Adapt saemix interface to saemix 3.0 on CRAN

4 files changed, 25 insertions, 25 deletions

diff --git a/vignettes/FOCUS_D.html b/vignettes/FOCUS_D.html
index d9127473..0bec44c5 100644
--- a/vignettes/FOCUS_D.html
+++ b/vignettes/FOCUS_D.html
@@ -360,7 +360,7 @@ pre code {
 
 <h1 class="title toc-ignore">Example evaluation of FOCUS Example Dataset D</h1>
 <h4 class="author">Johannes Ranke</h4>
-<h4 class="date">Last change 31 January 2019 (rebuilt 2021-11-17)</h4>
+<h4 class="date">Last change 31 January 2019 (rebuilt 2022-02-08)</h4>
 
 </div>
 
@@ -436,8 +436,8 @@ print(FOCUS_2006_D)</code></pre>
 <pre class="r"><code>summary(fit)</code></pre>
 <pre><code>## mkin version used for fitting:    1.1.0 
 ## R version used for fitting:       4.1.2 
-## Date of fit:     Wed Nov 17 12:15:48 2021 
-## Date of summary: Wed Nov 17 12:15:49 2021 
+## Date of fit:     Tue Feb  8 17:20:25 2022 
+## Date of summary: Tue Feb  8 17:20:26 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - k_parent * parent
diff --git a/vignettes/FOCUS_L.html b/vignettes/FOCUS_L.html
index 96a823cf..4a66985e 100644
--- a/vignettes/FOCUS_L.html
+++ b/vignettes/FOCUS_L.html
@@ -1513,7 +1513,7 @@ div.tocify {
 
 <h1 class="title toc-ignore">Example evaluation of FOCUS Laboratory Data L1 to L3</h1>
 <h4 class="author">Johannes Ranke</h4>
-<h4 class="date">Last change 17 November 2016 (rebuilt 2021-11-17)</h4>
+<h4 class="date">Last change 17 November 2016 (rebuilt 2022-02-08)</h4>
 
 </div>
 
@@ -1534,8 +1534,8 @@ FOCUS_2006_L1_mkin &lt;- mkin_wide_to_long(FOCUS_2006_L1)</code></pre>
 summary(m.L1.SFO)</code></pre>
 <pre><code>## mkin version used for fitting:    1.1.0 
 ## R version used for fitting:       4.1.2 
-## Date of fit:     Wed Nov 17 12:15:51 2021 
-## Date of summary: Wed Nov 17 12:15:51 2021 
+## Date of fit:     Tue Feb  8 17:20:28 2022 
+## Date of summary: Tue Feb  8 17:20:28 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - k_parent * parent
@@ -1635,15 +1635,15 @@ summary(m.L1.SFO)</code></pre>
 ## doubtful</code></pre>
 <pre><code>## mkin version used for fitting:    1.1.0 
 ## R version used for fitting:       4.1.2 
-## Date of fit:     Wed Nov 17 12:15:51 2021 
-## Date of summary: Wed Nov 17 12:15:51 2021 
+## Date of fit:     Tue Feb  8 17:20:28 2022 
+## Date of summary: Tue Feb  8 17:20:28 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted using 369 model solutions performed in 0.082 s
+## Fitted using 369 model solutions performed in 0.081 s
 ## 
 ## Error model: Constant variance 
 ## 
@@ -1740,8 +1740,8 @@ plot(m.L2.FOMC, show_residuals = TRUE,
 <pre class="r"><code>summary(m.L2.FOMC, data = FALSE)</code></pre>
 <pre><code>## mkin version used for fitting:    1.1.0 
 ## R version used for fitting:       4.1.2 
-## Date of fit:     Wed Nov 17 12:15:52 2021 
-## Date of summary: Wed Nov 17 12:15:52 2021 
+## Date of fit:     Tue Feb  8 17:20:28 2022 
+## Date of summary: Tue Feb  8 17:20:28 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
@@ -1818,8 +1818,8 @@ plot(m.L2.DFOP, show_residuals = TRUE, show_errmin = TRUE,
 <pre class="r"><code>summary(m.L2.DFOP, data = FALSE)</code></pre>
 <pre><code>## mkin version used for fitting:    1.1.0 
 ## R version used for fitting:       4.1.2 
-## Date of fit:     Wed Nov 17 12:15:52 2021 
-## Date of summary: Wed Nov 17 12:15:52 2021 
+## Date of fit:     Tue Feb  8 17:20:29 2022 
+## Date of summary: Tue Feb  8 17:20:29 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) * exp(-k2 *
@@ -1828,7 +1828,7 @@ plot(m.L2.DFOP, show_residuals = TRUE, show_errmin = TRUE,
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted using 581 model solutions performed in 0.134 s
+## Fitted using 581 model solutions performed in 0.136 s
 ## 
 ## Error model: Constant variance 
 ## 
@@ -1918,8 +1918,8 @@ plot(mm.L3)</code></pre>
 <pre class="r"><code>summary(mm.L3[[&quot;DFOP&quot;, 1]])</code></pre>
 <pre><code>## mkin version used for fitting:    1.1.0 
 ## R version used for fitting:       4.1.2 
-## Date of fit:     Wed Nov 17 12:15:52 2021 
-## Date of summary: Wed Nov 17 12:15:52 2021 
+## Date of fit:     Tue Feb  8 17:20:29 2022 
+## Date of summary: Tue Feb  8 17:20:29 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) * exp(-k2 *
@@ -1928,7 +1928,7 @@ plot(mm.L3)</code></pre>
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted using 376 model solutions performed in 0.08 s
+## Fitted using 376 model solutions performed in 0.078 s
 ## 
 ## Error model: Constant variance 
 ## 
@@ -2026,8 +2026,8 @@ plot(mm.L4)</code></pre>
 <pre class="r"><code>summary(mm.L4[[&quot;SFO&quot;, 1]], data = FALSE)</code></pre>
 <pre><code>## mkin version used for fitting:    1.1.0 
 ## R version used for fitting:       4.1.2 
-## Date of fit:     Wed Nov 17 12:15:53 2021 
-## Date of summary: Wed Nov 17 12:15:53 2021 
+## Date of fit:     Tue Feb  8 17:20:29 2022 
+## Date of summary: Tue Feb  8 17:20:30 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - k_parent * parent
@@ -2090,8 +2090,8 @@ plot(mm.L4)</code></pre>
 <pre class="r"><code>summary(mm.L4[[&quot;FOMC&quot;, 1]], data = FALSE)</code></pre>
 <pre><code>## mkin version used for fitting:    1.1.0 
 ## R version used for fitting:       4.1.2 
-## Date of fit:     Wed Nov 17 12:15:53 2021 
-## Date of summary: Wed Nov 17 12:15:53 2021 
+## Date of fit:     Tue Feb  8 17:20:30 2022 
+## Date of summary: Tue Feb  8 17:20:30 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
diff --git a/vignettes/mkin.html b/vignettes/mkin.html
index 58d49112..8a1a7641 100644
--- a/vignettes/mkin.html
+++ b/vignettes/mkin.html
@@ -1591,12 +1591,12 @@ div.tocify {
 
