What's new ?

X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwhatsNew.html;h=cf96d474e209855f2d8c501f9bb9c81286f6b97b;hb=7a9adf94a201d360b215b0bab0178a656e52148e;hp=3af69ae87bc785d2c6d10ed3974ef4c09eb807ef;hpb=6fa9683bef52d6709abb81840681e4fa452cafe7;p=jalview.git diff --git a/help/html/whatsNew.html b/help/html/whatsNew.html index 3af69ae..cf96d47 100755 --- a/help/html/whatsNew.html +++ b/help/html/whatsNew.html @@ -1,9 +1,103 @@ - - - -

Whats new

If you can read this then you'll already have seen some of the recent changes - made to Jalview.
-

- - + + + +What's new ? + + +

+ What's new ? +

+ The Jalview 2.7 release features new web services, and important + improvements to the way in which Jalview handles alignments and + associated PDB structures, as well as numerous minor improvements and + bug fixes. Version 2.7 of the JalviewLite applet also features a + significantly enhanced Javascript API enabling it to be more easily + integrated with javascript based web applications.
For full + details see the Jalview 2.7 + release history. +

+ Highlights in Jalview Desktop Version 2.7 +

New structure viewer + options: +
- Colour and superimpose 3D structures of complexes and + multi-domain chains using several different alignments
- Drag and drop to associate PDB files with sequences that + have the same name
- Open and superimpose all associated structures for the + current selection
+
New web services for alignment + analysis
Improved graphical user interface for JABAWSservices. +
Sort associated alignment views option in tree viewer
Default colours for shading alignment + by quantitative annotation. +
Jalview Desktop RSS + reader - following important updates at http://www.jalview.org/feeds/desktop/rss +

+ +

+ Issues Resolved (a select list - see the release history for full details) + +

+ Issues in the Jalview Desktop +

Problems viewing associated structures for sequences + retrieved from UNIPROT
Problems viewing Jalview projects from older versions in + version 2.6
Preservation of hidden annotation rows and tree bootstrap + values in projects
Newly added JABAWS servers not always visible in web services + menu

+ Issues specific to the JalviewLite Applet +

Layout problems when lots of annotation rows are displayed
<= shown as = in annotation row tooltip
export features raises exception when no features exist
relative URLs not handled properly when used in parameters + and annotation files

+ Issues affecting both applet and application +

sequence numbering not preserved in MSF alignment output
sequence associated secondary structure not correctly parsed + in interleaved stockholm
sequences containing lowercase letters are not properly + associated with their pdb files
Jalview PDB file reader does not extract sequence from deoxy + nucleotide chains correctly
Sequence length given in alignment properties window is off + by 1

+ +