diff options
| author | Johannes Ranke <jranke@uni-bremen.de> | 2020-05-26 18:38:51 +0200 |
|---|---|---|
| committer | Johannes Ranke <jranke@uni-bremen.de> | 2020-05-26 18:52:01 +0200 |
| commit | 675a733fa2acc08daabb9b8b571c7d658f281f73 (patch) | |
| tree | ef29cec38aa6d446f7956c0e423cca6bed2e21c0 /docs/reference/mmkin.html | |
| parent | 5e85d8856e7c9db3c52bb6ac5a0a81e2f0c6181c (diff) | |
Use all cores per default, confint tolerance
Also, use more intelligent starting values for the variance of the
random effects for saemix. While this does not appear to speed up
the convergence, it shows where this variance is greatly reduced
by using mixed-effects models as opposed to the separate independent
fits.
Diffstat (limited to 'docs/reference/mmkin.html')
| -rw-r--r-- | docs/reference/mmkin.html | 16 |
1 files changed, 10 insertions, 6 deletions
diff --git a/docs/reference/mmkin.html b/docs/reference/mmkin.html index 3be3b4b9..9628c017 100644 --- a/docs/reference/mmkin.html +++ b/docs/reference/mmkin.html @@ -75,7 +75,7 @@ datasets specified in its first two arguments." /> </button> <span class="navbar-brand"> <a class="navbar-link" href="../index.html">mkin</a> - <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">0.9.50.2</span> + <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">0.9.50.3</span> </span> </div> @@ -112,6 +112,9 @@ datasets specified in its first two arguments." /> <li> <a href="../articles/web_only/NAFTA_examples.html">Example evaluation of NAFTA SOP Attachment examples</a> </li> + <li> + <a href="../articles/web_only/benchmarks.html">Some benchmark timings</a> + </li> </ul> </li> <li> @@ -152,7 +155,7 @@ datasets specified in its first two arguments.</p> <pre class="usage"><span class='fu'>mmkin</span>( <span class='kw'>models</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"FOMC"</span>, <span class='st'>"DFOP"</span>), <span class='no'>datasets</span>, - <span class='kw'>cores</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/Round.html'>round</a></span>(<span class='fu'>detectCores</span>()/<span class='fl'>2</span>), + <span class='kw'>cores</span> <span class='kw'>=</span> <span class='fu'>detectCores</span>(), <span class='kw'>cluster</span> <span class='kw'>=</span> <span class='kw'>NULL</span>, <span class='no'>...</span> )</pre> @@ -176,7 +179,8 @@ data for <code><a href='mkinfit.html'>mkinfit</a></code>.</p></td> <td><p>The number of cores to be used for multicore processing. This is only used when the <code>cluster</code> argument is <code>NULL</code>. On Windows machines, cores > 1 is not supported, you need to use the <code>cluster</code> -argument to use multiple logical processors.</p></td> +argument to use multiple logical processors. Per default, all cores +detected by <code><a href='https://rdrr.io/r/parallel/detectCores.html'>parallel::detectCores()</a></code> are used.</p></td> </tr> <tr> <th>cluster</th> @@ -215,9 +219,9 @@ plotting.</p></div> <span class='no'>time_default</span> <span class='kw'><-</span> <span class='fu'><a href='https://rdrr.io/r/base/system.time.html'>system.time</a></span>(<span class='no'>fits.0</span> <span class='kw'><-</span> <span class='fu'>mmkin</span>(<span class='no'>models</span>, <span class='no'>datasets</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)) <span class='no'>time_1</span> <span class='kw'><-</span> <span class='fu'><a href='https://rdrr.io/r/base/system.time.html'>system.time</a></span>(<span class='no'>fits.4</span> <span class='kw'><-</span> <span class='fu'>mmkin</span>(<span class='no'>models</span>, <span class='no'>datasets</span>, <span class='kw'>cores</span> <span class='kw'>=</span> <span class='fl'>1</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>))</div><div class='output co'>#> <span class='warning'>Warning: Optimisation did not converge:</span> #> <span class='warning'>false convergence (8)</span></div><div class='input'> -<span class='no'>time_default</span></div><div class='output co'>#> User System verstrichen -#> 4.520 0.374 1.284 </div><div class='input'><span class='no'>time_1</span></div><div class='output co'>#> User System verstrichen -#> 5.076 0.004 5.083 </div><div class='input'> +<span class='no'>time_default</span></div><div class='output co'>#> user system elapsed +#> 4.457 0.561 1.328 </div><div class='input'><span class='no'>time_1</span></div><div class='output co'>#> user system elapsed +#> 5.031 0.004 5.038 </div><div class='input'> <span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>fits.0</span><span class='kw'>[[</span><span class='st'>"SFO_lin"</span>, <span class='fl'>2</span>]])</div><div class='output co'>#> $ff #> parent_M1 parent_sink M1_M2 M1_sink #> 0.7340478 0.2659522 0.7505691 0.2494309 |