update 2.6 history
authorjprocter <Jim Procter>
Wed, 22 Sep 2010 11:39:22 +0000 (11:39 +0000)
committerjprocter <Jim Procter>
Wed, 22 Sep 2010 11:39:22 +0000 (11:39 +0000)
help/html/releases.html

index 3d20be5..a1f4a71 100755 (executable)
        <tr>
                <td>
                <div align="center"><strong><a name="Jalview2.6">2.6</a></strong><br>
-               <em>X/7/2010</em></div>
+               <em>23/9/2010</em></div>
                </td>
-               <td>
+               <td><em>Application</em>
                <ul>
-                       <li>Changed minimum Java version required for Jalview<br>
-                       When used with Jmol, JalviewLite needs at least Java 1.5<br>
-                       The application needs at least 1.6.</li>
-                       <li>Updated embedded Jmol to series 12.XX<br><strong>See note about use of applet with Jmol</strong></li>
-                       
+                       <li>Support for <strong>Ja</strong>va <strong>b</strong>ioinformatics
+                       <strong>a</strong>nalysis <strong>w</strong>eb <strong>s</strong>ervices (JABAWS)</li>
+                       <li>Web Services preference tab</li>
+                       <li>Analysis parameters dialog box and user defined preferences</li>
+                       <li>Improved speed and layout of Envision2 service menu</li>
+                       <li>Superpose structures using associated sequence alignment</li>
+                       <li>Export coordinates and projection as CSV from PCA viewer</li>
                </ul>
                <em>Applet</em>
                <ul>
-                       <li></li>
+                       <li>enable javascript: execution by the applet via the link out
+                       mechanism</li>
+               </ul>
+               <em>Other</em>
+               <ul>
+                       <li>Updated the Jmol Jalview interface to work with Jmol series
+                       12</li>
+                       <li>The Jalview Desktop and JalviewLite applet now require Java
+                       1.5</li>
+                       <li>Allow Jalview feature colour specification for GFF sequence
+                       annotation files</li>
+                       <li>New 'colour by label' keword in jalview feature file type
+                       colour specification</li>
+                       <li>New Jalview Desktop Groovy API method that allows a script
+                       to check if it being run in an interactive session or in a batch
+                       operation from the jalview command line</li>
+               </ul>
+               </td>
+               <td>
+               <ul>
+                       <li>clustalx colourscheme colours Ds preferentially when both
+                       D+E are present in over 50% of the column</li>
                </ul>
+
                <em>Application</em>
                <ul>
-                       <li>Jalview 2 Web Services</li>
-                       <li>Web Services configuration tab in preferences</li>
+                       <li>typo in AlignmentFrame-&gt;View-&gt;Hide-&gt;all but
+                       selected Regions menu item</li>
+                       <li>sequence fetcher replaces ',' for ';' when the ',' is part
+                       of a valid accession ID</li>
+                       <li>fatal OOM if object retrieved by sequence fetcher runs out
+                       of memory</li>
+                       <li>unhandled Out of Memory Error when viewing pca analysis
+                       results</li>
+                       <li>InstallAnywhere builds fail to launch on OS X java 10.5
+                       update 4 (due to apple Java 1.6 update)</li>
+                       <li>Installanywhere Jalview silently fails to launch</li>
+               </ul>
+               <em>Applet</em>
+               <ul>
+                       <li>Jalview.getFeatureGroups() raises an
+                       ArrayIndexOutOfBoundsException if no feature groups are defined.</li>
                </ul>
                </td>
-               <td></td>
        </tr>
        <tr>
                <td>