From: Jim Procter <jprocter@issues.jalview.org>
Date: Mon, 7 Aug 2017 08:50:33 +0000 (+0100)
Subject: JAL-2418 reformatting and scripting section in what’s new
X-Git-Tag: Release_2_10_3b1~132^2~15^2~7
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=c02981a7d326f468c33f39f84992a0b183009121;hp=9dd6ed3d1c0f5ea9320a4af528127734cc0fcb8d;p=jalview.git

JAL-2418 reformatting and scripting section in what’s new
---

diff --git a/help/html/whatsNew.html b/help/html/whatsNew.html
index 8a0436d..1f2b221 100755
--- a/help/html/whatsNew.html
+++ b/help/html/whatsNew.html
@@ -32,15 +32,16 @@
     highlights are below.
   </p>
   <ul>
-    <li><strong>New UI, and faster and more configurable implementation for PCA, Neighbour-Joining and UPGMA Trees</strong><br>
+    <li><strong>New UI, and faster and more configurable
+        implementation for PCA, Neighbour-Joining and UPGMA Trees</strong><br>
       Menu entries for calculating PCA and different types of tree have
       been replaced by a single <em>Calculations</em> dialog box. The
-      underlying implementation for the PCA and tree calculations have been
-      made faster and more memory efficient. A new framework has also been
-      created for the score models used to calculate distances between
-      sequences. This framework allows import of substitution matrices in
-      NCBI and AAIndex format, and custom score models to be created via a
-      groovy script.</li>
+      underlying implementation for the PCA and tree calculations have
+      been made faster and more memory efficient. A new framework has
+      also been created for the score models used to calculate distances
+      between sequences. This framework allows import of substitution
+      matrices in NCBI and AAIndex format, and custom score models to be
+      created via a groovy script.</li>
     <li><strong>Update to JABAWS 2.2</strong><br />Jalview's
       alignment, protein conservation analysis, and protein disorder and
       RNA secondary structure prediction services are now provided by <a
@@ -80,5 +81,16 @@
         the Chimera viewer's Chimera menu</a> allow positional annotation to
       be exchanged between Chimera and Jalview.</li>
   </ul>
+  <p>
+    <strong>Scripting</strong><br />New <a
+      href="http://www.jalview.org/examples/groovy">groovy examples</a>
+    demonstrate Jalview 2.10.2 APIs for creation of data-driven
+    colourschemes, and custom alignment file handlers. The <a
+      href="groovy/featuresCounter.html">FeatureAnnotationWorker</a>
+    introduced in Jalview 2.10 has also been refactored to allow
+    efficient counting across multiple feature types. Please be aware
+    that feature counter scripts created for earlier versions will not
+    execute in Jalview 2.10.2.
+  </p>
 </body>
 </html>