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authorJohannes Ranke <jranke@uni-bremen.de>2018-03-21 18:16:52 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2018-03-21 18:16:52 +0100
commit6ea7bc3614b9a303f7c38dd63b9f80b8d0ebd95e (patch)
treec8d79386f9f01c8ddfe218435860d997ba6af01a /docs
parentb88bc151196d66d876fbc11059fc8cd365ef5534 (diff)
Static documentation rebuilt by pkgdown
Diffstat (limited to 'docs')
-rw-r--r--docs/articles/FOCUS_D.html2
-rw-r--r--docs/articles/FOCUS_L.html56
-rw-r--r--docs/articles/FOCUS_Z.html2
-rw-r--r--docs/articles/compiled_models.html14
-rw-r--r--docs/articles/mkin.html2
-rw-r--r--docs/articles/twa.html2
-rw-r--r--docs/news/index.html6
-rw-r--r--docs/reference/Extract.mmkin.html14
-rw-r--r--docs/reference/mccall81_245T.html8
-rw-r--r--docs/reference/mkinfit.html10
-rw-r--r--docs/reference/mkinpredict.html4
-rw-r--r--docs/reference/mmkin.html4
-rw-r--r--docs/reference/summary.mkinfit.html8
-rw-r--r--docs/reference/transform_odeparms.html8
14 files changed, 71 insertions, 69 deletions
diff --git a/docs/articles/FOCUS_D.html b/docs/articles/FOCUS_D.html
index a8002acd..a83c2f44 100644
--- a/docs/articles/FOCUS_D.html
+++ b/docs/articles/FOCUS_D.html
@@ -80,7 +80,7 @@
<h1>Example evaluation of FOCUS Example Dataset D</h1>
<h4 class="author">Johannes Ranke</h4>
- <h4 class="date">2018-03-11</h4>
+ <h4 class="date">2018-03-21</h4>
</div>
diff --git a/docs/articles/FOCUS_L.html b/docs/articles/FOCUS_L.html
index a23876ec..08e144bd 100644
--- a/docs/articles/FOCUS_L.html
+++ b/docs/articles/FOCUS_L.html
@@ -80,7 +80,7 @@
<h1>Example evaluation of FOCUS Laboratory Data L1 to L3</h1>
<h4 class="author">Johannes Ranke</h4>
- <h4 class="date">2018-03-11</h4>
+ <h4 class="date">2018-03-21</h4>
</div>
@@ -102,16 +102,16 @@ FOCUS_<span class="dv">2006</span>_L1_mkin &lt;-<span class="st"> </span><span c
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">m.L1.SFO &lt;-<span class="st"> </span><span class="kw"><a href="../reference/mkinfit.html">mkinfit</a></span>(<span class="st">"SFO"</span>, FOCUS_<span class="dv">2006</span>_L1_mkin, <span class="dt">quiet =</span> <span class="ot">TRUE</span>)
<span class="kw">summary</span>(m.L1.SFO)</code></pre></div>
<pre><code>## mkin version: 0.9.46.3
-## R version: 3.4.3
-## Date of fit: Sun Mar 11 22:11:58 2018
-## Date of summary: Sun Mar 11 22:11:58 2018
+## R version: 3.4.4
+## Date of fit: Wed Mar 21 18:16:03 2018
+## Date of summary: Wed Mar 21 18:16:03 2018
##
## Equations:
## d_parent/dt = - k_parent_sink * parent
##
## Model predictions using solution type analytical
##
-## Fitted with method Port using 37 model solutions performed in 0.235 s
+## Fitted with method Port using 37 model solutions performed in 0.257 s
##
## Weighting: none
##
@@ -193,16 +193,16 @@ FOCUS_<span class="dv">2006</span>_L1_mkin &lt;-<span class="st"> </span><span c
<p><img src="FOCUS_L_files/figure-html/unnamed-chunk-6-1.png" width="576"></p>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">summary</span>(m.L1.FOMC, <span class="dt">data =</span> <span class="ot">FALSE</span>)</code></pre></div>
<pre><code>## mkin version: 0.9.46.3
-## R version: 3.4.3
-## Date of fit: Sun Mar 11 22:12:01 2018
-## Date of summary: Sun Mar 11 22:12:01 2018
+## R version: 3.4.4
+## Date of fit: Wed Mar 21 18:16:05 2018
+## Date of summary: Wed Mar 21 18:16:05 2018
