What's new ?

X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwhatsNew.html;h=6d75f0f4eb718695c72c1a0e79b3003d362d260f;hb=b3d51eeb3bce1bcc3dc639c8c6774845181413ad;hp=88e8ee9114fe5b7fe723e4d17d314de97798dbfa;hpb=c78133920a45e1b5b0b1bea5807f3ae880425914;p=jalview.git diff --git a/help/html/whatsNew.html b/help/html/whatsNew.html index 88e8ee9..6d75f0f 100755 --- a/help/html/whatsNew.html +++ b/help/html/whatsNew.html @@ -1,103 +1,63 @@ + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + --> 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

+ What's new in Jalview 2.10.3b1 ? +

+ This is the January 2018 patch release, which addresses critical bugs including trackpad function in OSX, and display of multiple 3D structures. + The full list bugs fixed in this release can be found in the 2.10.3b1 + Release Notes. In addition, Jalview 2.10.3 provides: +

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. +
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: +

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.