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Merge branch 'releases/Release_2_11_4_Branch'
[jalview.git] / src / jalview / viewmodel / AlignmentViewport.java
2024-09-17 Jim ProcterJAL-4418 JAL-4392 show/hide group associated secondary... commit | commitdiff
2024-09-16 Jim ProcterJAL-4392 autohide the secondary structure consensus... patch/JAL-4392_hide_ssconsensus_if_no_data commit | commitdiff
2024-09-16 Jim ProcterJAL-4392 don't show SS consensus for DNA alignments commit | commitdiff
2024-08-05 Jim ProcterJAL-1551 gradle spotlessApply and doc tweaks commit | commitdiff
2024-05-21 Jim ProcterJAL-4159 connectivity should be computed for the sequen... commit | commitdiff
2024-05-16 Jim ProcterMerge branch 'develop' into feature/JAL-4159_pasimap commit | commitdiff
2024-05-16 Jim ProcterMerge branch 'develop' into feature/JAL-4386_calculate_... commit | commitdiff
2024-05-15 Renia CorreyaJAL-4386 Added preferences for secondary structure... commit | commitdiff
2024-05-13 Jim ProcterMerge branch 'develop' into features/JAL-518_justify_se... commit | commitdiff
2024-04-30 Renia CorreyaJAL-4392 Merging consensus secondary structure commit | commitdiff
2023-11-03 James ProcterJAL-4090 JAL-1551 spotlessApply commit | commitdiff
2023-09-07 MorellThomasMerge branch 'hardcode' commit | commitdiff
2023-08-10 Ben SoaresJAL-629 Change all stdout and stderr output to use... commit | commitdiff
2023-07-22 MorellThomasImplement MSA, scoring and counting the connections commit | commitdiff
2023-07-18 James ProcterJAL-3858 annotation .height is bigger than graphHeight... commit | commitdiff
2023-05-22 James ProcterJAL-1551 spotless commit | commitdiff
2023-05-19 James ProcterJAL-1551 spotlessApply commit | commitdiff
2023-05-19 James ProcterJAL-1551 spotlessApply commit | commitdiff
2023-02-27 James ProcterJAL-4134 allow tree groups to be stored/recovered on... commit | commitdiff
2023-02-13 Ben SoaresMerge branch 'merge/JAL-1988_JAL-3772+JAL-3416+JAL... commit | commitdiff
2023-02-03 James ProcterMerge branch 'develop' into features/r2_11_2_alphafold... commit | commitdiff
2023-01-30 Ben SoaresJAL-1988 Make sensible choices if only the opening... merge/JAL-1988_JAL-3772+JAL-3416+JAL-4054+JAL-4064 commit | commitdiff
2022-11-01 Ben SoaresJAL-1988 JAL-3772 Change default alignmentviewport... commit | commitdiff
2022-09-26 Ben SoaresJAL-1988 JAL-3772 linked undostack to saved changes... commit | commitdiff
2022-09-16 Jim ProcterJAL-518 refactored groovy script into main codebase... commit | commitdiff
2022-06-10 Jim ProcterMerge branch 'features/r2_11_2_alphafold/JAL-2349_JAL... commit | commitdiff
2022-03-08 Jim ProcterJAL-3438 spotless for 2.11.2.0 commit | commitdiff
2021-08-11 Jim ProcterMerge branch 'features/JAL-2349_matrixvis' into feature... commit | commitdiff
2020-09-16 Jim ProcterJAL-3748 store an AlignmentView for the complement... commit | commitdiff
2020-08-17 Jim ProcterJAL-3490 merged with 2.11.2 develop commit | commitdiff
2020-08-17 Jim ProcterMerge branch 'patch/Release_2_11_1_Branch_patch_JAL... commit | commitdiff
2020-08-13 gmungocJAL-3597 additional references nulled, bug in test... commit | commitdiff
2020-07-14 gmungocJAL-3597 additional references nulled, bug in test... commit | commitdiff
2019-12-09 gmungocJAL-3490 pull up getViewAsVisibleContigs to base class... commit | commitdiff
2019-10-08 gmungocMerge branch 'develop' into Jalview-JS/develop commit | commitdiff
2019-06-18 Jim ProcterMerge branch 'features/JAL-2349_matrixvis' into merge... commit | commitdiff
2019-06-06 gmungocMerge branch 'develop' into trialMerge commit | commitdiff
2019-04-26 gmungocJAL-3226 removal of superseded changes commit | commitdiff
2019-04-23 hansonr[JAL-3226] problem that JavaScript (or Java) may consol... commit | commitdiff
2019-04-18 hansonrAdds check for gap padding to disallow fast paint upon... commit | commitdiff
2019-04-18 hansonrexplicit Hashtable objects commit | commitdiff
2019-03-13 gmungocMerge branch 'develop' into trialMerge commit | commitdiff
2019-03-11 gmungocMerge branch 'develop' into merge/JAL-3127 commit | commitdiff
2019-03-11 gmungocJAL-3201 restore group colours correctly from project feature/JAL-2250colourAllGroups commit | commitdiff
2019-03-11 gmungocMerge branch 'feature/JAL-3127_seqidChainshading' into... commit | commitdiff
2019-03-01 gmungocMerge branch 'bug/JAL-3158selectionBroadcasts' into... commit | commitdiff
2019-02-26 gmungocJAL-3201 group colour schemes distinct instances commit | commitdiff
2019-02-18 gmungocJAL-3187 'on top' optional for complementary features commit | commitdiff
2019-01-18 gmungocJAL-3187 basic first version for tooltips only (renderi... commit | commitdiff
