but integration was not successful - increase maxsteps</span>
-<span class="r-wrn co"><span class="r-pr">#&gt;</span> <span class="warning">Warning: </span>Returning early. Results are accurate, as far as they go</span>
-<span class="r-err co"><span class="r-pr">#&gt;</span> <span class="error">Error in out[available, var]:</span> (subscript) logical subscript too long</span>
+<span class="r-err co"><span class="r-pr">#&gt;</span> <span class="error">Error in !is.null(x$symbols) &amp; use_symbols:</span> operations are possible only for numeric, logical or complex types</span>
 <span class="r-in"><span><span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>