##
## Equations:
## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
##
## Model predictions using solution type analytical
##
-## Fitted with method Port using 611 model solutions performed in 1.458 s
+## Fitted with method Port using 611 model solutions performed in 1.404 s
##
## Weighting: none
##
@@ -288,16 +288,16 @@ FOCUS_<span class="dv">2006</span>_L2_mkin &lt;-<span class="st"> </span><span c
<p><img src="FOCUS_L_files/figure-html/unnamed-chunk-9-1.png" width="672"></p>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">summary</span>(m.L2.FOMC, <span class="dt">data =</span> <span class="ot">FALSE</span>)</code></pre></div>
<pre><code>## mkin version: 0.9.46.3
-## R version: 3.4.3
-## Date of fit: Sun Mar 11 22:12:01 2018
-## Date of summary: Sun Mar 11 22:12:01 2018
+## R version: 3.4.4
+## Date of fit: Wed Mar 21 18:16:06 2018
+## Date of summary: Wed Mar 21 18:16:06 2018
##
## Equations:
## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
##
## Model predictions using solution type analytical
##
-## Fitted with method Port using 81 model solutions performed in 0.158 s
+## Fitted with method Port using 81 model solutions performed in 0.168 s
##
## Weighting: none
##
@@ -359,9 +359,9 @@ FOCUS_<span class="dv">2006</span>_L2_mkin &lt;-<span class="st"> </span><span c
<p><img src="FOCUS_L_files/figure-html/unnamed-chunk-10-1.png" width="672"></p>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">summary</span>(m.L2.DFOP, <span class="dt">data =</span> <span class="ot">FALSE</span>)</code></pre></div>
<pre><code>## mkin version: 0.9.46.3
-## R version: 3.4.3
-## Date of fit: Sun Mar 11 22:12:02 2018
-## Date of summary: Sun Mar 11 22:12:02 2018
+## R version: 3.4.4
+## Date of fit: Wed Mar 21 18:16:06 2018
+## Date of summary: Wed Mar 21 18:16:06 2018
##
## Equations:
## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) *
@@ -370,7 +370,7 @@ FOCUS_<span class="dv">2006</span>_L2_mkin &lt;-<span class="st"> </span><span c
##
## Model predictions using solution type analytical
##
-## Fitted with method Port using 336 model solutions performed in 0.681 s
+## Fitted with method Port using 336 model solutions performed in 0.719 s
##
## Weighting: none
##
@@ -451,9 +451,9 @@ mm.L3 &lt;-<span class="st"> </span><span class="kw"><a href="../reference/mmkin
<p>We can extract the summary and plot for <em>e.g.</em> the DFOP fit, using square brackets for indexing which will result in the use of the summary and plot functions working on mkinfit objects.</p>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">summary</span>(mm.L3[[<span class="st">"DFOP"</span>, <span class="dv">1</span>]])</code></pre></div>
<pre><code>## mkin version: 0.9.46.3
-## R version: 3.4.3
-## Date of fit: Sun Mar 11 22:12:03 2018
-## Date of summary: Sun Mar 11 22:12:03 2018
+## R version: 3.4.4
+## Date of fit: Wed Mar 21 18:16:07 2018
+## Date of summary: Wed Mar 21 18:16:07 2018
##
## Equations:
## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) *
@@ -462,7 +462,7 @@ mm.L3 &lt;-<span class="st"> </span><span class="kw"><a href="../reference/mmkin
##
## Model predictions using solution type analytical
##
-## Fitted with method Port using 137 model solutions performed in 0.272 s
+## Fitted with method Port using 137 model solutions performed in 0.283 s
##
## Weighting: none
##
@@ -552,9 +552,9 @@ mm.L4 &lt;-<span class="st"> </span><span class="kw"><a href="../reference/mmkin
