X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwhatsNew.html;h=ed6f5c263624db37d6154d3345604ad82f6b3c89;hb=a4806ceb8d534d99eb00fbf9157ff79c95da0939;hp=0382f2225f7b83d424b1b6b660b6eef0c7673e3f;hpb=33342a9ee15da4873f9fd94bc2330bc73e7bc51f;p=jalview.git
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- What's new in Jalview 2.10.3b1 ?
-
-
- This release - Jalview 2.10.3b1 is the January 2018 patch release for Version 2.10.3 was released in November 2017. The major focus was to
- improve Jalview's sequence features datamodel and the scalability of
- the alignment rendering system. The bugs fixed in this release can be found in the 2.10.3b1
- Release Notes.
-
- The highlights for Jalview 2.10.3 include:
+ What's new in Jalview 2.10.4b1 ?
+ This is the first patch release for Jalview 2.10.4. It includes
+ the following new patches:
- - Faster and more responsive UI when importing and working
- with wide alignments and handling hundreds and thousands of
- sequence features
- - Improved usability with PDB and UniProt Free Text
- Search dialog, and new tab for retrieval of sequences for lists of
- IDs.
+
- HGVS nomenclature used for variant annotation retrieved
+ from Uniprot
+ - Uniprot import fails for some sequences (Cannot import
+ features with multiple variant elements)
+ - Clustal files with sequence positions in right-hand column
+ are now parsed correctly
+ - Wrap view - export to SVG - IDs shown but not alignment
+ area in exported graphic
+ - F2/Keyboard mode edits work when Overview window has input
+ focus
+ - Windows specific fixes:
+
+ - Annotation panel set too high when annotation added to
+ view
+ - Updated search paths for Chimera default installation
+ - Windows File Shortcuts can be dragged onto the Jalview
+ Desktop
+ - Drag URL from Chrome, Firefox, IE to Jalview desktop on
+ Windows doesn't open file:
Dragging the currently open
+ URL and links from a page viewed in Firefox or Chrome on
+ Windows is now fully supported.
+ If you are using Edge, only links in the page
+ can be dragged.
+ With Internet Explorer, only the currently open
+ URL in the browser can be dropped onto Jalview.
+
+
- - Short names assigned to sequences retrieved from UniProt
- - Groovy console upgraded to 2.4.12 (improved support for Java 9)
-
- Experimental Features
-
-
- Remember, please enable the Experimental Features option in
- the Jalview Desktop's Tools menu, and then restart Jalview
- if you want to try out features below:
-
+ Highlights in the 2.10.4 series include:
- - Annotation transfer between Chimera and Jalview
Two
- new entries in
- the Chimera viewer's Chimera menu allow positional annotation to
- be exchanged between Chimera and Jalview.
+ - Numerous efficiency improvements in the renderer and overview when working with large alignments with lots of hidden columns
+ - Use of HTTPS when connecting to Uniprot, Ensembl and other EBI web services
+ - Critical patches for running Jalview on OSX with Java 10
+ - Easier adjustment of the Alignment ID panel and Annotation panel
+ - Improved support for mapping between 3D Structures and Uniprot Protein Sequences
+ - Improved support for discovering CDS and transcripts for Proteins and Ensembl gene IDs
+ - New buttons on the Structure Chooser for adding structures
+ to an existing view, and disabling automatic superposition
+ according to linked alignments
+ - Annotation transfer between Chimera and Jalview (formerly only
+ available in 'Experimental' mode)
-
+
+ The full list of bugs fixed in this release can be found in the 2.10.4
+ Release Notes.
+