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What's new ?
-
- What's new ?
Jalview 2.8.0b1 is a bugfix
- release for Jalview version 2.8.
As usual you can find the
- highlights below, and the comprehensive list is given in the Jalview 2.8.0b1 Release Notes.
-
- This bug fix release includes numerous minor enhancements made over
- the last 12 months. Importantly, it is also the first release that
- provides Jalview as a trusted application, signed with a certificate
- donated to us by Certum.
+ What's new in Jalview 2.10.5 ?
- Enhancements and new features
-
- - Allow disorder predictions to be made on the current
- selection (or visible selection) in the same way that JPred works
- - allow import of data from gzipped files
- - Improved per-sequence 'colour-by-annotation' performance
- - Support '' style escaping of quotes in Newick files
- - group options for JABAWS service by command line name
- - Select primary source when selecting authority in database
- fetcher GUI
- - COMBINE statement uses current SEQUENCE_REF and GROUP_REF
- scope to group annotation rows
- - add .mfa to FASTA file extensions recognised by Jalview
- - groovy scripting for headless jalview operation
- - Output in Stockholm format
-
- Bug fixes
-
- - Uniprot and PDB database cross-reference fetching works
- properly
- - 'View all structures' in the desktop is more reliable
- - Web services parameter dialog box shows the options enabled
- for different presets
- - Interactive creation of RNA secondary structure works more
- smoothly
- - Keyboard mode 'P' command jumps to the right place
- - Improved support for parsing database cross-references via
- Stockholm and Rfam database
- - Improved semantics in annotation files for grouping
- annotation rows associated with particular sequences and groups
- - More robust DNA->Amino acid translation
- - Improved Headless-mode operation for DAS annotation
- retrieval, groovy script execution and alignment figure generation
- - annotation label tooltip text needs to be wrapped
-
+ Jalview 2.10.5 is a minor release that includes critical
+ patches for users working with Ensembl, and RNA secondary structure
+ annotation.
+
+ - 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. The 'Save As' dialog for
+ Jalview's Groovy Console remains affected - we hope to address this
+ in the next major release.