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Merge branch 'develop' into releases/Release_2_11_3_Branch
[jalview.git]
/
src
/
jalview
/
gui
/
2023-06-01
James Procter
JAL-4134 properly resolve positions in associated align...
features/JAL-4134_use_annotation_row_for_colours_and_groups
tree
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commitdiff
2023-05-30
James Procter
JAL-4134 repaint the tree or alignment view(s) when...
tree
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commitdiff
2023-05-30
James Procter
JAL-4134 highlight selected column nodes on the linked...
tree
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commitdiff
2023-05-29
James Procter
JAL-4190 - escape clears selected nodes
tree
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commitdiff
2023-05-29
James Procter
Merge branch 'develop' into features/JAL-4134_use_annot...
tree
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commitdiff
2023-05-26
Ben Soares
JAL-4125 Fixed non-closing external viewers, also added...
tree
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commitdiff
2023-05-26
James Procter
JAL-4134 internationalise popup menu entries and show...
tree
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commitdiff
2023-05-26
James Procter
JAL-1556 fix bad import
tree
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commitdiff
2023-05-26
James Procter
Merge branch 'develop' into features/JAL-4134_use_annot...
tree
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commitdiff
2023-05-26
James Procter
JAL-1556 initial implementation - no tests as yet but...
tree
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commitdiff
2023-05-26
Ben Soares
JAL-629 dispose of non-displaying StructureChooser...
tree
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commitdiff
2023-05-26
Ben Soares
Merge branch 'develop' into feature/JAL-3416_update_to_...
feature/JAL-3416_update_to_flatlaf_3.1.1_with_unpacked_native_libraries
tree
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commitdiff
2023-05-25
James Procter
JAL-4134 popup menu and annotation row property to...
tree
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commitdiff
2023-05-25
James Procter
JAL-2381 copy and paste sequence also copies contact...
tree
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commitdiff
2023-05-25
Ben Soares
JAL-3820 Create and use 'Jalview app' symblinks to...
tree
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commitdiff
2023-05-25
Ben Soares
JAL-4186 Turn JvOptionPane Callable<Void> handlers...
tree
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commitdiff
2023-05-24
Ben Soares
JAL-4186 attempts to work in jalviewjs, still not working
tree
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commitdiff
2023-05-24
Ben Soares
JAL-4186 fix dialog. broken in JalviewJS
tree
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commitdiff
2023-05-23
Ben Soares
JAL-629 Added --structureimage code and formatting...
tree
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commitdiff
2023-05-22
Ben Soares
JAL-629 --structureimage with formatting args.
tree
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commitdiff
2023-05-22
James Procter
JAL-4134 map between column and node selections better...
tree
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commitdiff
2023-05-22
James Procter
JAL-4134 efficiency improvement
tree
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commitdiff
2023-05-22
James Procter
JAL-4134 only build tree when showing it in the tree...
tree
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commitdiff
2023-05-22
James Procter
JAL-1551 spotless
tree
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commitdiff
2023-05-19
James Procter
Merge branch 'develop' into features/JAL-4134_use_annot...
tree
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commitdiff
2023-05-19
James Procter
JAL-1551 spotlessApply
tree
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commitdiff
2023-05-19
James Procter
JAL-1551 spotlessApply
tree
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commitdiff
2023-05-18
James Procter
JAL-4134 support recovery of mapped positions for raw...
tree
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commitdiff
2023-05-18
James Procter
JAL-4134 column grouping model and methods moved to...
tree
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commitdiff
2023-05-14
James Procter
JAL-2349 store/restore mappable contact matrix in proje...
tree
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commitdiff
2023-05-11
Ben Soares
JAL-629 Fix --tempfac. Hide non-working --notempfac...
tree
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commitdiff
2023-05-05
Ben Soares
JAL-629 test fixes
tree
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commitdiff
2023-05-02
Ben Soares
JAL-629 Add --renderer arg/subval for vector output...
tree
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commitdiff
2023-05-01
James Procter
Merge branch 'features/JAL-4134_treeviewerforcolumns...
tree
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commitdiff
2023-05-01
James Procter
JAL-4177 disable ‘Cancel’ as well - since we as yet...
features/JAL-4134_treeviewerforcolumns
tree
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commitdiff
2023-05-01
James Procter
JAL-4177 disable add/new view when an import is started.
tree
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commitdiff
2023-05-01
James Procter
JAL-4134 double click to select column groups
tree
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commitdiff
2023-05-01
James Procter
JAL-3858 report errors when trying to parse JSON to...
tree
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commitdiff
2023-04-22
Ben Soares
JAL-629 Test and fix --annotation --ssannotation args...
tree
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commitdiff
2023-04-19
Ben Soares
JAL-629 Now showing temp fac and secondary structure...
tree
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commitdiff
2023-04-14
Ben Soares
JAL-629 Adding PAE and TFType at structure loading...
tree
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commitdiff
2023-04-12
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
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commitdiff
2023-03-28
Ben Soares
JAL-629 Opening files in new windows. not working yet
tree
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commitdiff
2023-03-24
James Procter
JAL-4134 - store colours in annotation row, so colour...
tree
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commitdiff
2023-03-24
James Procter
JAL-4158 first attempt at stashing colours for contact...
tree
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commitdiff
2023-03-24
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
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commitdiff
2023-03-24
Ben Soares
JAL-629 Test tidyup
tree
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commitdiff
2023-03-23
Ben Soares
JAL-629 refactor ArgParser and helper classes all to...
tree
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commitdiff
2023-03-20
James Procter
Merge branch 'develop' into features/JAL-4134_treeviewe...
tree
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commitdiff
2023-03-20
James Procter
JAL-4150 test and quick patch copying code from AlignFr...