<p>The <span class="math inline">\(\chi^2\)</span> error level of 3.3% as well as the plot suggest that the SFO model fits very well. The error level at which the <span class="math inline">\(\chi^2\)</span> test passes is slightly lower for the FOMC model. However, the difference appears negligible.</p>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">summary</span>(mm.L4[[<span class="st">"SFO"</span>, <span class="dv">1</span>]], <span class="dt">data =</span> <span class="ot">FALSE</span>)</code></pre></div>
<pre><code>## mkin version: 0.9.46.3
-## R version: 3.4.3
-## Date of fit: Sun Mar 11 22:12:04 2018
-## Date of summary: Sun Mar 11 22:12:04 2018
+## R version: 3.4.4
+## Date of fit: Wed Mar 21 18:16:08 2018
+## Date of summary: Wed Mar 21 18:16:08 2018
##
## Equations:
## d_parent/dt = - k_parent_sink * parent
@@ -612,16 +612,16 @@ mm.L4 &lt;-<span class="st"> </span><span class="kw"><a href="../reference/mmkin
## parent 106 352</code></pre>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">summary</span>(mm.L4[[<span class="st">"FOMC"</span>, <span class="dv">1</span>]], <span class="dt">data =</span> <span class="ot">FALSE</span>)</code></pre></div>
<pre><code>## mkin version: 0.9.46.3
-## R version: 3.4.3
-## Date of fit: Sun Mar 11 22:12:04 2018
-## Date of summary: Sun Mar 11 22:12:04 2018
+## R version: 3.4.4
+## Date of fit: Wed Mar 21 18:16:08 2018
+## Date of summary: Wed Mar 21 18:16:08 2018
##
## Equations:
## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
##
## Model predictions using solution type analytical
##
-## Fitted with method Port using 66 model solutions performed in 0.13 s
+## Fitted with method Port using 66 model solutions performed in 0.138 s
##
## Weighting: none
##
diff --git a/docs/articles/FOCUS_Z.html b/docs/articles/FOCUS_Z.html
index 78a00062..a2b88caa 100644
--- a/docs/articles/FOCUS_Z.html
+++ b/docs/articles/FOCUS_Z.html
@@ -80,7 +80,7 @@
<h1>Example evaluation of FOCUS dataset Z</h1>
<h4 class="author">Johannes Ranke</h4>
- <h4 class="date">2018-03-11</h4>
+ <h4 class="date">2018-03-21</h4>
</div>
diff --git a/docs/articles/compiled_models.html b/docs/articles/compiled_models.html
index 8923acac..19cb806b 100644
--- a/docs/articles/compiled_models.html
+++ b/docs/articles/compiled_models.html
@@ -80,7 +80,7 @@
<h1>Performance benefit by using compiled model definitions in mkin</h1>
<h4 class="author">Johannes Ranke</h4>
- <h4 class="date">2018-03-11</h4>
+ <h4 class="date">2018-03-21</h4>
</div>
@@ -118,9 +118,9 @@ SFO_SFO &lt;-<span class="st"> </span><span class="kw"><a href="../reference/mki
}</code></pre></div>
<pre><code>## Lade nötiges Paket: rbenchmark</code></pre>
<pre><code>## test replications elapsed relative user.self sys.self
-## 3 deSolve, compiled 3 1.978 1.000 1.976 0
-## 1 deSolve, not compiled 3 13.541 6.846 13.531 0
-## 2 Eigenvalue based 3 2.332 1.179 2.330 0
+## 3 deSolve, compiled 3 2.155 1.000 2.152 0
+## 1 deSolve, not compiled 3 15.124 7.018 15.109 0
+## 2 Eigenvalue based 3 2.576 1.195 2.574 0
## user.child sys.child
## 3 0 0
## 1 0 0
@@ -149,14 +149,14 @@ SFO_SFO &lt;-<span class="st"> </span><span class="kw"><a href="../reference/mki
}</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 3.334 1.000 3.331 0
-## 1 deSolve, not compiled 3 29.917 8.973 29.888 0
+## 2 deSolve, compiled 3 3.419 1.000 3.415 0
+## 1 deSolve, not compiled 3 31.159 9.113 31.130 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)
