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jalview.git
2023-08-24 Ben SoaresMerge branch 'improvement/JAL-4250_secondary_structure_... commit | commitdiff | tree | snapshot
2023-08-24 Ben SoaresJAL-4250 Much simplified glyph creation removing most... commit | commitdiff | tree | snapshot
2023-08-23 Ben SoaresMerge branch 'improvement/JAL-4250_secondary_structure_... commit | commitdiff | tree | snapshot
2023-08-23 Ben SoaresJAL-4250 Fix one word bug for 'af.createEPS(file, rende... commit | commitdiff | tree | snapshot
2023-08-23 Ben SoaresMerge branch 'improvement/JAL-4250_secondary_structure_... commit | commitdiff | tree | snapshot
2023-08-23 Ben SoaresJAL-4250 Updated jfreesvg to fix round stroke in linegraph. commit | commitdiff | tree | snapshot
2023-08-23 Ben SoaresMerge branch 'improvement/JAL-4250_secondary_structure_... commit | commitdiff | tree | snapshot
2023-08-23 Ben SoaresJAL-4250 Simplification of polygons and adjustments... commit | commitdiff | tree | snapshot
2023-08-21 Ben SoaresMerge branch 'improvement/JAL-4250_secondary_structure_... commit | commitdiff | tree | snapshot
2023-08-21 Ben SoaresJAL-4250 revert green to bright green commit | commitdiff | tree | snapshot
2023-08-21 Ben SoaresMerge branch 'improvement/JAL-4250_secondary_structure_... commit | commitdiff | tree | snapshot
2023-08-21 Ben SoaresJAL-4250 Conservative setting of ANTIALIAS and readjust... commit | commitdiff | tree | snapshot
2023-08-18 Ben SoaresJAL-4250 Make secondary structure annotation shapes... commit | commitdiff | tree | snapshot
2023-08-18 Ben SoaresMerge branch 'improvement/JAL-4206_improve_JalviewFileC... commit | commitdiff | tree | snapshot
2023-08-18 Ben SoaresMerge branch 'bug/JAL-4214_system_freeze_when_opening_f... commit | commitdiff | tree | snapshot
2023-08-18 Ben SoaresMerge branch 'improvement/JAL-4212_remove_macos_test_ja... commit | commitdiff | tree | snapshot
2023-08-18 Ben SoaresMerge branch 'feature/JAL-244_Automatically_adjust_left... commit | commitdiff | tree | snapshot
2023-08-18 Ben SoaresMerge branch 'improvement/JAL-3830_remove_dock_icon_in_... commit | commitdiff | tree | snapshot
2023-08-18 Ben SoaresMerge branch 'bug/JAL-4242_exception_when_pressing_esca... commit | commitdiff | tree | snapshot
2023-08-18 Ben SoaresJAL-3416 Remove full height separators between new... improvement/JAL-3416_FlatLaf_3.2 commit | commitdiff | tree | snapshot
2023-08-18 Ben SoaresJAL-3416 flatlaf and flatlaf-extras 3.2 jars commit | commitdiff | tree | snapshot
2023-08-18 Ben SoaresJAL-4242 null check on getValue() return bug/JAL-4242_exception_when_pressing_escape_in_fetch_from_URL_dialog commit | commitdiff | tree | snapshot
2023-08-17 Ben SoaresMerge branch 'feature/JAL-629_--output_-_means_output_t... commit | commitdiff | tree | snapshot
2023-08-17 Ben SoaresJAL-3830 JAL-4160 Remove --noheadless as --gui does... commit | commitdiff | tree | snapshot
2023-08-17 James ProcterJAL-4090 JAL-4243 bio.tools json file release notes commit | commitdiff | tree | snapshot
2023-08-16 Ben SoaresJAL-3830 JAL-3421 Conda launch script for 2.11.3 and... commit | commitdiff | tree | snapshot
2023-08-16 Ben SoaresMerge branch 'develop' into improvement/JAL-3830_remove... commit | commitdiff | tree | snapshot
2023-08-16 Ben SoaresJAL-4160 JAL-3830 Improvements to the jalview.sh bash... commit | commitdiff | tree | snapshot
2023-08-16 Ben SoaresJAL-3820 JAL-4189 Use the same LaunchUtils methods... commit | commitdiff | tree | snapshot
2023-08-16 Ben SoaresJAL-3820 JAL-4189 Move checks for java executable symli... commit | commitdiff | tree | snapshot
2023-08-11 Ben SoaresJAL-629 Much better way of dealing with list of filenam... commit | commitdiff | tree | snapshot
2023-08-10 Ben SoaresJAL-629 more tests for stdout commit | commitdiff | tree | snapshot
2023-08-10 Ben SoaresJAL-629 STDOUT documentation. Opt.STDOUT narrower... commit | commitdiff | tree | snapshot
