group/annotation association

[jalview.git] / help / html / releases.html

diff --git a/help/html/releases.html b/help/html/releases.html
index dd90b65..fcb9534 100755 (executable)
--- a/help/html/releases.html
+++ b/help/html/releases.html
@@ -19,31 +19,22 @@
        <tr>
 
                <td>
-               <div align="center"><strong>2.4.1</strong><br>
+               <div align="center"><strong>2.5</strong><br>
                <em>Not Yet Released</em></div>
                </td>
                <td>
                <ul>
-                       <li>Fetch DB References capabilities and UI expanded to support
-                       retrieval from DAS sequence sources</li>
-                       <li>Local DAS Sequence sources can be added via the command line
-                       or via the Add local source dialog box.</li>
-                       <li>Enable or disable non-positional feature and database
-                       references in sequence ID tooltip from View menu in application.</li>
-                       <li>Parsing of Dbref and DbxRef feature types as database
-                       references</li>
                        <li>URL links generated from description line for
                        regular-expression based URL links (applet and application)
                        <li>Non-positional feature URL links are shown in link menu</li>
                        <li>Linked viewing of nucleic acid sequences and structures</li>
                        <li>Automatic Scrolling option in View menu to display the
                        currently highlighted region of an alignment.</li>
-                       <li>Optionally scale multi-character column labels to fit within each column<!-- todo for applet --></li>
+                       <li>Optionally scale multi-character column labels to fit within each column of annotation row<!-- todo for applet --></li>
                        <!-- introduced but not yet documented <li>Experimental blast report parser</li> -->
                </ul>
                <em>Vamsas Capabilities</em>
                <ul>
-                       <li>
                        <li>Improved VAMSAS synchronization (jalview archive used to
                        preserve views, structures, and tree display settings)</li>
                        <li>Import of vamsas documents from disk or URL via command line</li>
@@ -53,8 +44,16 @@
                </ul>
                <em>Application</em>
                <ul>
-                       <li>New hidden columns and rows and representatives capabilities
-                       in annotations file (in progress - not yet fully implemented)</li>
+                       <li>Fetch DB References capabilities and UI expanded to support
+                       retrieval from DAS sequence sources</li>
+                       <li>Local DAS Sequence sources can be added via the command line
+                       or via the Add local source dialog box.</li>
+                       <li>DAS Dbref and DbxRef feature types are parsed as database
+                       references and protein_name is parsed as description line (BioSapiens terms).</li>
+                       <li>Enable or disable non-positional feature and database
+                       references in sequence ID tooltip from View menu in application.</li>
+       <!--                    <li>New hidden columns and rows and representatives capabilities
+                       in annotations file (in progress - not yet fully implemented)</li> -->
                        <li>Order an alignment in order of average feature score or
                        total feature count</li>
                        <li>Shading features by score or associated description</li>
@@ -65,6 +64,7 @@
                        <li>Optional automatic sort of associated alignment view when a
                        new tree is opened.</li>
                        <li>Jalview Java Console</li>
+                       <li>New preference items for sequence ID tooltip and consensus annotation</li>
                </ul>
                <em>Applet</em>
                <ul>
@@ -77,12 +77,13 @@
                <ul>
                        <li>Features format: graduated colour definitions and
                        specification of feature scores</li>
-                       <li>
+                       <li>XML formats extended to support graduated feature colourschemes, group associated annotation, and profile visualization settings.</li>
                </td>
                <td>
                <ul>
                        <li>Source field in GFF files parsed as feature source rather
                        than description</li>
+                       <li>Non-positional features are now included in sequence feature and gff files (controlled via non-positional feature visibility in tooltip).</li>
                        <li>URL links generated for all feature links (bugfix)</li>
                        <li>Added URL embedding instructions to features file
                        documentation.</li>