JAL-4090 move 2.11.3 series release notes to 2.11.3.0 release and premptively list...

diff --git a/help/markdown/releases/release-2_11_3.md b/help/markdown/releases/release-2_11_3.md
deleted file mode 100644 (file)
index 18b15ea..0000000
--- a/help/markdown/releases/release-2_11_3.md
+++ /dev/null
@@ -1,24 +0,0 @@
----
-version: 2.11.3
-date: 2022-12-12
-channel: "release"
----
-
-## New Features
-
-- <!-- JAL-4061 --> Find can search sequence features' type and description
-- <!-- JAL-4062 --> Hold down Shift + CMD/CTRL C to copy highlighted regions as new sequences
-JAL-4089       use selected columns for superposition
-JAL-4086       Highlight aligned positions on all associated structures when mousing over a column
-JAL-4083       Exceptions for multiple residue highlights in Jmol
-JAL-4075       Don't add string label version of DSSP secondary structure codes in secondary structure annotation rows
-JAL-4033       selections with visual feedback via contact matrix annotation
-JAL-4027       contact matrix datatype in Jalview
-JAL-3895       Alphafold red/orange/yellow/green colourscheme for structures
-JAL-3855       Discover and import alphafold2 models and metadata from https://alphafold.ebi.ac.uk/
-JAL-3416       FlatLAF default look and feel on Linux, OSX and everywhere else ?
-JAL-2961       Jmol view not always centred on structures when multiple structures are viewed
-JAL-2382       Import and display sequence-associated contact predictions in CASP-RR format
-JAL-2349       Contact prediction visualisation
-JAL-2348       modularise annotation renderer
-JAL-1551       Standard source code formatting and editing settings

diff --git a/help/markdown/releases/release-2_11_3_0.md b/help/markdown/releases/release-2_11_3_0.md
index 7776081..46de783 100644 (file)
--- a/help/markdown/releases/release-2_11_3_0.md
+++ b/help/markdown/releases/release-2_11_3_0.md
@@ -5,13 +5,49 @@ channel: "release"
 ---
 
 ## New Features
-JAL-4064        Native M1 build for macOS using Adoptium JRE 11 macos-aarch64
-JAL-4054        Installers built with install4j10
-JAL-3676        Allow log level configuration via Jalview's Java Console, and a Copy to Clipboard button
-JAL-3416        FlatLAF default look and feel on Linux, OSX and everywhere else ?
+- <!-- JAL-4064 --> Native M1 build for macOS using Adoptium JRE 11 macos-aarch64
+- <!-- JAL-4054 --> Installers built with install4j10
+- <!-- JAL-3676 --> Allow log level configuration via Jalview's Java Console, and a Copy to Clipboard button
+- <!-- JAL-3416 --> FlatLAF default look and feel on Linux, OSX and everywhere else ?
 
-## Issues Resolved
-JAL-3776        Cancelling interactive calculation leaves empty progress bar.
-JAL-3772        Unsaved Alignment windows close without prompting to save, individually or at application quit.
-JAL-1988        Can quit Jalview while 'save project' is in progress
+- <!-- JAL-4019 --> Ambiguous Base Colourscheme
+- <!-- JAL-4061 --> Find can search sequence features' type and description
+- <!-- JAL-4062 --> Hold down Shift + CMD/CTRL C to copy highlighted regions as new sequences
+- <!-- JAL-4089 --> Use selected columns for superposition
+- <!-- JAL-4086 --> Highlight aligned positions on all associated structures when mousing over a column
+
+- <!-- JAL-3895 --> Alphafold red/orange/yellow/green colourscheme for structures
+- <!-- JAL-4095 --> Interactive picking of low pAE score regions
+- <!-- JAL-4027 --> contact matrix datatype in Jalview
+- <!-- JAL-4033 --> Selections with visual feedback via contact matrix annotation
+
+- <!-- JAL-4075 --> Don't add string label version of DSSP secondary structure codes in secondary structure annotation rows
+- <!-- JAL-3855 --> Discover and import alphafold2 models and metadata from https://alphafold.ebi.ac.uk/
+
+- <!-- JAL-2961 --> Jmol view not always centred on structures when multiple structures are viewed
+
+- <!-- JAL-2528, JAL-1713 --> Overview window is saved in project file, and state of 'show hidden regions' is preserved.
+
+- <!-- JAL-3119 --> Name of alignment and view included in overview window's title
+
+- <!-- JAL-4091 --> Visual indication of relationship with associated sequence to distinguish different sequence associated annotation rows
+- <!-- JAL-4094 --> Shift+Click+Drag to adjust height of all annotation tracks of same type
 
+
+## Still in progress (delete on release)
+
+- <!-- JAL-2382 --> Import and display sequence-associated contact predictions in CASP-RR format
+- <!-- JAL-2349 --> Contact prediction visualisation
+- <!-- JAL-2348 --> modularise annotation renderer
+
+
+
+## Issues Resolved
+- <!-- JAL-3776 --> Cancelling interactive calculation leaves empty progress bar.
+- <!-- JAL-3772 --> Unsaved Alignment windows close without prompting to save, individually or at application quit.
+- <!-- JAL-1988 --> Can quit Jalview while 'save project' is in progress
+- <!-- JAL-4126 --> 'Use original colours' option of colour by annotation not honoured when restoring view from project
+- <!-- JAL-4116 --> PDB structures slow to view when Jalview Java Console is open (2.11.2.7 patch)
+- <!-- JAL-3784 --> Multiple overview windows can be opened for a particular alignment view when multiple views are present
+- <!-- JAL-3785 --> Overview windows opened automatically (due to preferences settings) lack title
+- <!-- JAL-2353 --> Show Crossrefs fails to retrieve CDS from ENA or Ensembl for sequences retrieved from Uniprot due to version numbers in cross-reference accession
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