<head><title>What's new ?</title></head>\r
<body>\r
<p><strong>What's new ?</strong> </p>\r
-<p>Jalview Version 2.07 </p>\r
-<p><a href="features/seqfetch.html">Sequence Fetcher</a> has been added to quickly\r
- retrieve sequences with known ids from several databases.</p>\r
-<p><a href="features/seqfeatures.html">Sequence Features enhanced</a> to allow\r
- the user to display all features of a Uniprot file on the alignment and subsequently\r
- colour, hide or show overlapping features. </p>\r
-<p><a href="io/fileformats.html">Choose to omit /start-end from sequences when\r
- saving files.</a> This is important for saving files to be used by some programs\r
- which cannot read the original Jalview sequence output with the appended /start-end.</p>\r
-<p><a href="features/pdbviewer.html">PDB structure viewer enhanced</a>. Mapping\r
- between sequence and structure has been enhanced, colours on the alignment are\r
- reflected in the structure viewer.</p>\r
-<p><a href="http://www.jalview.org/examples/applets.html">Jalview Applet can read\r
- in feature files, PDB files be used as input to HTML form</a> See the website\r
- to find out the new parameters available for the Applet Version of Jalview.</p>\r
-<p> </p>\r
+<p>Jalview Version 2.08</p>\r
+<p><a href="editing/index.html">Editing</a> can be <a href="editing/selectionAreas.html">locked to the\r
+ selection area</a> so that any edits made within the locked area do\r
+ not unexpectedly shift other parts of the alignment.</p>\r
+<p> Keyboard editing - press F2 to toggle <a href="features/cursorMode.html">cursor mode</a> On / Off. For a full list \r
+ of keyboard controls, look <a href="keys.html">here</a>.</p>\r
+<p> <a href="features/search.html">Create sequence features from searches</a>. \r
+ Previously, the regions of sequences highlighted as the result of\r
+ searches were added as new regions in the alignment. Now, the sequence region\r
+ selected by a search can be used to define named sequences features\r
+ attached to the sequence, rather than the alignment.\r
+ </p>\r
+<p>Sequence feature display and rendering has also been enhanced, with\r
+ the addition of sequence feature groups (which can be used to show\r
+ or hide a set of features <em>en masse</em>) and user defined\r
+ feature colours as well as transparency controls, using the <a\r
+ href="features/featuresettings.html">Sequence Feature Settings</a>\r
+ window. The <a href="features/featuresFormat.html">Features file</a>\r
+ has also been extended to accomodate these enhancements.</p>\r
+<p>Alignment annotation and colouring is also considerably\r
+ enhanced. Precalculated symbolic and quantitative annotations (text labels,\r
+ secondary structure symbols and multiple scalar graphs) can now be\r
+ loaded onto alignments via the <a\r
+ href="features/annotationsFormat.html">Annotation\r
+ File</a>. Additionally, the <a\r
+ href="colourSchemes/annotationColouring.html">Annotation\r
+ Colouring</a> dialog box allows an alignment to be coloured based on\r
+ any of the graphed quantities with which it is annotated.</p>\r
+<p>Rendering speed has been improved by disabling anti-aliasing via\r
+ the <strong>Smooth Fonts</strong>\r
+ option in the <strong>View \r
+ menu</strong> (its default set in <strong>Preferences</strong>). In addition, response\r
+ times when editing alignments can be reduced by turning off the automatic\r
+ calculation of amino acid property Consensus (which has been\r
+ reintroduced to the <strong>Calculate</strong> menu as <strong>Autocalculate Consensus</strong>).<br>\r
+</p>\r
<p><strong>Issues Resolved</strong></p>\r
-<p>Group Editing is possible with Control and mouse click. Alt key and mouse press\r
- does not work as this translates as the middle mouse button, which since 2.04\r
- is now used to scroll the alignment and change the font size. </p>\r
-<p>HTML export now writes groups and features which were previously missing.</p>\r
-<p> </p>\r
+<ul>\r
+<li>Drag & Drop now works on common Linux desktops (at least KDE\r
+and Gnome)</li>\r
+<li>Jalview XML Archive Input/Output is now faster (using an\r
+internal Jalview schema), and sequence description strings are now\r
+preserved in the archive.</li>\r
+<li>Jalview can now correctly read and write <a\r
+href="io/modellerpir.html">MODELLER style\r
+PIR</a> files.\r
+</li>\r
+</ul>\r
<p>See the <a href="releases.html">Release History</a> page for details of all\r
new features and resolved issues. </p>\r
</body>\r
git://source.jalview.org / jalview.git / blobdiff