-
- Release |
- New Features |
- Issues Resolved |
-
-
- |
- 2.1.1
- 12/9/06 |
-
- - Copy consensus sequence to clipboard
- |
-
- - Image output - rightmost residues are rendered if sequence id panel
- has been resized
- - Image output - all offscreen group boundaries are rendered
- - Annotation files with sequence references - all elements in file are
- relative to sequence position
- - Mac Applet users can use Alt key for group editing
- |
-
-
- 2.1
- 22/8/06 |
-
- - MAFFT Multiple Alignment in default Web Service list
- - DAS Feature fetching
- - Hide sequences and columns
- - Export Annotations and Features
- - GFF file reading / writing
- - Associate structures with sequences from local PDB files
- - Add sequences to exisiting alignment
- - Recently opened files / URL lists
- - Applet can launch the full application
- - Applet has transparency for features (Java 1.2 required)
- - Applet has user defined colours parameter
- - Applet can load sequences from parameter "sequencex"
- |
-
- - Redundancy Panel reinstalled in the Applet
- - Monospaced font - EPS / rescaling bug fixed
- - Annotation files with sequence references bug fixed
- |
-
-
- 2.08.1
- 2/5/06 |
-
- - Change case of selected region from Popup menu
- - Choose to match case when searching
- - Middle mouse button and mouse movement can compress / expand the visible
- width and height of the alignment
- |
-
- - Annotation Panel displays complete JNet results
- |
-
-
- 2.08b
- 18/4/06 |
- |
-
- - Java 1.5 bug - InternalMessageDialog fix for threads
- - Righthand label on wrapped alignments shows correct value
- |
-
-
- 2.08
- 10/4/06 |
-
- - Editing can be locked to the selection area
- - Keyboard editing
- - Create sequence features from searches
- - Precalculated annotations can be loaded onto alignments
- - Features file allows grouping of features
- - Annotation Colouring scheme added
- - Smooth fonts off by default - Faster rendering
- - Choose to toggle Autocalculate Consensus On/Off
- |
-
- - Drag & Drop fixed on Linux
- - Jalview Archive file faster to load/save, sequence descriptions saved.
-
- |
-
-
- 2.07
- 12/12/05 |
-
- - PDB Structure Viewer enhanced
- - Sequence Feature retrieval and display enhanced
- - Choose to output sequence start-end after sequence name for file output
- - Sequence Fetcher WSDBFetch@EBI
- - Applet can read feature files, PDB files and can be used for HTML
- form input
- |
-
- - HTML output writes groups and features
- - Group editing is Control and mouse click
- - File IO bugs
- |
-
-
- 2.06
- 28/9/05 |
-
- - View annotations in wrapped mode
- - More options for PCA viewer
- |
-
- - GUI bugs resolved
- - Runs with -nodisplay from command line
- |
-
-
- | 2.05b
- 15/9/05 |
-
- - Choose EPS export as lineart or text
- - Jar files are executable
- - Can read in Uracil - maps to unknown residue
- |
-
- - Known OutOfMemory errors give warning message
- - Overview window calculated more efficiently
- - Several GUI bugs resolved
- |
-
-
- 2.05
- 30/8/05 |
-
- - Edit and annotate in "Wrapped" view
- |
-
- - Several GUI bugs resolved
- |
-
-
- 2.04
- 24/8/05 |
-
- - Hold down mouse wheel & scroll to change font size
- |
-
- - Improved JPred client reliability
- - Improved loading of Jalview files
- |
-
-
- | 2.03
- 18/8/05 |
-
- - Set Proxy server name and port in preferences
- - Multiple URL links from sequence ids
- - User Defined Colours can have a scheme name and added to Colour Menu
- - Choose to ignore gaps in consensus calculation
- - Unix users can set default web browser
- - Runs without GUI for batch processing
- - Dynamically generated Web Service Menus
- |
-
- - InstallAnywhere download for Sparc Solaris
- |
-
-
- | 2.02
- 18/7/05 |
- |
-
- - Copy & Paste order of sequences maintains alignment order.
- |
-
-
- 2.01
- 12/7/05 |
-
- - Use delete key for deleting selection.
- - Use Mouse wheel to scroll sequences.
- - Help file updated to describe how to add alignment annotations.
- - Version and build date written to build properties file.
- - InstallAnywhere installation will check for updates at launch of Jalview.
- |
-
- - Delete gaps bug fixed.
- - FileChooser sorts columns.
- - Can remove groups one by one.
- - Filechooser icons installed.
- - Finder ignores return character when searching. Return key will initiate
- a search.
-
- |
-
-
- | 2.0
- 20/6/05 |
- |
- |
-
-
-
+
+ Release |
+ New Features |
+ Issues Resolved |
+
+
+ 2.2
+ 27/11/06 |
+ - Multiple views on alignment
+
- Sequence feature editing
+
- "Reload" alignment
+
- "Save" to current filename
+
- Background dependent text colour
+
- Right align sequence ids
+
- User-defined lower case residue colours
+
- Format Menu
+
- Select Menu
+
- Menu item accelerator keys
+
- Control-V pastes to current alignment
+
- Cancel button for DAS Feature Fetching
+
- PCA and PDB Viewers zoom via mouse roller
+
- User-defined sub-tree colours and sub-tree selection
+
- 'New Window' button on the 'Output to Text box'
+
+ |
+
+
+- New memory efficient Undo/Redo System
+
- Optimised symbol lookups and conservation/consensus calculations
+
- Region Conservation/Consensus recalculated after edits
+
- Fixed Remove Empty Columns Bug (empty columns at end of alignment)
+
- Slowed DAS Feature Fetching for increased robustness.
