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Diffstat (limited to 'docs/articles/compiled_models.html')
| -rw-r--r-- | docs/articles/compiled_models.html | 36 |
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> <-<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>) <-<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) |