What's new ?

X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwhatsNew.html;h=22db13fb7ccc8363f6ee26c105d24bab07d02e5e;hb=918faab51fdcb2ff14958e5ca46ba75b73d17991;hp=7bc6de4d46b346bf9999fdd9ccee266b31088471;hpb=1162b546d4804d709920737049d796a5a9aa71e1;p=jalview.git diff --git a/help/html/whatsNew.html b/help/html/whatsNew.html index 7bc6de4..248db1a 100755 --- a/help/html/whatsNew.html +++ b/help/html/whatsNew.html @@ -1,30 +1,76 @@ - -What's new ? - -

What's new ?

Jalview Version 2.07

Sequence Fetcher has been added to quickly - retrieve sequences with known ids from several databases.

Sequence Features enhanced to allow - the user to display all features of a Uniprot file on the alignment and subsequently - colour, hide or show overlapping features.

Choose to omit /start-end from sequences when - saving files. This is important for saving files to be used by some programs - which cannot read the original Jalview sequence output with the appended /start-end.

PDB structure viewer enhanced. Mapping - between sequence and structure has been enhanced, colours on the alignment are - reflected in the structure viewer.

Jalview Applet can read - in feature files, PDB files be used as input to HTML form See the website - to find out the new parameters available for the Applet Version of Jalview.

Issues Resolved

Group Editing is possible with Control and mouse click. Alt key and mouse press - does not work as this translates as the middle mouse button, which since 2.04 - is now used to scroll the alignment and change the font size.

HTML export now writes groups and features which were previously missing.

See the Release History page for details of all - new features and resolved issues.

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

+ What's new in Jalview 2.10.5 ? +

Jalview 2.10.5 is a minor release that includes critical + patches for users working with Ensembl, and RNA secondary structure + annotation.

Jalview's default memory limit increased to 1G. If you have + problems starting Jalview 2.10.5 and you have 1G or less + physical memory on your machine, you will need to reduce the memory allocated to + Jalview. +
EPS, PNG and SVG export now includes hidden sequence + markers, and representative sequences are marked in bold.
Ensembl Client updated for Ensembl Rest API v7.
The + latest Ensembl API is not backwards compatible with earlier + versions of Jalview, so if you require Ensembl functionality you + will need to install this release. +
Improved support for VIENNA extended dot-bracket notation + for RNA secondary structure
Positional and selected region highlighting in VARNA + 'trimmed sequence' view now more reliable

+ The full list of bugs fixed in this release can be found in the 2.10.5 Release Notes. The + majority of improvement in 2.10.5 are due to Jalview users + contacting us via the jalview-discuss email list. Thanks to everyone + who took the time to do this ! +

+ Jalview and Java 10 +

This release addresses a critical bug for OSX users who are + running Jalview with Java 10 which can prevent files being saved + correctly through the 'Save As' dialog box.

+ Known Issues +

OSX: The 'Save As' dialog for Jalview's Groovy Console + remains affected: the workaround is to create a new file outside + of Jalview and then select it when saving your groovy script. We + hope to address this in the next major release.
OSX: JalviewÂ only displays old news feed items
OSX: Users may have to manually configure a web browser + helper application ('/usr/bin/open' can be used in the Connections + Preferences panel to open URLs with your default browser).

+ +