2018-11-28 gmungocJAL-3158 additional calls to reset 'selection changed... bug/JAL-3158selectionBroadcasts commit | commitdiff
2018-10-16 Jim ProcterJAL-3127 use AlignViewportI.addGroup() to add group... commit | commitdiff
2018-10-16 Jim Procterviewport flag to indicate when structure view needs... commit | commitdiff
2018-07-20 gmungocJAL-3048 revised AlignExportSettings dialog with respon... commit | commitdiff
2018-02-27 Jim ProcterMerge branch 'feature/JAL-2759' into merge/JAL-2759_2104 commit | commitdiff
2018-02-09 gmungocJAL-2666 fix failure to scroll split alignment of height 1 commit | commitdiff
2018-01-19 kiramtJAL-2759 Changes to getVisibleSequenceStrings after... commit | commitdiff
2018-01-16 kiramtJAL-2759 Moved alignment annotation code out of HiddenC... commit | commitdiff
2018-01-15 kiramtJAL-2759 Rename findColumnPosition and adjustForHiddenC... commit | commitdiff
2017-10-27 gmungocJAL-1793 spike branch updated to latest commit | commitdiff
2017-10-26 Jim ProcterJAL-2488 patch causes of NPE during testStoreAndRecover... commit | commitdiff
2017-10-25 Jim ProcterMerge branch 'bug/JAL-2727closeAllFreeMemory' into... commit | commitdiff
2017-10-24 gmungocJAL-2738 update spike branch with latest commit | commitdiff
2017-10-11 kiramtJAL-2742 removed unused getViewAsCigars commit | commitdiff
2017-10-03 gmungocJAL-2738 copy to spikes/mungo commit | commitdiff
2017-09-14 gmungocJAL-2727 null more fields in AlignmentViewport.dispose... commit | commitdiff
2017-09-13 gmungocJAL-2727 null additional references on close commit | commitdiff
2017-09-12 gmungocRevert "JAL-2727 null hconsensus, " commit | commitdiff
2017-09-12 gmungocJAL-2727 null hconsensus, commit | commitdiff
2017-09-12 gmungocJAL-2727 ensure ViewportRanges (and gapcounts) are... commit | commitdiff
2017-08-16 Jim ProcterJAL-2418 source formatting commit | commitdiff
2017-08-08 gmungocJAL-2560 alternative fix (reinstate lost line of code) commit | commitdiff
2017-08-08 gmungocJAL-2649 JAL-2650 wait for Conservation calc to complet... commit | commitdiff
2017-07-24 gmungocspike branch updated from latest features/JAL-2446 commit | commitdiff
2017-07-06 gmungocJAL-147 unit test for hide/show sequences update Viewpo... commit | commitdiff
2017-07-05 Jim ProcterMerge branch 'develop' into features/JAL-2349_matrixvis commit | commitdiff
2017-07-04 gmungocJAL-147 revised update of startSeq, endSeq on unhide... commit | commitdiff
2017-07-04 gmungocJAL-147 corrected update of ViewportRanges for show... commit | commitdiff
2017-07-04 gmungocJAL-147 update ViewportRanges height after show/hide... commit | commitdiff
2017-07-03 gmungocMerge branch 'develop' into bug/JAL-147scrollWrappedView commit | commitdiff
2017-06-30 gmungocJAL-2602 pulled up identical methods to base class commit | commitdiff
2017-06-29 gmungocJAL-147 improved wrapped scrolling (including Overview... commit | commitdiff
2017-06-09 gmungocJAL-2446 merged to spike branch commit | commitdiff
2017-06-09 Jim ProcterMerge branch 'develop' into features/JAL-2349_matrixvis commit | commitdiff
2017-06-06 kiramtJAL-2591 Removed getHiddenRegions()==null checks which... commit | commitdiff
2017-05-24 kiramtJAL-2034 Added isDefined flag to SequenceGroup commit | commitdiff
2017-05-15 Jim ProcterJAL-2371 create a default ResidueShader when constructi... commit | commitdiff
2017-05-12 Jim ProcterMerge branch 'features/JAL-2435splitScreenFont' into... commit | commitdiff
2017-05-05 gmungocMerge branch 'develop' into features/JAL-2435splitScree... commit | commitdiff
2017-05-05 kiramtMerge remote-tracking branch commit | commitdiff
2017-05-05 kiramtMerge remote-tracking branch 'origin/develop' into commit | commitdiff
2017-05-03 Jim ProcterJAL-1933 JAL-2501 i18n for all auto calculated descriptions features/JAL-2432_annotbypercent commit | commitdiff
2017-04-27 Jim ProcterJAL-1933 consensus calculation doesn’t depend on occupa... commit | commitdiff
2017-04-27 Jim ProcterJAL-1933 only create and add occupancy row to alignment... commit | commitdiff
2017-04-27 Jim ProcterJAL-1933 occupancy row has a space below it for counts commit | commitdiff
2017-04-24 kiramtMerge remote-tracking branch commit | commitdiff
2017-04-24 kiramtJAL-2388 Finished split of hidden columns and selected... commit | commitdiff
2017-04-24 kiramtJAL-2388 Hidden cols separated from column selection... commit | commitdiff
2017-04-19 kiramtMerge remote-tracking branch 'origin/develop' into commit | commitdiff
2017-04-03 gmungocMerge branch 'develop' into features/JAL-2435splitScree... commit | commitdiff
2017-03-31 gmungocMerge branch 'develop' into bug/JAL-2431splitFrameNewView bug/JAL-2431splitFrameNewView commit | commitdiff
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