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authorJohannes Ranke <jranke@uni-bremen.de>2016-11-04 17:11:50 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2016-11-04 17:11:50 +0100
commit517d9378284bb4341c1bbce6716b89b341c8b61e (patch)
treee4ebb4ac0b7e6c91bd8fdf127b69baf66c4b26d7 /docs/articles/compiled_models.html
parent2bd7610ecb5f4aa2ed564bd0d581adb49a1baa41 (diff)
Rebuild docs with updated PR for pkgdown
Diffstat (limited to 'docs/articles/compiled_models.html')
-rw-r--r--docs/articles/compiled_models.html36
1 files changed, 21 insertions, 15 deletions
diff --git a/docs/articles/compiled_models.html b/docs/articles/compiled_models.html
index 09039f62..e1572b17 100644
--- a/docs/articles/compiled_models.html
+++ b/docs/articles/compiled_models.html
@@ -24,7 +24,13 @@
<li>
<a href="../news/index.html">News</a>
</li>
- </ul><ul class="nav navbar-nav navbar-right"></ul></div><!--/.nav-collapse -->
+ </ul><ul class="nav navbar-nav navbar-right"><li>
+ <a href="http://github.com/jranke/mkin">
+ <span class="fa fa-github fa-lg"></span>
+
+ </a>
+</li>
+ </ul></div><!--/.nav-collapse -->
</div><!--/.container -->
</div><!--/.navbar -->
@@ -72,21 +78,21 @@ 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 6581.1731 6598.7831 6630.0395 6616.3931 6654.4726
-## Eigenvalue based 880.1617 890.3517 911.2758 900.5416 926.8328
-## deSolve, compiled 739.4343 749.6078 753.6543 759.7813 760.7643
+## deSolve, not compiled 6326.4518 6378.7429 6476.2219 6431.0341 6551.1069
+## Eigenvalue based 925.7797 935.9924 939.8725 946.2051 946.9189
+## deSolve, compiled 740.2821 750.0017 767.8440 759.7212 781.6249
## max neval cld
-## 6692.5522 3 c
-## 953.1240 3 b
-## 761.7474 3 a</code></pre>
+## 6671.1797 3 b
+## 947.6327 3 a
+## 803.5287 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 8.7 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 8.5 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 8.708286
-## Eigenvalue based 1.185264
+## deSolve, not compiled 8.464993
+## Eigenvalue based 1.245464
## deSolve, compiled 1.000000</code></pre>
</div>
<div id="model-that-can-not-be-solved-with-eigenvalues" class="section level2">
@@ -108,18 +114,18 @@ smb<span class="fl">.1</span>[<span class="st">"median"</span>]/smb<span class="
<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 13.756286 13.813205 13.874083 13.870125 13.932982
-## deSolve, compiled 1.323196 1.372916 1.391915 1.422635 1.426274
+## deSolve, not compiled 13.619556 13.761382 13.825679 13.903207 13.928741
+## deSolve, compiled 1.316871 1.322577 1.358847 1.328283 1.379834
## max neval cld
-## 13.995838 3 b
-## 1.429913 3 a</code></pre>
+## 13.954275 3 b
+## 1.431386 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 9.7 using the version of the differential equation model compiled from C code!</p>
+<p>Here we get a performance benefit of a factor of 10.5 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)

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