+<pre><code>## R version 3.4.4 (2018-03-15)
## 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>
diff --git a/docs/articles/mkin.html b/docs/articles/mkin.html
index 7b26b3f1..12ff2e98 100644
--- a/docs/articles/mkin.html
+++ b/docs/articles/mkin.html
@@ -80,7 +80,7 @@
<h1>Introduction to mkin</h1>
<h4 class="author">Johannes Ranke</h4>
- <h4 class="date">2018-03-11</h4>
+ <h4 class="date">2018-03-21</h4>
</div>
diff --git a/docs/articles/twa.html b/docs/articles/twa.html
index 7f4c941e..551cf03f 100644
--- a/docs/articles/twa.html
+++ b/docs/articles/twa.html
@@ -80,7 +80,7 @@
<h1>Calculation of time weighted average concentrations with mkin</h1>
<h4 class="author">Johannes Ranke</h4>
- <h4 class="date">2018-03-11</h4>
+ <h4 class="date">2018-03-21</h4>
</div>
diff --git a/docs/news/index.html b/docs/news/index.html
index f311efe5..c4605ae1 100644
--- a/docs/news/index.html
+++ b/docs/news/index.html
@@ -107,9 +107,9 @@
</div>
<div class="contents">
- <div id="mkin-0-9-47-1-2017-02-06" class="section level1">
+ <div id="mkin-0-9-47-1-2018-02-06" class="section level1">
<h1 class="hasAnchor">
-<a href="#mkin-0-9-47-1-2017-02-06" class="anchor"></a>mkin 0.9.47.1 (2017-02-06)</h1>
+<a href="#mkin-0-9-47-1-2018-02-06" class="anchor"></a>mkin 0.9.47.1 (2018-02-06)</h1>
<ul>
<li><p>Skip some test on CRAN and winbuilder to avoid timeouts</p></li>
<li><p>‘test_data_from_UBA_2014’: Added this list of datasets containing experimental data used in the expertise from 2014</p></li>
@@ -594,7 +594,7 @@
<div id="tocnav">
<h2>Contents</h2>
<ul class="nav nav-pills nav-stacked">
- <li><a href="#mkin-0-9-47-1-2017-02-06">0.9.47.1</a></li>
+ <li><a href="#mkin-0-9-47-1-2018-02-06">0.9.47.1</a></li>
<li><a href="#mkin-0-9-46-3-2017-11-16">0.9.46.3</a></li>
<li><a href="#mkin-0-9-46-2-2017-10-10">0.9.46.2</a></li>
<li><a href="#mkin-0-9-46-1-2017-09-14">0.9.46.1</a></li>
diff --git a/docs/reference/Extract.mmkin.html b/docs/reference/Extract.mmkin.html
index e554432f..2a3b1c78 100644
--- a/docs/reference/Extract.mmkin.html
+++ b/docs/reference/Extract.mmkin.html
@@ -263,7 +263,7 @@
#&gt;
#&gt; $time
#&gt; user system elapsed
-#&gt; 0.234 0.000 0.234
+#&gt; 0.242 0.000 0.244
#&gt;
#&gt; $mkinmod
#&gt; &lt;mkinmod&gt; model generated with
@@ -452,8 +452,8 @@
#&gt; }
#&gt; return(mC)
#&gt; }
-#&gt; &lt;bytecode: 0x5555578e66e0&gt;
-#&gt; &lt;environment: 0x555559cd9780&gt;
+#&gt; &lt;bytecode: 0x5555578ff9d0&gt;
+#&gt; &lt;environment: 0x555559a0da40&gt;
#&gt;
#&gt; $cost_notrans
#&gt; function (P)
@@ -475,8 +475,8 @@
#&gt; scaleVar = scaleVar)
#&gt; return(mC)
#&gt; }
-#&gt; &lt;bytecode: 0x55555acf3f50&gt;
-#&gt; &lt;environment: 0x555559cd9780&gt;
+#&gt; &lt;bytecode: 0x555559b90d60&gt;
+#&gt; &lt;environment: 0x555559a0da40&gt;
#&gt;
#&gt; $hessian_notrans
#&gt; parent_0 k_parent_sink
@@ -543,13 +543,13 @@
#&gt; 99.17407
#&gt;
#&gt; $date
-#&gt; [1] "Sun Mar 11 22:10:21 2018"
+#&gt; [1] "Wed Mar 21 18:14:20 2018"
#&gt;
#&gt; $version
#&gt; [1] "0.9.47.1"
#&gt;
#&gt; $Rversion
-#&gt; [1] "3.4.3"
+#&gt; [1] "3.4.4"
#&gt;
#&gt; attr(,"class")
#&gt; [1] "mkinfit" "modFit"
diff --git a/docs/reference/mccall81_245T.html b/docs/reference/mccall81_245T.html
index 80cac442..cb70e68c 100644
--- a/docs/reference/mccall81_245T.html
+++ b/docs/reference/mccall81_245T.html
@@ -150,9 +150,9 @@
