<head><title>What's new ?</title></head>
<body>
<p><strong>What's new ?</strong> </p>
-<p>If you are reading this then you will already have seen some of the recent changes
- made to Jalview.<br>
- Jalview takes advantage of some of the more recent user interface developments
- in the Java programming language. For instance Jalview is now a multi windowed
- application, this keeps all your Jalview windows neatly together in one main
- application window. </p>
-<p>If you were familiar with the original Jalview, here is a list of important
- features you should know about the current development:</p>
-<ul>
- <li>Editing sequences is no longer the default when mouse clicking the alignment.
- Instead, mouse clicking on the alignment creates a "selection region"
- which may be full sequences or groups of residues.</li>
- <li>To insert or edit the gaps in one sequence in alignment, the
- "Shift" key must be held down when dragging the mouse.</li>
- <li>To insert or edit gaps for a group of sequences, the
- "Alt" key (or in X windows the "Control"
- key) must be held down.</li>
- <li>Selecting colour schemes in the colour menu either sets just the
- "background" colourscheme for the alignment, or - when
- the tickbox "Apply colour to all groups" is ticked,
- applies the scheme to the background and all groups defined on the alignment.</li>
- <li>Use the right mouse button (apple and click on the Mac) whilst
- the pointer is within the selection area to access the "define" region menu to
- define a new region, give it a name, and change its colourscheme and display
- properties.</li>
- <li>Conservation is automatically updated whenever the alignment is edited</li>
- <li>There is no "quick draw" option</li>
- <li>Edits can be undone, and redone!</li>
-</ul>
+
+<p><strong>Jalview Version 2.2</strong></p>
+<p>Multiple views with different styles, colours, hidden regions for one alignment
+</p>
+<p>Easily add, amend and delete sequence features
+</p>
+<p>"Reload" alignment from File or URL to revert to original
+</p>
+<p>"Save" to current filename or "Save As" to new filename
+</p>
+<p>Set different text colour for dark or light background
+</p>
+<p>Right align sequence ids
+</p>
+<p>Set colour of lower case residues in a user defined colour scheme
+</p>
+<p>Menu Rearrangements: New <strong>Format</strong> for alignment layout and <strong>Select</strong> for region selection.
+</p>
+</p><p>Menu item accelerator keys added
+</p>
+<p>Control-V pastes sequences to active window, Control-Shift-V pastes to a new window.
+</p>
+<p>Raise/Minimise alignment and all associated windows from desktop window's <strong>window</strong> menu
+</p>
+<p>Select and colour whole branches of a tree</p>
+<p>'New Window' button on the 'Output to Text box' alignment output
+option to open a new alignment window after editing.</p>
+<p><strong>Issues Resolved</strong></p>
+</p>
+<p>
+Optimisations for large alignments: faster multithreaded calculations and Undo/Redo system.
+</p>
+<p>Remove empty columns - if empty columns exist at the end of the
+alignment bug fixed.
+</p>
+<p>DAS feature fetching slowed down, doesn't overload DAS servers
+</p>
+<p>DAS feature fetching can be cancelled
+</p>
+<p>Correct display of > and < symbols for feature descriptions without explicit <html> tags.
+</p>
+<p>Zoom working in PCA viewer
+</p>
+<p>Sequence Descriptions retained after running a web service
+</p>
+<p> </p>
+<p>See the <a href="releases.html">Release History</a> page for details of all
+ new features and resolved issues. </p>
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git://source.jalview.org / jalview.git / blobdiff