Prepare for v1.0.0v1.0.0

- Improve authorship and copyright information
- Prepare pkgdown config
- Remove dependence on saemix as we need the development version which
is not ready for CRAN
- Temporarily remove saemix interface to check code coverage of the rest

1 files changed, 35 insertions, 6 deletions

diff --git a/docs/news/index.html b/docs/news/index.html
index 6b6fd2c4..88c7c49c 100644
--- a/docs/news/index.html
+++ b/docs/news/index.html
@@ -71,7 +71,7 @@
       </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">0.9.50.3</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.0</span>
       </span>
     </div>
 
@@ -120,7 +120,7 @@
       <ul class="nav navbar-nav navbar-right">
         <li>
   <a href="https://github.com/jranke/mkin/">
-    <span class="fab fa fab fa-github fa-lg"></span>
+    <span class="fab fa-github fa-lg"></span>
      
   </a>
 </li>
@@ -141,9 +141,38 @@
       <small>Source: <a href='https://github.com/jranke/mkin/blob/master/NEWS.md'><code>NEWS.md</code></a></small>
     </div>
 
-    <div id="mkin-0-9-50-3" class="section level1">
+    <div id="mkin-1-0-0" class="section level1">
+<h1 class="page-header" data-toc-text="1.0.0">
+<a href="#mkin-1-0-0" class="anchor"></a>mkin 1.0.0<small> Unreleased </small>
+</h1>
+<div id="general" class="section level2">
+<h2 class="hasAnchor">
+<a href="#general" class="anchor"></a>General</h2>
+<ul>
+<li><p>‘mkinmod’ models gain arguments ‘name’ and ‘dll_dir’ which, in conjunction with a current version of the ‘inline’ package, make it possible to still use the DLL used for fast ODE solutions with ‘deSolve’ after saving and restoring the ‘mkinmod’ object.</p></li>
+<li><p>‘mkindsg’ R6 class for groups of ‘mkinds’ datasets with metadata</p></li>
+<li><p>‘f_norm_temp_focus’ generic function to normalise time intervals using the FOCUS method, with methods for numeric vectors and ‘mkindsg’ objects</p></li>
+<li><p>‘D24_2014’ and ‘dimethenamid_2018’ datasets</p></li>
+<li><p>‘focus_soil_moisture’ FOCUS default soil moisture data</p></li>
+<li><p>‘update’ method for ‘mmkin’ objects</p></li>
+<li><p>‘transform_odeparms’, ‘backtransform_odeparms’: Use logit transformation for solitary fractions like the g parameter of the DFOP model, or formation fractions for a pathway to only one target variable</p></li>
+<li><p>‘plot.mmkin’: Add a ylab argument, making it possible to customize the y axis label of the panels on the left without affecting the residual plots. Reduce legend size and vertical distance between panels</p></li>
+<li><p>‘plot.mkinfit’: Change default ylab from “Observed” to “Residue”. Pass xlab to residual plot if show_residuals is TRUE.</p></li>
+</ul>
+</div>
+<div id="mixed-effects-models" class="section level2">
+<h2 class="hasAnchor">
+<a href="#mixed-effects-models" class="anchor"></a>Mixed-effects models</h2>
+<ul>
+<li><p>‘mixed.mmkin’ New container for mmkin objects for plotting with the ‘plot.mixed.mmkin’ method</p></li>
+<li><p>‘plot.mixed.mmkin’ method used for ‘nlme.mmkin’ inheriting from ‘mixed.mmkin’ (currently virtual)</p></li>
+<li><p>‘plot’, ‘summary’ and ‘print’ methods for ‘nlme.mmkin’ objects</p></li>
+</ul>
+</div>
+</div>
+    <div id="mkin-0-9-50-3-2020-10-08" class="section level1">
 <h1 class="page-header" data-toc-text="0.9.50.3">
-<a href="#mkin-0-9-50-3" class="anchor"></a>mkin 0.9.50.3<small> 2020-10-08 </small>
+<a href="#mkin-0-9-50-3-2020-10-08" class="anchor"></a>mkin 0.9.50.3 (2020-10-08)<small> 2020-10-08 </small>
 </h1>
 <ul>
 <li><p>‘parms’: Add a method for mmkin objects</p></li>
@@ -465,7 +494,7 @@
 <ul>
 <li><p>Add plots to <code>compiled_models</code> vignette</p></li>
 <li><p>Give an explanatory error message when mkinmod fails due to a missing definition of a target variable</p></li>
-<li><p><code><a href="../reference/print.mkinmod.html">print.mkinmod()</a></code>: Improve formatting when printing mkinmod model definitions</p></li>
+<li><p><code><a href="../reference/mkinmod.html">print.mkinmod()</a></code>: Improve formatting when printing mkinmod model definitions</p></li>
 </ul>
 </div>
 </div>
@@ -617,7 +646,7 @@
 <h2 class="hasAnchor">
 <a href="#new-features-2" class="anchor"></a>New features</h2>
 <ul>
-<li><p>Add the convenience function <code><a href="../reference/mkinsub.html">mkinsub()</a></code> for creating the lists used in <code><a href="../reference/mkinmod.html">mkinmod()</a></code></p></li>
+<li><p>Add the convenience function <code><a href="../reference/mkinmod.html">mkinsub()</a></code> for creating the lists used in <code><a href="../reference/mkinmod.html">mkinmod()</a></code></p></li>
 <li><p>Add the possibility to fit indeterminate order rate equation (IORE) models using an analytical solution (parent only) or a numeric solution. Paths from IORE compounds to metabolites are supported when using formation fractions (use_of_ff = ‘max’). Note that the numerical solution (method.ode = ‘deSolve’) of the IORE differential equations sometimes fails due to numerical problems.</p></li>
 <li><p>Switch to using the Port algorithm (using a model/trust region approach) per default. While needing more iterations than the Levenberg-Marquardt algorithm previously used per default, it is less sensitive to starting parameters.</p></li>
 </ul>