 <h1 class="title toc-ignore">Introduction to mkin</h1>
 <h4 class="author">Johannes Ranke</h4>
-<h4 class="date">Last change 15 February 2021 (rebuilt 2021-09-16)</h4>
+<h4 class="date">Last change 15 February 2021 (rebuilt 2022-02-08)</h4>
 
 </div>
 
 
-<p><a href="https://www.jrwb.de">Wissenschaftlicher Berater, Kronacher Str. 12, 79639 Grenzach-Wyhlen, Germany</a><br /> <a href="http://chem.uft.uni-bremen.de/ranke/">Privatdozent at the University of Bremen</a></p>
+<p><a href="https://www.jrwb.de">Wissenschaftlicher Berater, Kronacher Str. 12, 79639 Grenzach-Wyhlen, Germany</a><br /> Privatdozent at the University of Freiburg</p>
 <div id="abstract" class="section level1">
 <h1>Abstract</h1>
 <p>In the regulatory evaluation of chemical substances like plant protection products (pesticides), biocides and other chemicals, degradation data play an important role. For the evaluation of pesticide degradation experiments, detailed guidance has been developed, based on nonlinear optimisation. The <code>R</code> add-on package <code>mkin</code> implements fitting some of the models recommended in this guidance from within R and calculates some statistical measures for data series within one or more compartments, for parent and metabolites.</p>
@@ -1713,7 +1713,7 @@ plot_sep(f_SFO_SFO_SFO, lpos = c(&quot;topright&quot;, &quot;bottomright&quot;,
 <p>Schäfer, D., B. Mikolasch, P. Rainbird, and B. Harvey. 2007. “KinGUI: A New Kinetic Software Tool for Evaluations According to FOCUS Degradation Kinetics.” In <em>Proceedings of the Xiii Symposium Pesticide Chemistry</em>, edited by Del Re A. A. M., Capri E., Fragoulis G., and Trevisan M., 916–23. Piacenza.</p>
 </div>
 <div id="ref-soetaert2010">
-<p>Soetaert, Karline, and Thomas Petzoldt. 2010. “Inverse Modelling, Sensitivity and Monte Carlo Analysis in R Using Package FME.” <em>Journal of Statistical Software</em> 33 (3): 1–28. <a href="https://www.jstatsoft.org/v33/i03/">https://www.jstatsoft.org/v33/i03/</a>.</p>
+<p>Soetaert, Karline, and Thomas Petzoldt. 2010. “Inverse Modelling, Sensitivity and Monte Carlo Analysis in R Using Package FME.” <em>Journal of Statistical Software</em> 33 (3): 1–28. <a href="https://doi.org/10.18637/jss.v033.i03">https://doi.org/10.18637/jss.v033.i03</a>.</p>
 </div>
 </div>
 </div>
diff --git a/vignettes/twa.html b/vignettes/twa.html
index 25a4c396..dc8f685f 100644
--- a/vignettes/twa.html
+++ b/vignettes/twa.html
@@ -253,7 +253,7 @@ code > span.er { color: #a61717; background-color: #e3d2d2; }
 
 <h1 class="title toc-ignore">Calculation of time weighted average concentrations with mkin</h1>
 <h4 class="author">Johannes Ranke</h4>
-<h4 class="date">Last change 18 September 2019 (rebuilt 2021-09-16)</h4>
+<h4 class="date">Last change 18 September 2019 (rebuilt 2022-02-08)</h4>