Static documentation rebuilt by pkgdown::build_site(run_dont_run = TRUE)

Again with the jranke branch of jranke/pkgdown

1 files changed, 35 insertions, 22 deletions

diff --git a/docs/articles/compiled_models.html b/docs/articles/compiled_models.html
index ce149bc5..31340867 100644
--- a/docs/articles/compiled_models.html
+++ b/docs/articles/compiled_models.html
@@ -16,14 +16,27 @@
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-  <a href="../news/index.html">News</a>
+  <a href="../reference/index.html">Function reference</a>
 </li>
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+  <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">
+    Articles
+     
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+  <ul class="dropdown-menu" role="menu"><li>
+      <a href="../articles/mkin.html">Introduction to mkin</a>
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+    <li>
+      <a href="../articles/FOCUS_D.html">Example evaluation of FOCUS Example Dataset D</a>
+    </li>
+    <li>
+      <a href="../articles/FOCUS_L.html">Example evaluation of FOCUS Laboratory Data L1 to L3</a>
+    </li>
+    <li>
+      <a href="../articles/compiled_models.html">Performance benefit by using compiled model definitions in mkin</a>
+    </li>
+  </ul></li>
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@@ -78,21 +91,21 @@ mb<span class="fl">.1</span> &lt;-<span class="st"> </span><span class="kw">micr
 <span class="kw">print</span>(mb<span class="fl">.1</span>)</code></pre></div>
 <pre><code>## Unit: milliseconds
 ##                   expr       min        lq      mean    median        uq
-##  deSolve, not compiled 6341.1795 6363.5977 6373.7748 6386.0158 6390.0724
-##       Eigenvalue based  907.1699  908.8498  921.8335  910.5297  929.1653
-##      deSolve, compiled  747.5311  752.3718  754.2086  757.2125  757.5474
+##  deSolve, not compiled 6559.0772 6574.0500 6642.0659 6589.0229 6683.5603
+##       Eigenvalue based  921.0723  931.1284  940.3973  941.1845  950.0598
+##      deSolve, compiled  736.6534  741.6706  756.3600  746.6878  766.2132
 ##        max neval cld
-##  6394.1290     3   c
-##   947.8008     3  b 
-##   757.8823     3 a</code></pre>
+##  6778.0978     3   c
+##   958.9351     3  b 
+##   785.7386     3 a</code></pre>
 <div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">autoplot</span>(mb<span class="fl">.1</span>)</code></pre></div>
 <p><img src="compiled_models_files/figure-html/benchmark_SFO_SFO-1.png" width="672"></p>
-<p>We see that using the compiled model is by a factor of 8.4 faster than using the R version with the default ode solver, and it is even faster than the Eigenvalue based solution implemented in R which does not need iterative solution of the ODEs:</p>
+<p>We see that using the compiled model is by a factor of 8.8 faster than using the R version with the default ode solver, and it is even faster than the Eigenvalue based solution implemented in R which does not need iterative solution of the ODEs:</p>
 <div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">rownames</span>(smb<span class="fl">.1</span>) &lt;-<span class="st"> </span>smb<span class="fl">.1</span>$expr
 smb<span class="fl">.1</span>[<span class="st">"median"</span>]/smb<span class="fl">.1</span>[<span class="st">"deSolve, compiled"</span>, <span class="st">"median"</span>]</code></pre></div>
 <pre><code>##                         median
-## deSolve, not compiled 8.433585
-## Eigenvalue based      1.202476
+## deSolve, not compiled 8.824334
+## Eigenvalue based      1.260479
 ## deSolve, compiled     1.000000</code></pre>
 </div>
 <div id="model-that-can-not-be-solved-with-eigenvalues" class="section level2">
@@ -113,19 +126,19 @@ smb<span class="fl">.1</span>[<span class="st">"median"</span>]/smb<span class="
 <div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">smb<span class="fl">.2</span> &lt;-<span class="st"> </span><span class="kw">summary</span>(mb<span class="fl">.2</span>)
 <span class="kw">print</span>(mb<span class="fl">.2</span>)</code></pre></div>
 <pre><code>## Unit: seconds
-##                   expr       min        lq      mean    median        uq
-##  deSolve, not compiled 13.214250 13.248908 13.384577 13.283565 13.469740
-##      deSolve, compiled  1.303868  1.307484  1.332879  1.311099  1.347384
+##                   expr       min        lq      mean   median        uq
+##  deSolve, not compiled 13.587184 13.616178 13.673277 13.64517 13.716324
+##      deSolve, compiled  1.307508  1.317114  1.337594  1.32672  1.352637
 ##        max neval cld
-##  13.655915     3   b
-##   1.383669     3  a</code></pre>
+##  13.787476     3   b
+##   1.378553     3  a</code></pre>
 <div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">smb<span class="fl">.2</span>[<span class="st">"median"</span>]/smb<span class="fl">.2</span>[<span class="st">"deSolve, compiled"</span>, <span class="st">"median"</span>]</code></pre></div>
 <pre><code>##   median
 ## 1     NA
 ## 2     NA</code></pre>
 <div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">autoplot</span>(mb<span class="fl">.2</span>)</code></pre></div>
 <p><img src="compiled_models_files/figure-html/benchmark_FOMC_SFO-1.png" width="672"></p>
-<p>Here we get a performance benefit of a factor of 10.1 using the version of the differential equation model compiled from C code!</p>
+<p>Here we get a performance benefit of a factor of 10.3 using the version of the differential equation model compiled from C code!</p>
 <p>This vignette was built with mkin 0.9.44.9000 on</p>
 <pre><code>## R version 3.3.2 (2016-10-31)
 ## Platform: x86_64-pc-linux-gnu (64-bit)