2023-08-10 Ben SoaresJAL-629 Change all stdout and stderr output to use... commit | commitdiff | tree | snapshot
2023-08-10 Ben SoaresJAL-629 Method to use for printStackTrace commit | commitdiff | tree | snapshot
2023-08-09 Ben SoaresJAL-629 Move more stdout messages to stderr when output... commit | commitdiff | tree | snapshot
2023-08-09 Ben SoaresJAL-629 Default to FASTA if no format given for output... commit | commitdiff | tree | snapshot
2023-08-09 Ben SoaresJAL-629 Enable output to STDOUT when specifying output... commit | commitdiff | tree | snapshot
2023-08-09 Ben SoaresJAL-244 Fix window size narrow adjustment not becoming... feature/JAL-244_Automatically_adjust_left_margin_to_avoid_cropping_annotation_labels commit | commitdiff | tree | snapshot
2023-08-08 Ben SoaresJAL-244 Added light grey marks to indicate regions... commit | commitdiff | tree | snapshot
2023-08-08 Ben SoaresJAL-244 Fix mismatched vertical positioning of sequence... commit | commitdiff | tree | snapshot
2023-08-07 Ben SoaresJAL-244 Avoid working on the Ids Graphics object when... commit | commitdiff | tree | snapshot
2023-08-04 Ben SoaresJAL-244 Adjust wrapped alignment widths to always maint... commit | commitdiff | tree | snapshot
2023-08-02 Ben SoaresJAL-244 Fix buglet with automatic change in id column... commit | commitdiff | tree | snapshot
2023-08-01 Ben SoaresJAL-244 More control of automatic idWidth adjustments... commit | commitdiff | tree | snapshot
2023-08-01 Ben SoaresMerge branch 'develop' into feature/JAL-244_Automatical... commit | commitdiff | tree | snapshot
2023-07-28 Ben SoaresJAL-4064 Added more recognisable display names to macOS... commit | commitdiff | tree | snapshot
2023-07-27 Ben SoaresMerge branch 'develop' into feature/JAL-244_Automatical... commit | commitdiff | tree | snapshot
2023-07-27 Ben SoaresJAL-244 Allow wrap manual adjustments to be smaller... commit | commitdiff | tree | snapshot
2023-07-27 Ben SoaresJAL-244 Allow adjusting Id column width in wrap mode... commit | commitdiff | tree | snapshot
2023-07-25 Ben SoaresJAL-244 testing without AlignFrame for --wrap commit | commitdiff | tree | snapshot
2023-07-22 James ProcterJAL-4243 Jalview 2.11.2.7’s biotool record as JSON... commit | commitdiff | tree | snapshot
2023-07-21 Ben SoaresJAL-244 Fixed idWidth labels in headless mode for non... commit | commitdiff | tree | snapshot
2023-07-20 Ben SoaresJAL-244 More accurate width calculation, allow increase... commit | commitdiff | tree | snapshot
2023-07-20 Ben SoaresJAL-244 test files commit | commitdiff | tree | snapshot
2023-07-20 James ProcterJAL-3855 tree title for PAE matrix tree is PAE Matrix... patch/JAL-3855_fixup_pae commit | commitdiff | tree | snapshot
2023-07-20 James ProcterJAL-3855 auto select clusters and fix up colouring... commit | commitdiff | tree | snapshot
2023-07-19 Ben SoaresJAL-244 Changes to Annotation labels width now adjusts... commit | commitdiff | tree | snapshot
2023-07-19 James ProcterMerge branch 'patch/JAL-3855_fixup_pae' into develop commit | commitdiff | tree | snapshot
2023-07-18 James ProcterMerge branch 'develop' into patch/JAL-3855_fixup_pae commit | commitdiff | tree | snapshot
2023-07-18 James ProcterJAL-4153 comments re patch incorrectly committed under... commit | commitdiff | tree | snapshot
2023-07-18 Ben SoaresJAL-4513 move comments commit | commitdiff | tree | snapshot
2023-07-18 Ben SoaresJAL-4513 now re-add the SwingUtilities.invokeAndWait... bug/JAL-4513_JvCacheableInputBoxTest_flaky_on_build_server commit | commitdiff | tree | snapshot
2023-07-18 James ProcterJAL-3855 PAE matrices are transposed on import from... commit | commitdiff | tree | snapshot
2023-07-18 James ProcterJAL-3855 JAL-4124 test checks asymmetric matrices are... commit | commitdiff | tree | snapshot
2023-07-18 James ProcterJAL-3858 fix off-by-one in matrix visualisation and... commit | commitdiff | tree | snapshot
2023-07-18 James ProcterJAL-3858 flip diagonal so matrix visualisation is top... commit | commitdiff | tree | snapshot