tree
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commitdiff
2023-03-20
James Procter
JAL-2349 JAL-4134 Console log messages for contact...
tree
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commitdiff
2023-03-20
James Procter
JAL-4134 propagate column selection changes in tree...
tree
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commitdiff
2023-03-20
James Procter
JAL-4134 fix off-by-one in selection
tree
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commitdiff
2023-03-20
James Procter
JAL-4134 fix NPEs when matrix not resolved or alignment...
tree
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commitdiff
2023-03-20
James Procter
JAL-4134 better popup menu name ‘Tree for Contact Matrix’
tree
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commitdiff
2023-03-17
Ben Soares
JAL-629 All applications System.exits going through...
tree
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commitdiff
2023-03-17
James Procter
JAL-4134 fix up column selection when hidden regions...
tree
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commitdiff
2023-03-17
James Procter
JAL-4134 store/restore Newick tree for PAE annotation row
tree
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commitdiff
2023-03-15
James Procter
JAL-4091 JAL-4147 - revised annotation label display...
tree
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commitdiff
2023-03-15
Ben Soares
JAL-629 Commands more objecty, less classy. FileLoader...
tree
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commitdiff
2023-03-08
James Procter
JAL-2349 handle matrix_clicked on mouse_release rather...
tree
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commitdiff
2023-03-08
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
tree
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commitdiff
2023-03-08
Ben Soares
JAL-629 stash some TFType and PAEFile info into a PDBEntry
tree
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commitdiff
2023-03-06
Ben Soares
JAL-629 Fix null AlignPanel. More descriptive label...
tree
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commitdiff
2023-03-03
Ben Soares
JAL-629 Improved consistency of ArgParser classes ...
tree
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commitdiff
2023-03-02
Ben Soares
JAL-629 Removal of unnecessary methods. Set pLTTD tempf...
tree
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commitdiff
2023-03-02
Ben Soares
JAL-629 Some refactoring to allow more flexible use...
tree
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commitdiff
2023-03-01
James Procter
JAL-4134 hold ctrl to select groups containing rows...
tree
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commitdiff
2023-02-27
Ben Soares
JAL-629 add AF examples for FER1_SPIOL. Link and displa...
tree
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commitdiff
2023-02-27
James Procter
JAL-4134 tree panel shouldn’t try to redraw before...
tree
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commitdiff
2023-02-27
James Procter
JAL-4134 leaves marked when columns are selected -...
tree
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commitdiff
2023-02-27
James Procter
JAL-4134 TODO: alternative way of performing interactiv...
tree
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commitdiff
2023-02-27
James Procter
JAL-4134 display tree for columns - selecting an intern...
tree
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commitdiff
2023-02-27
James Procter
JAL-4134 allow tree groups to be stored/recovered on...
tree
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commitdiff
2023-02-27
Ben Soares
JAL-629 Fix Exceptions when running with CLI not headless
tree
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commitdiff
2023-02-27
Ben Soares
JAL-629 Guesstimate whether to set pLDDT with PDB file
tree
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commitdiff
2023-02-27
Ben Soares
JAL-629 removed debug prints. added .cif. added some...
tree
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commitdiff
2023-02-27
James Procter
Merge branch 'develop' into features/JAL-4134_treeviewe...
tree
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commitdiff
2023-02-26
Ben Soares
JAL-629 PAE matrix file guesstimate from filename
tree
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commitdiff
2023-02-24
Ben Soares
JAL-629 Position GUI widgets for PDF file options....
tree
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commitdiff
2023-02-24
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
features/JAL-3858_PAEsInProjects
tree
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commitdiff
2023-02-23
James Procter
JAL-4134 - brutal hack to build a tree clustering colum...
tree
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commitdiff
2023-02-23
James Procter
JAL-4134 - refactor tree calculation code to work with...
tree
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commitdiff
2023-02-23
James Procter
JAL-4133 update validChar width when font is changed...
tree
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commitdiff
2023-02-22
James Procter
JAL-4133 store/restore alignment view’s charWidth and...
tree
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commitdiff
2023-02-22
James Procter
JAL-629 make sure we show GUI when not driven programma...
tree
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commitdiff
2023-02-22
James Procter
JAL-4095 slightly better threshold setting and todos...
tree
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commitdiff
2023-02-22
James Procter
JAL-4095 magic fill behaviour is PAE specific
tree
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commitdiff
2023-02-22
Ben Soares
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
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commitdiff
2023-02-22
James Procter
JAL-4027 JAL-3858 rename CUSTOM_RENDERER to CONTACT_MAT...
tree
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commitdiff
2023-02-20
Ben Soares
JAL-4128 Catch RasterFormatException caused whilst...
bug/JAL-4128_resizing_overview_with_solid_drags_causes_exception
tree
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commitdiff
2023-02-20
Ben Soares
Merge branch 'develop' into bug/JAL-4125_flatlaf_quitha...
bug/JAL-4125_flatlaf_quithandler_warning_doesnt_display_properly
tree
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commitdiff
2023-02-16
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
tree
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commitdiff
2023-02-13
Ben Soares
Merge branch 'merge/JAL-1988_JAL-3772+JAL-3416+JAL...
tree
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commitdiff
2023-02-13
Ben Soares
JAL-4125 Move confirmation of closing external viewer...
tree
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commitdiff
2023-02-13
James Procter
Merge branch 'develop' into feature/JAL-1713_overviewIn...
tree
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commitdiff
2023-02-09
Ben Soares
JAL-4125 Additions to JvOptionPane and QuitHandler...
tree
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commitdiff
2023-02-03
Ben Soares
JAL-629 Fasta sequence id reading whitespace fix. Flexi...
tree
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commitdiff
2023-02-03
James Procter
JAL-1551 remove temp file in src
tree
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commitdiff
2023-02-03
James Procter
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
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commitdiff
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