+
- Made angle brackets in ASCII feature descriptions display correctly
+
- Re-instated Zoom function for PCA
+
- Sequence descriptions conserved in web service analysis results
+
- Uniprot ID discoverer uses any word separated by ∣
+
- WsDbFetch query/result association resolved
+
- Tree leaf to sequence mapping improved
+
- Smooth fonts switch moved to FontChooser dialog box.
+
|
+
+
+ |
+ 2.1.1
+ 12/9/06 |
+
+ - Copy consensus sequence to clipboard
+ |
+
+ - Image output - rightmost residues are rendered if sequence id panel
+ has been resized
+ - Image output - all offscreen group boundaries are rendered
+ - Annotation files with sequence references - all elements in file are
+ relative to sequence position
+ - Mac Applet users can use Alt key for group editing
+ |
+
+
+ 2.1
+ 22/8/06 |
+
+ - MAFFT Multiple Alignment in default Web Service list
+ - DAS Feature fetching
+ - Hide sequences and columns
+ - Export Annotations and Features
+ - GFF file reading / writing
+ - Associate structures with sequences from local PDB files
+ - Add sequences to exisiting alignment
+ - Recently opened files / URL lists
+ - Applet can launch the full application
+ - Applet has transparency for features (Java 1.2 required)
+ - Applet has user defined colours parameter
+ - Applet can load sequences from parameter "sequencex"
+ |
+
+ - Redundancy Panel reinstalled in the Applet
+ - Monospaced font - EPS / rescaling bug fixed
+ - Annotation files with sequence references bug fixed
+ |
+
+
+ 2.08.1
+ 2/5/06 |
+
+ - Change case of selected region from Popup menu
+ - Choose to match case when searching
+ - Middle mouse button and mouse movement can compress / expand the visible
+ width and height of the alignment
+ |
+
+ - Annotation Panel displays complete JNet results
+ |
+
+
+ 2.08b
+ 18/4/06 |
+ |
+
+ - Java 1.5 bug - InternalMessageDialog fix for threads
+ - Righthand label on wrapped alignments shows correct value
+ |
+
+
+ 2.08
+ 10/4/06 |
+
+ - Editing can be locked to the selection area
+ - Keyboard editing
+ - Create sequence features from searches
+ - Precalculated annotations can be loaded onto alignments
+ - Features file allows grouping of features
+ - Annotation Colouring scheme added
+ - Smooth fonts off by default - Faster rendering
+ - Choose to toggle Autocalculate Consensus On/Off
+ |
+
+ - Drag & Drop fixed on Linux
+ - Jalview Archive file faster to load/save, sequence descriptions saved.
+
+ |
+
+
+ 2.07
+ 12/12/05 |
+
+ - PDB Structure Viewer enhanced
+ - Sequence Feature retrieval and display enhanced
+ - Choose to output sequence start-end after sequence name for file output
+ - Sequence Fetcher WSDBFetch@EBI
+ - Applet can read feature files, PDB files and can be used for HTML
+ form input
+ |
+
+ - HTML output writes groups and features
+ - Group editing is Control and mouse click
+ - File IO bugs
+ |
+
+
+ 2.06
+ 28/9/05 |
+
+ - View annotations in wrapped mode
+ - More options for PCA viewer
+ |
+
+ - GUI bugs resolved
+ - Runs with -nodisplay from command line
+ |
+
+
+ | 2.05b
+ 15/9/05 |
+
+ - Choose EPS export as lineart or text
+ - Jar files are executable
+ - Can read in Uracil - maps to unknown residue
+ |
+
+ - Known OutOfMemory errors give warning message
+ - Overview window calculated more efficiently
+ - Several GUI bugs resolved
+ |
+
+
+ 2.05
+ 30/8/05 |
+
+ - Edit and annotate in "Wrapped" view
+ |
+
+ - Several GUI bugs resolved
+ |
+
+
+ 2.04
+ 24/8/05 |
+
+ - Hold down mouse wheel & scroll to change font size
+ |
+
+ - Improved JPred client reliability
+ - Improved loading of Jalview files
+ |
+
+
+ | 2.03
+ 18/8/05 |
+
+ - Set Proxy server name and port in preferences
+ - Multiple URL links from sequence ids
+ - User Defined Colours can have a scheme name and added to Colour Menu
+ - Choose to ignore gaps in consensus calculation
+ - Unix users can set default web browser
+ - Runs without GUI for batch processing
+ - Dynamically generated Web Service Menus
+ |
+
+ - InstallAnywhere download for Sparc Solaris
+ |
+
+
+ | 2.02
+ 18/7/05 |
+ |
+
+ - Copy & Paste order of sequences maintains alignment order.
+ |
+
+
+ 2.01
+ 12/7/05 |
+
+ - Use delete key for deleting selection.
+ - Use Mouse wheel to scroll sequences.
+ - Help file updated to describe how to add alignment annotations.
+ - Version and build date written to build properties file.
+ - InstallAnywhere installation will check for updates at launch of Jalview.
+ |
+
+ - Delete gaps bug fixed.
+ - FileChooser sorts columns.
+ - Can remove groups one by one.
+ - Filechooser icons installed.
+ - Finder ignores return character when searching. Return key will initiate
+ a search.
+
+ |
+
+
+ | 2.0
+ 20/6/05 |
+ |
+ |
+
+
+