<span class='kw'>parms.ini</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='kw'>k_phenol_sink</span> <span class='kw'>=</span> <span class='fl'>0</span>),
<span class='kw'>fixed_parms</span> <span class='kw'>=</span> <span class='st'>"k_phenol_sink"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
<span class='fu'>summary</span>(<span class='no'>fit.2</span>, <span class='kw'>data</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>)</div><div class='output co'>#&gt; mkin version used for fitting: 0.9.47.1
-#&gt; R version used for fitting: 3.4.3
-#&gt; Date of fit: Sun Mar 11 22:10:30 2018
-#&gt; Date of summary: Sun Mar 11 22:10:30 2018
+#&gt; R version used for fitting: 3.4.4
+#&gt; Date of fit: Wed Mar 21 18:14:30 2018
+#&gt; Date of summary: Wed Mar 21 18:14:30 2018
#&gt;
#&gt; Equations:
#&gt; d_T245/dt = - k_T245_sink * T245 - k_T245_phenol * T245
@@ -162,7 +162,7 @@
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted with method Port using 246 model solutions performed in 1.318 s
+#&gt; Fitted with method Port using 246 model solutions performed in 1.403 s
#&gt;
#&gt; Weighting: none
#&gt;
diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html
index 991df1cc..8ac8295f 100644
--- a/docs/reference/mkinfit.html
+++ b/docs/reference/mkinfit.html
@@ -413,16 +413,16 @@
<pre class="examples"><div class='input'><span class='co'># Use shorthand notation for parent only degradation</span>
<span class='no'>fit</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinfit</span>(<span class='st'>"FOMC"</span>, <span class='no'>FOCUS_2006_C</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
<span class='fu'>summary</span>(<span class='no'>fit</span>)</div><div class='output co'>#&gt; mkin version used for fitting: 0.9.47.1
-#&gt; R version used for fitting: 3.4.3
-#&gt; Date of fit: Sun Mar 11 22:10:32 2018
-#&gt; Date of summary: Sun Mar 11 22:10:32 2018
+#&gt; R version used for fitting: 3.4.4
+#&gt; Date of fit: Wed Mar 21 18:14:33 2018
+#&gt; Date of summary: Wed Mar 21 18:14:33 2018
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
#&gt;
#&gt; Model predictions using solution type analytical
#&gt;
-#&gt; Fitted with method Port using 64 model solutions performed in 0.135 s
+#&gt; Fitted with method Port using 64 model solutions performed in 0.14 s
#&gt;
#&gt; Weighting: none
#&gt;
@@ -491,7 +491,7 @@
<span class='kw'>m1</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>))</div><div class='output co'>#&gt; <span class='message'>Successfully compiled differential equation model from auto-generated C code.</span></div><div class='input'><span class='co'># Fit the model to the FOCUS example dataset D using defaults</span>
<span class='fu'>print</span>(<span class='fu'>system.time</span>(<span class='no'>fit</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO</span>, <span class='no'>FOCUS_2006_D</span>,
<span class='kw'>solution_type</span> <span class='kw'>=</span> <span class='st'>"eigen"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)))</div><div class='output co'>#&gt; user system elapsed
-#&gt; 0.829 0.000 0.829 </div><div class='input'><span class='fu'>coef</span>(<span class='no'>fit</span>)</div><div class='output co'>#&gt; parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink
+#&gt; 0.834 0.000 0.835 </div><div class='input'><span class='fu'>coef</span>(<span class='no'>fit</span>)</div><div class='output co'>#&gt; parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink
