+ </td>
+
+ </tr>
+ <tr>
+ <td>
+ <div align="center"><strong>2.4.0.b2</strong><br>
+ 28/10/2009</div>
+ </td>
+ <td>
+ <ul>
+ <li>Experimental support for google analytics usage tracking.</li>
+ <li>Jalview privacy settings (user preferences and docs).</li>
+ </ul>
+ </td>
+ <td>
+ <ul>
+ <li>Race condition in applet preventing startup in jre1.6.0u12+.</li>
+ <li>Exception when feature created from selection beyond length
+ of sequence.</li>
+ <li>Allow synthetic PDB files to be imported gracefully</li>
+ <li>Sequence associated annotation rows associate with all
+ sequences with a given id</li>
+ <li>Find function matches case-insensitively for sequence ID
+ string searches</li>
+ <li>Non-standard characters do not cause pairwise alignment to
+ fail with exception</li>
+ </ul>
+ <em>Application Issues</em>
+ <ul>
+ <li>Sequences are now validated against EMBL database</li>
+ <li>Sequence fetcher fetches multiple records for all data
+ sources</li>
+ </ul>
+ <em>InstallAnywhere Issues</em>
+ <ul>
+ <li>Dock icon works for Mac OS X java (Mac 1.6 update issue with
+ installAnywhere mechanism)</li>
+ <li>Command line launching of JARs from InstallAnywhere version
+ (java class versioning error fixed)</li>
+ </ul>
+ </td>
+ </tr>
+ <tr>
+ <td>
+
+ <div align="center"><strong>2.4</strong><br>
+ 27/8/2008</div>
+ </td>
+ <td><em>User Interface</em>
+ <ul>
+ <li>Linked highlighting of codon and amino acid from translation
+ and protein products</li>
+ <li>Linked highlighting of structure associated with residue
+ mapping to codon position</li>
+ <li>Sequence Fetcher provides example accession numbers and
+ 'clear' button</li>
+ <li>MemoryMonitor added as an option under Desktop's Tools menu</li>
+ <li>Extract score function to parse whitespace separated numeric
+ data in description line</li>
+ <li>Column labels in alignment annotation can be centred.</li>
+ <li>Tooltip for sequence associated annotation give name of
+ sequence</li>
+ </ul>
+ <em>Web Services and URL fetching</em>
+ <ul>
+ <li>JPred3 web service</li>
+ <li>Prototype sequence search client (no public services
+ available yet)</li>
+ <li>Fetch either seed alignment or full alignment from PFAM</li>
+ <li>URL Links created for matching database cross references as
+ well as sequence ID</li>
+ <li>URL Links can be created using regular-expressions</li>
+ </ul>
+ <em>Sequence Database Connectivity</em>
+ <ul>
+ <li>Retrieval of cross-referenced sequences from other databases
+ </li>
+ <li>Generalised database reference retrieval and validation to
+ all fetchable databases</li>
+ <li>Fetch sequences from DAS sources supporting the sequence
+ command</li>
+ </ul>
+ <em>Import and Export</em>
+ <li>export annotation rows as CSV for spreadsheet import</li>
+ <li>Jalview projects record alignment dataset associations, EMBL
+ products, and cDNA sequence mappings</li>
+ <li>Sequence Group colour can be specified in Annotation File</li>
+ <li>Ad-hoc colouring of group in Annotation File using RGB
+ triplet as name of colourscheme</li>
+ </ul>
+ <em>VAMSAS Client capabilities (Experimental)</em>
+ <ul>
+ <li>treenode binding for VAMSAS tree exchange</li>
+ <li>local editing and update of sequences in VAMSAS alignments
+ (experimental)</li>
+ <li>Create new or select existing session to join</li>
+ <li>load and save of vamsas documents</li>
+ </ul>
+ <em>Application command line</em>
+ <ul>
+ <li>-tree parameter to open trees (introduced for passing from
+ applet)</li>
+ <li>-fetchfrom command line argument to specify nicknames of DAS
+ servers to query for alignment features</li>
+ <li>-dasserver command line argument to add new servers that are
+ also automatically queried for features</li>
+ <li>-groovy command line argument executes a given groovy script
+ after all input data has been loaded and parsed</li>
+ </ul>
+ <em>Applet-Application data exchange</em>
+ <ul>
+ <li>Trees passed as applet parameters can be passed to
+ application (when using "View in full application")</li>
+ </ul>
+ <em>Applet Parameters</em>
+ <ul>
+ <li>feature group display control parameter</li>
+ <li>debug parameter</li>
+ <li>showbutton parameter</li>
+ </ul>
+ <em>Applet API methods</em>
+ <ul>
+ <li>newView public method</li>
+ <li>Window (current view) specific get/set public methods</li>
+ <li>Feature display control methods</li>
+ <li>get list of currently selected sequences</li>
+ </ul>