Prepare release of v1.2.4v1.2.4

- Update DESCRIPTION
- Update Makefile to document how to use R-patched
- Remove markup from two URLs to avoid CRAN NOTE
- Switch two vignettes from html_document to html_vignette to save space
  in the docs directory, also avoiding a CRAN NOTE
- Complete rebuild of pkgdown docs for release

1 files changed, 8 insertions, 4 deletions

diff --git a/docs/news/index.html b/docs/news/index.html
index 7dcccffb..16fce355 100644
--- a/docs/news/index.html
+++ b/docs/news/index.html
@@ -17,7 +17,7 @@
       </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">1.2.3.1</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.2.4</span>
       </span>
     </div>
 
@@ -105,11 +105,15 @@
     </div>
 
     <div class="section level2">
-<h2 class="page-header" data-toc-text="1.2.3.1" id="mkin-1231">mkin 1.2.3.1<a class="anchor" aria-label="anchor" href="#mkin-1231"></a></h2>
-<ul><li>Small fixes to get the online docs right, rebuild online docs</li>
+<h2 class="page-header" data-toc-text="1.2.4" id="mkin-124">mkin 1.2.4<a class="anchor" aria-label="anchor" href="#mkin-124"></a></h2>
+<ul><li>R/endpoints.R: Fix the calculation of endpoints for user specified covariate values</li>
 </ul></div>
     <div class="section level2">
-<h2 class="page-header" data-toc-text="1.2.3" id="mkin-123">mkin 1.2.3<a class="anchor" aria-label="anchor" href="#mkin-123"></a></h2>
+<h2 class="page-header" data-toc-text="1.2.3.1" id="mkin-1231-unreleased">mkin 1.2.3.1 (unreleased)<a class="anchor" aria-label="anchor" href="#mkin-1231-unreleased"></a></h2>
+<ul><li>Small fixes to get the online docs right (example code in R/hierarchical_kinetics, cluster setup in cyantraniliprole and dmta pathway vignettes, graphics and model comparison in multistart vignette), rebuild online docs</li>
+</ul></div>
+    <div class="section level2">
+<h2 class="page-header" data-toc-text="1.2.3" id="mkin-123-2023-04-17">mkin 1.2.3 (2023-04-17)<a class="anchor" aria-label="anchor" href="#mkin-123-2023-04-17"></a></h2>
 <ul><li><p>‘R/{endpoints,parms,plot.mixed.mmkin,summary.saem.mmkin}.R’: Calculate parameters and endpoints and plot population curves for specific covariate values, or specific percentiles of covariate values used in saem fits.</p></li>
 <li><p>Depend on current deSolve version with the possibility to avoid resolving symbols in a shared library (compiled models) over and over, thanks to Thomas Petzoldt.</p></li>
 <li><p>‘inst/rmarkdown/templates/hierarchical_kinetics/skeleton/skeleton.Rmd’: Start a new cluster after creating a model stored in the user specified location, because otherwise symbols are not found by the worker processes.</p></li>