X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Freleases.html;h=0ca65c03d513072ad69410d8eb3ffb4a71ee85a5;hb=fb6e6ecaf1aa86750f84e833ff83471d3cbd526c;hp=3d7f3f683b60e043f254f7a3652fb19e01b48125;hpb=2cc95b31a54a79ddfdd51ac63dc16eca92b347fb;p=jalview.git
diff --git a/help/html/releases.html b/help/html/releases.html
index 3d7f3f6..0ca65c0 100755
--- a/help/html/releases.html
+++ b/help/html/releases.html
@@ -70,16 +70,71 @@ li:before {
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-
- Structure Chooser controls to
- control superposition of multiple structures and open
- structures in existing views
+ Windows File Shortcuts can be dragged
+ onto the Jalview Desktop
+
+ -
+ Use HGVS nomenclature for variant
+ annotation retrieved from Uniprot
+
+
+ |
+
+
+
+ -
+ Cannot import features with multiple
+ variant elements
+
+ -
+ Clustal files with sequence positions in
+ right-hand column parsed correctly
+
+ -
+ Wrap view - export to SVG - IDs shown but
+ not alignment area in exported graphic
+
+ -
+ Annotation panel set too high when
+ annotation added to view
+
+ -
+ F2/Keyboard mode edits work when Overview
+ window has input focus
+
+ -
+ Drag URL from chrome, firefox, IE to
+ Jalview desktop on Windows doesn't open file
Dragging
+ the currently open URL and links from a page viewed in
+ Firefox or Chrome on Windows is now fully supported. If
+ you are using Edge, only links in the page can be
+ dragged, and with Internet Explorer, only the currently
+ open URL in the browser can be dropped onto Jalview.
+
+
+ |
+
+
+ |
+
+ |
+
+
+
+ -
+ New Structure Chooser control
+ for disabling automatic superposition of multiple
+ structures and open structures in existing views
-
Mouse cursor changes to indicate Sequence
@@ -94,16 +149,43 @@ li:before {
Improved performance for large alignments
and lots of hidden columns
+ -
+ Improved performance when rendering lots
+ of features (particularly when transparency is disabled)
+
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-
+ Structure and Overview aren't updated
+ when Colour By Annotation threshold slider is adjusted
+
+ -
Slow redraw when Overview panel shown
overlapping alignment panel
-
+ Overview doesn't show end of unpadded
+ sequence as gaps
+
+ -
+ Cross-reference handling
+ improved: CDS not handled correctly if transcript has no
+ UTR
+
+ -
+ Secondary structure and temperature
+ factor annotation not added to sequence when local PDB
+ file associated with it by drag'n'drop or structure
+ chooser
+
+ -
+ Answering 'No' to PDB Autoassociate
+ dialog doesn't import PDB files dropped on an alignment
+
+ -
Linked scrolling via protein horizontal
scroll bar doesn't work for some CDS/Protein views
@@ -116,8 +198,12 @@ li:before {
columns in annotation row
-
- Preferences panel's ID Width control is
- honored in interactive and batch mode
+ Preferences panel's ID Width control is not
+ honored in batch mode
+
+ -
+ Linked sequence highlighting doesn't work
+ for structures added to existing Jmol view
-
'View Mappings' includes duplicate
@@ -128,15 +214,35 @@ li:before {
protein sequences via SIFTS from associated PDB entries
with negative residue numbers or missing residues fails
- - New Defects
-
- -
- 'SIFTS Mapping Error' when viewing
- structures for protein subsequence (if 'Trim Retrieved
- Sequences' enabled) or Ensembl isoforms (Workaround in
- 2.10.4 is to fail back to N&W mapping)
-
-
+ -
+ Exception when shading sequence with negative
+ Temperature Factor values from annotated PDB files (e.g.
+ as generated by CONSURF)
+
+ -
+ Uniprot 'sequence variant' features
+ tooltip doesn't include a text description of mutation
+
+ -
+ Invert displayed features very slow when
+ structure and/or overview windows are also shown
+
+ -
+ Selecting columns from highlighted regions
+ very slow for alignments with large numbers of sequences
+
+ -
+ Copy Consensus fails for group consensus
+ with 'StringIndexOutOfBounds'
+
+ -
+ VAqua(4) provided as fallback Look and Feel for OSX
+ platforms running Java 10
+
+ -
+ Adding a structure to existing structure
+ view appears to do nothing because the view is hidden behind the alignment view
+
Applet
@@ -144,10 +250,33 @@ li:before {
Copy consensus sequence option in applet
should copy the group consensus when popup is opened on it
-
-
- |
+ Batch Mode
+
+ -
+ Fixed ID width preference is not respected
+
+
+ New Known Defects
+
+ -
+ Exceptions occasionally raised when
+ editing a large alignment and overview is displayed
+
+ -
+ 'Overview updating' progress bar is shown
+ repeatedly after a series of edits even when the overview
+ is no longer reflecting updates
+
+ -
+ 'SIFTS Mapping Error' when viewing
+ structures for protein subsequence (if 'Trim Retrieved
+ Sequences' enabled) or Ensembl isoforms (Workaround in
+ 2.10.4 is to fail back to N&W mapping)
+
+
+
+
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