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jalview.git
2022-11-30 Jim ProcterJAL-4102 2.11.2.6 hotfix release notes - JAL-4101 JAL... commit | commitdiff | tree | snapshot
2022-11-30 Ben SoaresJAL-4101 Updated Rfam* tests commit | commitdiff | tree | snapshot
2022-11-30 Ben SoaresJAL-4101 Updated DEFAULT_RFAM_BASEURL commit | commitdiff | tree | snapshot
2022-11-30 Jim ProcterJAL-2353 patch for Ensembl refs from uniprot - needs... commit | commitdiff | tree | snapshot
2022-11-29 Ben SoaresJAL-4101 Updated Rfam* tests commit | commitdiff | tree | snapshot
2022-11-29 Ben SoaresJAL-4101 Updated DEFAULT_RFAM_BASEURL commit | commitdiff | tree | snapshot
2022-11-23 Ben SoaresJAL-629 Doing things with the command line arguments commit | commitdiff | tree | snapshot
2022-11-17 Ben SoaresJAL-4019 Clarification of position on 'X' in help text commit | commitdiff | tree | snapshot
2022-11-16 Ben SoaresMerge branch 'improvement/JAL-3416_default_to_LIVE_DRAG... commit | commitdiff | tree | snapshot
2022-11-16 Ben SoaresJAL-3416 make flatlaf default for linux improvement/JAL-3416_default_to_LIVE_DRAG_MODE_for_flatlaf commit | commitdiff | tree | snapshot
2022-11-16 Ben SoaresJAL-4019 finalised a boolean option and tidied some... commit | commitdiff | tree | snapshot
2022-11-14 Ben SoaresJAL-4019 Put original test back commit | commitdiff | tree | snapshot
2022-11-14 Ben SoaresJAL-4019 Make diagnostic message debug level commit | commitdiff | tree | snapshot
2022-11-13 Ben SoaresJAL-4019 small colour fix for X in the documentation commit | commitdiff | tree | snapshot
2022-11-13 Ben SoaresJAL-4019 attribution to Suzanne commit | commitdiff | tree | snapshot
2022-11-13 Ben SoaresJAL-4019 Help pages for Nucleotide Ambiguity colour... commit | commitdiff | tree | snapshot
2022-11-13 Ben SoaresJAL-4019 small but important corrections to array order... commit | commitdiff | tree | snapshot
2022-11-13 Ben SoaresJAL-4019 Added tests for new Nucleotide sequence detection commit | commitdiff | tree | snapshot
2022-11-13 Ben SoaresJAL-4019 improvement to short sequence nucleotide detec... commit | commitdiff | tree | snapshot
2022-11-10 Ben SoaresJAL-4019 Nucleotide Ambiguity Colour Scheme added.... commit | commitdiff | tree | snapshot
2022-11-09 Ben SoaresJAL-3416 Add necessary logo to non-internal Frames commit | commitdiff | tree | snapshot
2022-11-09 Ben SoaresMerge branch 'improvement/JAL-3416_default_to_LIVE_DRAG... commit | commitdiff | tree | snapshot
2022-11-09 Ben SoaresJAL-3416 Add necessary logo to non-internal Frames commit | commitdiff | tree | snapshot
2022-11-09 Ben SoaresMerge branch 'improvement/JAL-3416_default_to_LIVE_DRAG... commit | commitdiff | tree | snapshot
2022-11-09 Ben SoaresJAL-3416 Remove all JFrame/JInternalFrame icons (set... commit | commitdiff | tree | snapshot
2022-11-09 Ben SoaresMerge branch 'bug/JAL-1988_JAL-3772_improved_quit_handl... commit | commitdiff | tree | snapshot
2022-11-09 Ben SoaresJAL-1988 JAL-3772 Test for FORCE_QUIT whilst saving... bug/JAL-1988_JAL-3772_improved_quit_handling commit | commitdiff | tree | snapshot
2022-11-08 Ben SoaresMerge branch 'bug/JAL-1988_JAL-3772_improved_quit_handl... commit | commitdiff | tree | snapshot
2022-11-08 Ben SoaresJAL-1988 JAL-3776 Formatting JvOptionPane commit | commitdiff | tree | snapshot
2022-11-08 Ben SoaresJAL-1988 JAL-3772 Tests for various quitting scenarios commit | commitdiff | tree | snapshot
2022-11-08 Ben SoaresJAL-1988 JAL-3772 Fixes highlighted by tests commit | commitdiff | tree | snapshot
2022-11-04 Ben SoaresMerge branch 'merge/JAL-4054+JAL-4064' into ben-big... commit | commitdiff | tree | snapshot
2022-11-04 Ben SoaresJAL-3416 Added logoIcon to quit (and potentially other... commit | commitdiff | tree | snapshot
