diff options
| author | Johannes Ranke <jranke@uni-bremen.de> | 2018-07-18 15:18:30 +0200 |
|---|---|---|
| committer | Johannes Ranke <jranke@uni-bremen.de> | 2018-07-18 15:58:46 +0200 |
| commit | 0b98c459c30a0629a728acf6b311de035c55fb64 (patch) | |
| tree | f146faf4802da38862aa14b0268265f3fad9ba34 /vignettes/compiled_models.html | |
| parent | d3ed95f2a0a43ed74b02ea90e35d043ed4e1e72f (diff) | |
Correct references to the Rocke and Lorenzato model
Rename 'sigma_rl' to 'sigma_twocomp' as the Rocke and Lorenzato model assumes lognormal distribution for large y.
Rebuild static documentation.
Diffstat (limited to 'vignettes/compiled_models.html')
| -rw-r--r-- | vignettes/compiled_models.html | 20 |
1 files changed, 10 insertions, 10 deletions
diff --git a/vignettes/compiled_models.html b/vignettes/compiled_models.html index d8c5b19b..81bff548 100644 --- a/vignettes/compiled_models.html +++ b/vignettes/compiled_models.html @@ -12,7 +12,7 @@ <meta name="author" content="Johannes Ranke" /> -<meta name="date" content="2018-03-09" /> +<meta name="date" content="2018-07-17" /> <title>Performance benefit by using compiled model definitions in mkin</title> @@ -70,7 +70,7 @@ code > span.in { color: #60a0b0; font-weight: bold; font-style: italic; } /* Inf <h1 class="title toc-ignore">Performance benefit by using compiled model definitions in mkin</h1> <h4 class="author"><em>Johannes Ranke</em></h4> -<h4 class="date"><em>2018-03-09</em></h4> +<h4 class="date"><em>2018-07-17</em></h4> @@ -105,14 +105,14 @@ SFO_SFO <-<span class="st"> </span><span class="kw">mkinmod</span>( }</code></pre></div> <pre><code>## Loading required package: rbenchmark</code></pre> <pre><code>## test replications elapsed relative user.self sys.self -## 3 deSolve, compiled 3 1.980 1.000 1.979 0 -## 1 deSolve, not compiled 3 13.926 7.033 13.914 0 -## 2 Eigenvalue based 3 2.362 1.193 2.360 0 +## 3 deSolve, compiled 3 2.116 1.000 2.115 0 +## 1 deSolve, not compiled 3 16.563 7.828 16.555 0 +## 2 Eigenvalue based 3 2.599 1.228 2.597 0 ## user.child sys.child ## 3 0 0 ## 1 0 0 ## 2 0 0</code></pre> -<p>We see that using the compiled model is by a factor of around 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 around 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> <div id="model-that-can-not-be-solved-with-eigenvalues" class="section level2"> <h2>Model that can not be solved with Eigenvalues</h2> @@ -135,14 +135,14 @@ SFO_SFO <-<span class="st"> </span><span class="kw">mkinmod</span>( }</code></pre></div> <pre><code>## Successfully compiled differential equation model from auto-generated C code.</code></pre> <pre><code>## test replications elapsed relative user.self sys.self -## 2 deSolve, compiled 3 3.437 1.000 3.433 0 -## 1 deSolve, not compiled 3 30.406 8.847 30.380 0 +## 2 deSolve, compiled 3 3.809 1.000 3.806 0 +## 1 deSolve, not compiled 3 35.885 9.421 35.866 0 ## user.child sys.child ## 2 0 0 ## 1 0 0</code></pre> <p>Here we get a performance benefit of a factor of 9 using the version of the differential equation model compiled from C code!</p> -<p>This vignette was built with mkin 0.9.46.3 on</p> -<pre><code>## R version 3.4.3 (2017-11-30) +<p>This vignette was built with mkin 0.9.47.1 on</p> +<pre><code>## R version 3.5.1 (2018-07-02) ## Platform: x86_64-pc-linux-gnu (64-bit) ## Running under: Debian GNU/Linux 9 (stretch)</code></pre> <pre><code>## CPU model: AMD Ryzen 7 1700 Eight-Core Processor</code></pre> |