From: James Procter <j.procter@dundee.ac.uk>
Date: Fri, 7 Jul 2023 16:02:00 +0000 (+0100)
Subject: JAL-4090 update 2.11.3.0 release notes (with in-progress bits too) and what's new
X-Git-Tag: Release_2_11_4_0~242
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=7c40be8c2aed396b01242811c74d90c6cf3f5ccd;p=jalview.git

JAL-4090 update 2.11.3.0 release notes (with in-progress bits too) and what's new
---

diff --git a/help/markdown/releases/release-2_11_3_0.md b/help/markdown/releases/release-2_11_3_0.md
index 1309483..fbd7b9f 100644
--- a/help/markdown/releases/release-2_11_3_0.md
+++ b/help/markdown/releases/release-2_11_3_0.md
@@ -1,6 +1,6 @@
 ---
 version: 2.11.3.0
-date: 2023-06-07
+date: 2023-07-19
 channel: "release"
 ---
 
@@ -20,6 +20,9 @@ channel: "release"
 - <!-- JAL-4089 --> Use selected columns for superposition
 - <!-- JAL-4086 --> Highlight aligned positions on all associated structures when mousing over a column
 
+- <!-- JAL-4221 --> sequence descriptions are updated from database reference sources if not already defined
+
+
 ### Improved support for working with computationally determined models
 
 - <!-- JAL-3895 --> Alphafold red/orange/yellow/green colourscheme for structures
@@ -35,6 +38,8 @@ channel: "release"
 - <!-- JAL-3858 --> Import and display alphafold alignment uncertainty matrices from JSON
 - <!-- JAL-4134,JAL-4158 --> Column-wise alignment groups and selections and interactive tree viewer for PAE matrices
 - <!-- JAL-4124 --> Store/Restore PAE data and visualisation settings from Jalview Project
+- <!-- JAL-4083 --> Multiple residue sidechain highlighting in structure viewers from PAE mouseovers
+
 
 ### Jalview on the command line
 
@@ -44,6 +49,21 @@ channel: "release"
 ### Other improvements
 
 - <!-- JAL-3119 --> Name of alignment and view included in overview window's title
+- <!-- JAL-4213 --> "add reference annotation" add all positions in reference annotation tracks, not just positions in the currently highlighted columns/selection range
+- <!-- JAL-4119 --> EMBL-EBI SIFTS file downloads now use split directories
+
+- <!-- JAL-4195,JAL-4194,JAL-4193 --> sensible responses from the CLI when things go wrong during image export
+Add a command line option to set Jalview properties for this session only
+Add a command line option to suppress opening the startup file for this session
+
+
+JAL-4187	 Powershell launcher script fails when given no arguments with the old ArgsParser
+
+known issue ? <!-- JAL-4127	--> 'Reload' for a jalview project results in all windows being duplicated
+
+
+- <!-- JAL-3830 --> Command-line wrapper script for macOS bundle, linux and Windows installations (bash, powershell and .bat wrappers)
+- <!-- JAL-3820 --> In Linux desktops' task-managers, the grouped Jalview windows get a generic name
 
 ## Still in progress (delete on release)
 
diff --git a/help/markdown/whatsnew/whatsnew-2_11_3_0.md b/help/markdown/whatsnew/whatsnew-2_11_3_0.md
index 59495d5..ec82f83f 100644
--- a/help/markdown/whatsnew/whatsnew-2_11_3_0.md
+++ b/help/markdown/whatsnew/whatsnew-2_11_3_0.md
@@ -1,5 +1,7 @@
 The 2.11.3 series includes support for in-depth exploration of predicted alignment error matrices from AlphaFold in the context of multiple alignments, along with support for standard colourschemes for shading models according to their pLDDT.
 
+We're launching this release at ISMB 2023 - come find us !
+
 It also introduces new support for native ARM-based OSX architectures, and a few other goodies!