X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwhatsNew.html;h=d1d141d30b133f0a400e7fb369ebe9cce029c4d5;hb=53efd00e5fe4b886ede8ec0a6eaa36bc7c8a781e;hp=344c322233d893da5d0fd96edbcb175d510b5380;hpb=85fb1c79fd82d7eada801624f745635632be8362;p=jalview.git diff --git a/help/html/whatsNew.html b/help/html/whatsNew.html index 344c322..d1d141d 100755 --- a/help/html/whatsNew.html +++ b/help/html/whatsNew.html @@ -1,54 +1,78 @@ -
What's new ?
++ What's new in Jalview 2.10.1 ? +
++ Jalview 2.10.1 was released on 29th November 2016. Full details are + in the Jalview 2.10.1 + Release Notes, but the highlights are below. This is also the + first release to include contributions from Kira Mourão, who + joined Jalview's core development team in October 2016. +
+Jalview Version 2.2
-Multiple views with different styles, colours, hidden regions for one alignment -
-Easily add, amend and delete sequence features -
-"Reload" alignment from File or URL to revert to original -
-"Save" to current filename or "Save As" to new filename -
-Set different text colour for dark or light background -
-Right align sequence ids -
-Set colour of lower case residues in a user defined colour scheme -
-Menu Rearrangements: New Format for alignment layout and Select for region selection. -
-Menu item accelerator keys added -
-Control-V pastes sequences to active window, Control-Shift-V pastes to a new window. -
-Raise/Minimise alignment and all associated windows from desktop window's window menu -
-Select and colour whole branches of a tree
-'New Window' button on the 'Output to Text box' alignment output -option to open a new alignment window after editing.
-Issues Resolved
- --Optimisations for large alignments: faster multithreaded calculations and Undo/Redo system. -
-Remove empty columns - if empty columns exist at the end of the -alignment bug fixed. -
-DAS feature fetching slowed down, doesn't overload DAS servers -
-DAS feature fetching can be cancelled -
-Correct display of > and < symbols for feature descriptions without explicit <html> tags. -
-Zoom working in PCA viewer -
-Sequence Descriptions retained after running a web service -
--
See the Release History page for details of all - new features and resolved issues.
+
+ Warning dialog about updating
+ your configured URL links
In the desktop prior to Jalview
+ 2.10.1, the only way to configure custom links for a particular
+ database cross-reference for a sequence was to give it a name that exactly
+ matched the database source, and a regular expression for filtering
+ out any spurious matches generated when the custom linked was tested
+ against the Sequence's ID string. Since the introduction of the
+ $DB_ACCESSION$ token, however, $SEQUENCE_ID$ will not be used for
+ database cross-reference accession strings, and if you have custom
+ links configured, Jalview will raise a warning message so let you
+ know that you may need to update your links to use $DB_ACCESSION$.
+