X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2Freleases.html;h=d6ebd1bf19dfd677d2f488f4aae2ef219e9adf81;hb=e7b89bef035333acf6c974071831b9edfd942302;hp=c570d0def4ba3850bf58e115b201b2a778dfd729;hpb=f0aa3143af5eb4492eea8cdf67a155a2399a5552;p=jalview.git
diff --git a/help/help/html/releases.html b/help/help/html/releases.html
index c570d0d..d6ebd1b 100755
--- a/help/help/html/releases.html
+++ b/help/help/html/releases.html
@@ -57,8 +57,8 @@ li:before {
- 2.11
- 20/06/2019
+ 2.11.0
+ 02/07/2019
|
@@ -98,17 +98,21 @@ li:before {
-
IntervalStoreJ (NCList
- implementation that alows updates) used for Sequence Feature collections
+ implementation that allows updates) used for Sequence Feature collections
-
-
- Sequence features can be filtered and
+ Sequence features can be filtered and
shaded according to any associated attributes (e.g. variant
attributes from VCF file, or key-value pairs imported from
column 9 of GFF file)
-
- Show synonymous codon variants on peptide
- sequences
+ Use full Sequence Ontology (via BioJava) to
+ recognise variant features
+
+ -
+ Show synonymous codon variants on peptide
+ sequences (also coloured red by default)
-
Popup window to show full report for a selected sequence feature's
@@ -124,13 +128,17 @@ li:before {
- - Principal Components Analysis Viewer
+
-
+ Symmetric score matrices for faster
+ tree and PCA calculations
+
+ - Principal Components Analysis Viewer
-
Principal Components Analysis results
and Viewer state saved in Jalview Project
- - 'Change parameters' option removed from viewer's
+
- 'Change parameters' option removed from viewer's
drop-down menus
-
Can use shift + arrow keys to rotate PCA image
@@ -162,7 +170,7 @@ li:before {
view
-
- Alignment Overview now WYSIWIS (What you see is
+ Alignment Overview now WYSIWIS (What you see is
what is shown)
Only visible region of alignment is shown by
default (can be changed in user preferences)
@@ -235,11 +243,13 @@ li:before {
Added remarks about transparent rendering effects
not supported in EPS figure export
+ - Typos in documentation for Preferences dialog
Development and Release Processes
-
Build system migrated from Ant to Gradle
+ - Enhanced checks for missing and duplicated keys in Message bundles
-
Eclipse project configuration managed with
gradle-eclipse
@@ -311,14 +321,19 @@ li:before {
doesn't tell users the invalid URL
-
- Nonpositional features lose feature group on
- export as Jalview features file
-
- -
Tooltips displayed for features filtered by
score from view
-
+ Sequence Variants retrieved from Ensembl during
+ show cross references or Fetch Database References are shown in
+ red in original view
+
+ -
+ stop_gained variants not shown correctly on
+ peptide sequence (computed variant shown as p.Res.null)
+
+ -
'Graduated colour' option not offered for
manually created features (where if feature score is Float.NaN)
@@ -403,20 +418,19 @@ li:before {
shown in complementary view
-
- stop_gained variants not shown correctly on
- peptide sequence
-
- -
Codon consensus incorrectly scaled when shown
without normalisation
-
- Sequence Details report opens positioned to top
+ Sequence Details report should open positioned at top
of report
-
Help page can be opened twice
+ -
+ Fuzzy text in web service status menu on OSX Mojave
+
Editing
-
@@ -437,10 +451,17 @@ li:before {
Structure colours not updated when associated tree
repartitions the alignment view (Regression in 2.10.5)
-
- New Known Defects
+ Datamodel
+
+ -
+ Sequence.findIndex returns wrong value when
+ sequence's End is greater than its length
+
+ New Known Defects
+ - Select columns containing feature by double clicking ignores bounds of an existing selected region
+
-
Codon consensus logo incorrectly scaled in gapped
regions of protein alignment.
@@ -468,6 +489,10 @@ li:before {
not shown as thresholded features in 2.11. To workaround please
create a Score filter instead.
+ - Cancel on Feature Settings dialog doesn't reset group visibility
+ -
+ F2 doesn't enable/disable keyboard mode in linked CDS/Protein view
+
- Java 11 Specific defects
-
@@ -650,6 +675,10 @@ li:before {
open URL in the browser can be dropped onto Jalview.
+ New Known Defects
+
+ - Cancel option doesn't reset Colour by Annotation
+
|