#&gt; 99.59848 -3.03822 -2.98030 -5.24750 </div><div class='input'><span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>fit</span>)</div><div class='output co'>#&gt; $ff
#&gt; parent_sink parent_m1 m1_sink
#&gt; 0.485524 0.514476 1.000000
diff --git a/docs/reference/mkinpredict.html b/docs/reference/mkinpredict.html
index 044b2d92..4768215b 100644
--- a/docs/reference/mkinpredict.html
+++ b/docs/reference/mkinpredict.html
@@ -306,7 +306,7 @@
<span class='fu'>c</span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='fl'>100</span>, <span class='kw'>m1</span> <span class='kw'>=</span> <span class='fl'>0</span>), <span class='fu'>seq</span>(<span class='fl'>0</span>, <span class='fl'>20</span>, <span class='kw'>by</span> <span class='kw'>=</span> <span class='fl'>0.1</span>),
<span class='kw'>solution_type</span> <span class='kw'>=</span> <span class='st'>"eigen"</span>)[<span class='fl'>201</span>,]))</div><div class='output co'>#&gt; time parent m1
#&gt; 201 20 4.978707 27.46227</div><div class='output co'>#&gt; user system elapsed
-#&gt; 0.002 0.000 0.003 </div><div class='input'> <span class='fu'>system.time</span>(
+#&gt; 0.003 0.000 0.003 </div><div class='input'> <span class='fu'>system.time</span>(
<span class='fu'>print</span>(<span class='fu'>mkinpredict</span>(<span class='no'>SFO_SFO</span>, <span class='fu'>c</span>(<span class='kw'>k_parent_m1</span> <span class='kw'>=</span> <span class='fl'>0.05</span>, <span class='kw'>k_parent_sink</span> <span class='kw'>=</span> <span class='fl'>0.1</span>, <span class='kw'>k_m1_sink</span> <span class='kw'>=</span> <span class='fl'>0.01</span>),
<span class='fu'>c</span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='fl'>100</span>, <span class='kw'>m1</span> <span class='kw'>=</span> <span class='fl'>0</span>), <span class='fu'>seq</span>(<span class='fl'>0</span>, <span class='fl'>20</span>, <span class='kw'>by</span> <span class='kw'>=</span> <span class='fl'>0.1</span>),
<span class='kw'>solution_type</span> <span class='kw'>=</span> <span class='st'>"deSolve"</span>)[<span class='fl'>201</span>,]))</div><div class='output co'>#&gt; time parent m1
@@ -316,7 +316,7 @@
<span class='fu'>c</span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='fl'>100</span>, <span class='kw'>m1</span> <span class='kw'>=</span> <span class='fl'>0</span>), <span class='fu'>seq</span>(<span class='fl'>0</span>, <span class='fl'>20</span>, <span class='kw'>by</span> <span class='kw'>=</span> <span class='fl'>0.1</span>),
<span class='kw'>solution_type</span> <span class='kw'>=</span> <span class='st'>"deSolve"</span>, <span class='kw'>use_compiled</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>)[<span class='fl'>201</span>,]))</div><div class='output co'>#&gt; time parent m1
#&gt; 201 20 4.978707 27.46227</div><div class='output co'>#&gt; user system elapsed
-#&gt; 0.029 0.000 0.029 </div></pre>
+#&gt; 0.033 0.000 0.032 </div></pre>
</div>
<div class="col-md-3 hidden-xs hidden-sm" id="sidebar">
<h2>Contents</h2>
diff --git a/docs/reference/mmkin.html b/docs/reference/mmkin.html
index 65c37898..6c99f07b 100644
--- a/docs/reference/mmkin.html
+++ b/docs/reference/mmkin.html
@@ -134,7 +134,9 @@
<tr>
<th>cores</th>
<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>.</p></td>
+ used when the <code>cluster</code> argument is <code>NULL</code>. On Windows machines,