2022-11-04 Ben SoaresJAL-1998 JAL-3772 JAL-3416 Merge conflict resolution... commit | commitdiff | tree | snapshot
2022-11-04 Ben SoaresJAL-4064 JAL-4054 Combined install4j10 template with... improvement/JAL-4064_Addition_of_macOS_AARCH64_native_DMG commit | commitdiff | tree | snapshot
2022-11-04 Ben SoaresJAL-4054 Altered file association templates and generat... commit | commitdiff | tree | snapshot
2022-11-03 Ben SoaresJAL-3416 File Chooser iconified, JvOptionPanes iconifie... commit | commitdiff | tree | snapshot
2022-11-03 Jim ProcterJAL-3855 JAL-4095 simple picking of ranges adjacent... commit | commitdiff | tree | snapshot
2022-11-03 Ben SoaresJAL-1988 JAL-3772 Allow other window closing dialogs... commit | commitdiff | tree | snapshot
2022-11-03 Ben SoaresJAL-3416 More JInternalFrame icons commit | commitdiff | tree | snapshot
2022-11-03 Ben SoaresJAL-1988 JAL-3772 Tidying of unspecified Callable decla... commit | commitdiff | tree | snapshot
2022-11-03 Ben SoaresJAL-3416 Start to add JInternalFrame icons (to replace... commit | commitdiff | tree | snapshot
2022-11-02 Ben SoaresJAL-1988 JAL-3772 Moving packages to somewhere more... commit | commitdiff | tree | snapshot
2022-11-01 Ben SoaresJAL-3416 set flatlaf default drag mode to LIVE_DRAG_MODE commit | commitdiff | tree | snapshot
2022-11-01 Ben SoaresJAL-1988 JAL-3772 Change default alignmentviewport... commit | commitdiff | tree | snapshot
2022-11-01 Ben SoaresJAL-4064 tidying build.gradle commit | commitdiff | tree | snapshot
2022-11-01 Ben SoaresJAL-4064 re-added bundled macOS JREs as Filesets, which... commit | commitdiff | tree | snapshot
2022-11-01 Ben SoaresJAL-4064 Cleaned up file sets in install4j template... commit | commitdiff | tree | snapshot
2022-11-01 Ben SoaresJAL-4064 Download JRE/JDKs from Azul if not os/arch... commit | commitdiff | tree | snapshot
2022-10-30 Jim ProcterJAL-2349 JAL-3855 bizarre resizing exception when resiz... commit | commitdiff | tree | snapshot
2022-10-30 Jim ProcterJAL-4091 lines to associate rows sharing same sequence... commit | commitdiff | tree | snapshot
2022-10-30 Jim ProcterJAL-2353 patch for Ensembl refs from uniprot - needs... commit | commitdiff | tree | snapshot
2022-10-29 Ben SoaresJAL-1988 JAL-3772 removed a debugging log line commit | commitdiff | tree | snapshot
2022-10-29 Jim ProcterJAL-4094 shift+click drag up/down to resize all annotat... commit | commitdiff | tree | snapshot
2022-10-29 Jim ProcterJAL-4091 - noodling about including the names for seque... commit | commitdiff | tree | snapshot
2022-10-29 Jim ProcterJAL-4090 bump version and set up release notes for... commit | commitdiff | tree | snapshot
2022-10-29 Jim ProcterMerge branch 'features/JAL-4061_and_JAL-4062_findselect... commit | commitdiff | tree | snapshot
2022-10-28 Ben SoaresJAL-1988 JAL-3772 Removed 'Wait' button from waitDialog... commit | commitdiff | tree | snapshot
2022-10-28 Jim ProcterMerge branch 'bug/JAL-4083_exceptions_for_multiple_resi... commit | commitdiff | tree | snapshot
2022-10-28 Jim ProcterJAL-2349 allow contact matrix to provide labels for... commit | commitdiff | tree | snapshot
2022-10-28 Jim ProcterJAL-4086 commented out attempt to create measurement... commit | commitdiff | tree | snapshot
2022-10-28 Jim ProcterJAL-4089 use column selection to superpose if 4 or... commit | commitdiff | tree | snapshot
2022-10-28 Jim ProcterJAL-2961 centerViewOn command for structure viewers... commit | commitdiff | tree | snapshot
2022-10-28 Jim ProcterMerge branch 'features/r2_11_2_alphafold/JAL-2349_JAL... commit | commitdiff | tree | snapshot
2022-10-28 Ben SoaresJAL-1988 JAL-3772 Fixed wait between waitDialog appeara... commit | commitdiff | tree | snapshot
2022-10-27 Ben SoaresJAL-1988 Allow generic Container object in JvOptionPane... commit | commitdiff | tree | snapshot
