--- /dev/null
+---
+channel: release
+version: 2.10.3
+date: 2017-11-17
+---
+
+## New Features
+
+
+
+###
+ - <!-- JAL-2446 --> Faster and more efficient management and rendering of sequence features
+ - <!-- JAL 2523--> More reliable Ensembl fetching with HTTP 429 rate limit request hander
+ - <!-- JAL-2773 --> Structure views don't get updated unless their colours have changed
+ - <!-- JAL-2495 --> All linked sequences are highlighted for a structure mousover (Jmol) or selection (Chimera)
+ - <!-- JAL-2790 --> 'Cancel' button in progress bar for JABAWS AACon, RNAAliFold and Disorder prediction jobs
+ - <!-- JAL-2617 --> Stop codons are excluded in CDS/Protein view from Ensembl locus cross-references
+ - <!-- JAL-2685 --> Start/End limits are shown in Pairwise Alignment report
+ - <!-- JAL-2810 --> Sequence fetcher's Free text 'autosearch' feature can be disabled
+ - <!-- JAL-2810 --> Retrieve IDs tab added for UniProt and PDB easier retrieval of sequences for lists of IDs
+ - <!-- JAL-2758 --> Short names for sequences retrieved from Uniprot
+
+
+### Scripting
+ - Groovy interpreter updated to 2.4.12
+ - Example groovy script for generating a matrix of percent identity scores for current alignment.
+
+
+### Testing and Deployment
+ - <!-- JAL-2727 --> Test to catch memory leaks in Jalview UI
+
+
+## Issues Resolved
+
+
+
+### General
+ - <!-- JAL-2643 --> Pressing tab after updating the colour threshold text field doesn't trigger an update to the alignment view
+ - <!-- JAL-2682 --> Race condition when parsing sequence ID strings in parallel
+ - <!-- JAL-2608 --> Overview windows are also closed when alignment window is closed
+ - <!-- JAL-2548 --> Export of features doesn't always respect group visibility
+ - <!-- JAL-2831 --> Jumping from column 1 to column 100,000 takes a long time in Cursor mode
+
+
+### Desktop
+ - <!-- JAL-2777 --> Structures with whitespace chainCode cannot be viewed in Chimera
+ - <!-- JAL-2728 --> Protein annotation panel too high in CDS/Protein view
+ - <!-- JAL-2757 --> Can't edit the query after the server error warning icon is shown in Uniprot and PDB Free Text Search Dialogs
+ - <!-- JAL-2253 --> Slow EnsemblGenome ID lookup
+ - <!-- JAL-2529 --> Revised Ensembl REST API CDNA query
+ - <!-- JAL-2739 --> Hidden column marker in last column not rendered when switching back from Wrapped to normal view
+ - <!-- JAL-2768 --> Annotation display corrupted when scrolling right in unwapped alignment view
+ - <!-- JAL-2542 --> Existing features on subsequence incorrectly relocated when full sequence retrieved from database
+ - <!-- JAL-2733 --> Last reported memory still shown when Desktop->Show Memory is unticked (OSX only)
+ - <!-- JAL-2658 --> Amend Features dialog doesn't allow features of same type and group to be selected for amending
+ - <!-- JAL-2524 --> Jalview becomes sluggish in wide alignments when hidden columns are present
+ - <!-- JAL-2392 --> Jalview freezes when loading and displaying several structures
+ - <!-- JAL-2732 --> Black outlines left after resizing or moving a window
+ - <!-- JAL-1900,JAL-1625 --> Unable to minimise windows within the Jalview desktop on OSX
+ - <!-- JAL-2667 --> Mouse wheel doesn't scroll vertically when in wrapped alignment mode
+ - <!-- JAL-2636 --> Scale mark not shown when close to right hand end of alignment
+ - <!-- JAL-2684 --> Pairwise alignment of selected regions of each selected sequence do not have correct start/end positions
+ - <!-- JAL-2793 --> Alignment ruler height set incorrectly after canceling the Alignment Window's Font dialog
+ - <!-- JAL-2036 --> Show cross-references not enabled after restoring project until a new view is created
+ - <!-- JAL-2756 --> Warning popup about use of SEQUENCE_ID in URL links appears when only default EMBL-EBI link is configured (since 2.10.2b2)
+ - <!-- JAL-2775 --> Overview redraws whole window when box position is adjusted
+ - <!-- JAL-2225 --> Structure viewer doesn't map all chains in a multi-chain structure when viewing alignment involving more than one chain (since 2.10)
+ - <!-- JAL-2811 --> Double residue highlights in cursor mode if new selection moves alignment window
+ - <!-- JAL-2837,JAL-2840 --> Alignment vanishes when using arrow key in cursor mode to pass hidden column marker
+ - <!-- JAL-2679 --> Ensembl Genomes example ID changed to one that produces correctly annotated transcripts and products
+ - <!-- JAL-2776 --> Toggling a feature group after first time doesn't update associated structure view
+
+
+### Applet
+ - <!-- JAL-2687 --> Concurrent modification exception when closing alignment panel
+
+
+### BioJSON
+ - <!-- JAL-2546 --> BioJSON export does not preserve non-positional features
+
+
+### New Known Issues
+ - <!-- JAL-2541 --> Delete/Cut selection doesn't relocate sequence features correctly (for many previous versions of Jalview)
+ - <!-- JAL-2841 --> Cursor mode unexpectedly scrolls when using cursor in wrapped panel other than top
+ - <!-- JAL-2791 --> Select columns containing feature ignores graduated colour threshold
+ - <!-- JAL-2822,JAL-2823 --> Edit sequence operation doesn't always preserve numbering and sequence features
+
+
+### Known Java 9 Issues
+ - <!-- JAL-2902 --> Groovy Console very slow to open and is not responsive when entering characters (Webstart, Java 9.01, OSX 10.10)
git://source.jalview.org / jalview.git / blobdiff