+ cores &gt; 1 is not supported, you need to use the <code>cluster</code> argument
+ to use multiple logical processors.</p></td>
</tr>
<tr>
<th>cluster</th>
diff --git a/docs/reference/summary.mkinfit.html b/docs/reference/summary.mkinfit.html
index e462fd17..37b8fff8 100644
--- a/docs/reference/summary.mkinfit.html
+++ b/docs/reference/summary.mkinfit.html
@@ -190,16 +190,16 @@
<h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
<pre class="examples"><div class='input'> <span class='fu'>summary</span>(<span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='fu'><a href='mkinmod.html'>mkinmod</a></span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>)), <span class='no'>FOCUS_2006_A</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>))</div><div class='output co'>#&gt; mkin version used for fitting: 0.9.47.1
-#&gt; R version used for fitting: 3.4.3
-#&gt; Date of fit: Sun Mar 11 22:10:41 2018
-#&gt; Date of summary: Sun Mar 11 22:10:41 2018
+#&gt; R version used for fitting: 3.4.4
+#&gt; Date of fit: Wed Mar 21 18:14:42 2018
+#&gt; Date of summary: Wed Mar 21 18:14:42 2018
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - k_parent_sink * parent
#&gt;
#&gt; Model predictions using solution type analytical
#&gt;
-#&gt; Fitted with method Port using 35 model solutions performed in 0.07 s
+#&gt; Fitted with method Port using 35 model solutions performed in 0.072 s
#&gt;
#&gt; Weighting: none
#&gt;
diff --git a/docs/reference/transform_odeparms.html b/docs/reference/transform_odeparms.html
index 5c89f8e2..fb03cdac 100644
--- a/docs/reference/transform_odeparms.html
+++ b/docs/reference/transform_odeparms.html
@@ -184,9 +184,9 @@ The transformation of sets of formation fractions is fragile, as it supposes
<span class='kw'>m1</span> <span class='kw'>=</span> <span class='fu'>list</span>(<span class='kw'>type</span> <span class='kw'>=</span> <span class='st'>"SFO"</span>))</div><div class='output co'>#&gt; <span class='message'>Successfully compiled differential equation model from auto-generated C code.</span></div><div class='input'><span class='co'># Fit the model to the FOCUS example dataset D using defaults</span>
<span class='no'>fit</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='no'>SFO_SFO</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
<span class='fu'>summary</span>(<span class='no'>fit</span>, <span class='kw'>data</span><span class='kw'>=</span><span class='fl'>FALSE</span>) <span class='co'># See transformed and backtransformed parameters</span></div><div class='output co'>#&gt; mkin version used for fitting: 0.9.47.1
-#&gt; R version used for fitting: 3.4.3
-#&gt; Date of fit: Sun Mar 11 22:10:42 2018
-#&gt; Date of summary: Sun Mar 11 22:10:42 2018
+#&gt; R version used for fitting: 3.4.4
+#&gt; Date of fit: Wed Mar 21 18:14:43 2018
+#&gt; Date of summary: Wed Mar 21 18:14:43 2018
#&gt;
#&gt; Equations:
#&gt; d_parent/dt = - k_parent_sink * parent - k_parent_m1 * parent
@@ -194,7 +194,7 @@ The transformation of sets of formation fractions is fragile, as it supposes
#&gt;
#&gt; Model predictions using solution type deSolve
#&gt;
-#&gt; Fitted with method Port using 153 model solutions performed in 0.564 s
+#&gt; Fitted with method Port using 153 model solutions performed in 0.585 s
#&gt;
#&gt; Weighting: none
#&gt;

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