X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fmarkdown%2Freleases%2Frelease-2_11_3_0.md;h=47b37789c7f5c4d5330bd42d77b0dde29e0f0b02;hb=76fe44a302e9bd32938af7ee2b70b48d7f0d4c4b;hp=821f418792c13c9b6a093588ec806c609d67076a;hpb=96f727b57ac588f9307116b79a7f1ab67dbff39b;p=jalview.git diff --git a/help/markdown/releases/release-2_11_3_0.md b/help/markdown/releases/release-2_11_3_0.md index 821f418..47b3778 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: 2023-11-14 +date: 2023-11-15 channel: "release" --- @@ -78,6 +78,7 @@ channel: "release" - Output stderr and stdout when running tests via gradle - New gradle task providing runtime acceptance test for JalviewJS based on Chromium for Tests (still work in progress) + ## Issues Resolved - Jmol view not always centred on structures when multiple structures are viewed - Unsaved Alignment windows close without prompting to save, individually or at application quit. @@ -110,12 +111,14 @@ channel: "release" - Jalview source distribution unnecessarily includes dist directory with built jalview jar and dependencies - Jmol sessions involving large molecules may not be fully saved in Jalview project files (known defect in 2.11.2.x) -## New Known defects + +### New Known Issues - EBI-AlphaFold PLDDT colours cannot be overlaid on alignment via 'Colour by annotation' unless the alignment's colourscheme has been set to 'None' via the Colours menu. - Tree renderer doesn't show bottom-most leaves of tree when Fit-To-Window is enabled. +- PAE partition not shown in the same place when tree is closed and reopened - Cannot cancel structure view open action once it has been started via the structure chooser dialog - Example project's multiple views do not open in distinct locations when eXpand views is used to show them all separately -- 'Reload' for a jalview project results in all windows being duplicated (since 2.11.2.6, more severe in 2.11.3.0 +- 'Reload' for a jalview project results in all windows being duplicated (since 2.11.2.6, more severe in 2.11.3.0) - Overview shown and then closed when importing legacy jalview projects without overview store/restore information - Missing last letter when copying consensus sequence from alignment if first column is hidden - Last sequence ID in alignment not shown and annotation labels are misaligned in HTML export @@ -123,7 +126,7 @@ channel: "release" - Test coverage for ID width adjustment disabled pending fix for new annotation label geometry and width calculation - scripts adding new fileformats or colourschemes do not work when run via command line - Headless alignment export with structure annotations doesn't include secondary structure and temperature factor -- Copy sequences from one alignment and Pasting as new window in another alignment doesn't propagate title from original alignment's window) +- Copy sequences from one alignment and Pasting as new window in another alignment doesn't propagate title from original alignment's window - Annotation colouring dialog box doesn't remember 'use original colours' settings when opened via the Colour menu - When the Groovy console is open Jalview does not prompt to save before quitting - Jalview works with but is not fully compatible with latest Ensembl REST API (15.6)