2022-10-27 Ben SoaresMerge branch 'develop' into bug/JAL-1988_JAL-3772_impro... commit | commitdiff | tree | snapshot
2022-10-27 Ben SoaresJAL-4083 don't need globalUseScriptWait after all,... bug/JAL-4083_exceptions_for_multiple_residue_highlights_in_jmol commit | commitdiff | tree | snapshot
2022-10-27 Ben SoaresJAL-4083 only set globalUseScriptWait if needed commit | commitdiff | tree | snapshot
2022-10-27 Ben SoaresJAL-4083 Use jmolViewer.scriptWait instead of jmolViewe... commit | commitdiff | tree | snapshot
2022-10-26 Jim ProcterJAL-4086 quick and dirty mouseovers on ruler highlighti... commit | commitdiff | tree | snapshot
2022-10-26 Ben SoaresMerge branch 'features/r2_11_2_alphafold/JAL-2349_JAL... commit | commitdiff | tree | snapshot
2022-10-26 Ben SoaresJAL-3416 (and others) increasing number of STDERR lines... commit | commitdiff | tree | snapshot
2022-10-25 Ben SoaresJAL-3772 silly NPE error fixed commit | commitdiff | tree | snapshot
2022-10-25 Ben SoaresJAL-3416 Making FlatLaF default for macs due to a probl... commit | commitdiff | tree | snapshot
2022-10-24 Ben SoaresJAL-1988 JAL-3772 wait timer working first time but... commit | commitdiff | tree | snapshot
2022-10-24 Ben SoaresJAL-1988 JAL-3772 Non-blocking modal dialogs for unsave... commit | commitdiff | tree | snapshot
2022-10-22 Jim ProcterJAL-2349 JAL-3855 highlight residues associated with... commit | commitdiff | tree | snapshot
2022-10-21 Jim ProcterJAL-2349 JAL-3855 fix failing tests commit | commitdiff | tree | snapshot
2022-10-21 Jim ProcterJAL-2349 JAL-3855 experiment masking hidden columns... commit | commitdiff | tree | snapshot
2022-10-21 Jim ProcterJAL-4033 - heuristic threshold for pAE matrix - mark... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 formatting/pick correct exception commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 JAL-3855 off by one and daft return commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 avoid div-by-zero when annotation height is... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 JAL-3855 adapt renderer for AlignmentI.getCont... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 JAL-3855 ContactListI.getPosition() to recover... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 JAL-3855 experimenting with filtering columns... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-3855 JAL-2349 AlignmentI.getContactList takes care... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-4033 fix drag selections and distinguish row/column... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 (still buggy) interactive selection - time... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 tooltip reports value from contact range commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 adjusted range calculation to be inclusive... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 debugged click/drag and added yellow rubber... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-2349 JAL-3855 - interactive point-wise row/column... commit | commitdiff | tree | snapshot
2022-10-20 Jim ProcterJAL-3855 RGB colours from the alphafold paE scale. commit | commitdiff | tree | snapshot
2022-10-19 Jim ProcterJAL-2349 JAL-4033 refactored contact matrix geom calc... commit | commitdiff | tree | snapshot
2022-10-17 Jim ProcterJAL-2349 JAL-3855 column selection highlighting commit | commitdiff | tree | snapshot
2022-10-17 Jim ProcterJAL-3855 bump AF version to 3 - keep contact renderer... commit | commitdiff | tree | snapshot
2022-10-17 Jim ProcterJAL-1551 formatting commit | commitdiff | tree | snapshot
2022-10-17 Jim ProcterJAL-2349 JAL-3855 tests that probably should be part... commit | commitdiff | tree | snapshot
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