2023-07-18 James ProcterJAL-3858 annotation .height is bigger than graphHeight... commit | commitdiff | tree | snapshot
2023-07-18 Ben SoaresJAL-4513 reduce wait to invoke fail commit | commitdiff | tree | snapshot
2023-07-18 Ben SoaresJAL-4513 add a SwingUtilities.invokeAndWait() to see... commit | commitdiff | tree | snapshot
2023-07-17 Ben SoaresJAL-3599 Updated default eclipse to 'latest' and made... commit | commitdiff | tree | snapshot
2023-07-17 James ProcterJAL-4119 TRACE level console message reporting download... commit | commitdiff | tree | snapshot
2023-07-17 James ProcterJAL-4090 JAL-4165 known issue commit | commitdiff | tree | snapshot
2023-07-17 James ProcterJAL-4090 JAL-4165 known issue commit | commitdiff | tree | snapshot
2023-07-17 James ProcterJAL-4223 add testdata for test commit | commitdiff | tree | snapshot
2023-07-17 James ProcterJAL-4090 mark JAL-4178 and JAL-4142 as known issues commit | commitdiff | tree | snapshot
2023-07-17 James ProcterJAL-4217 move Commands.structureImageTest to testTask1 commit | commitdiff | tree | snapshot
2023-07-12 James ProcterJAL-4223 - test and patch to ensure numbering matches... commit | commitdiff | tree | snapshot
2023-07-10 James ProcterMerge branch 'improvement/JAL-4212_remove_macos_test_ja... improvement/JAL-4212_remove_macos_test_java_icons commit | commitdiff | tree | snapshot
2023-07-10 James ProcterMerge branch 'improvement/JAL-3830_remove_dock_icon_in_... commit | commitdiff | tree | snapshot
2023-07-07 James ProcterMerge branch 'patch/JAL-4195_cli_eps_export_npe' into... commit | commitdiff | tree | snapshot
2023-07-07 James ProcterJAL-4217 JAL-629 built in 25s time out waiting for... commit | commitdiff | tree | snapshot
2023-07-07 James ProcterJAL-4090 update 2.11.3.0 release notes (with in-progres... commit | commitdiff | tree | snapshot
2023-07-07 James ProcterMerge branch 'patch/JAL-4119_sifts_ftp_split' into... commit | commitdiff | tree | snapshot
2023-07-07 James ProcterMerge branch 'develop' into patch/JAL-4195_cli_eps_expo... patch/JAL-4195_cli_eps_export_npe commit | commitdiff | tree | snapshot
2023-07-07 James ProcterJAL-4195 add exception handling for all other CommandsT... commit | commitdiff | tree | snapshot
2023-07-07 James ProcterJAL-4221 update description when transferring annotatio... commit | commitdiff | tree | snapshot
2023-07-07 James ProcterJAL-629 even more console debug for --structureviewer... commit | commitdiff | tree | snapshot
2023-07-06 James ProcterJAL-629 liberal defensive coding, comments about refact... commit | commitdiff | tree | snapshot
2023-07-06 James ProcterJAL-629 make —structure image work again after threadin... commit | commitdiff | tree | snapshot
2023-07-06 James ProcterJAL-4217 catch case when the structure viewer doesn... commit | commitdiff | tree | snapshot
2023-07-06 James ProcterJAL-4217 interruptedExceptions should also break any... commit | commitdiff | tree | snapshot
2023-07-06 James ProcterJAL-2292 verify mixed case alignment actually aligns commit | commitdiff | tree | snapshot
2023-07-06 James ProcterJAL-4217 wrap imageExport CLI method's call to imageExp... commit | commitdiff | tree | snapshot
2023-07-06 James ProcterJAL-4217 wrap imageExport CLI method's call to imageExp... commit | commitdiff | tree | snapshot
2023-07-05 James ProcterMerge branch 'patch/JAL-2292_caseSensitivePAE' into... commit | commitdiff | tree | snapshot
2023-07-05 James ProcterMerge branch 'patch/JAL-4213_addref_with_selection... commit | commitdiff | tree | snapshot
2023-07-04 James ProcterMerge branch 'merge/from_2_11_2_7_to_2_11_3_0' into... commit | commitdiff | tree | snapshot
2023-07-04 James ProcterJAL-4117 JAL-1551 source licensing commit | commitdiff | tree | snapshot
2023-07-04 James ProcterJAL-4117 Fri June 30th release of 2.11.2.7 with Jalview... commit | commitdiff | tree | snapshot
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