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Almost working
2023-05-19
James Procter
JAL-1551 spotlessApply
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2023-05-18
James Procter
JAL-4134 support recovery of mapped positions for raw...
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2023-05-18
James Procter
JAL-4134 colour by annotation needs distinct annotation...
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2023-05-18
James Procter
JAL-4134 column grouping model and methods moved to...
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2023-05-18
James Procter
JAL-4134 formatting
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2023-05-18
James Procter
JAL-4134 properly specify BinaryNode as a typed generic...
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2023-05-17
James Procter
JAL-4184 release notes
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2023-05-17
James Procter
Merge branch 'patch/JAL-4184_description_stockholm...
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2023-05-17
James Procter
JAL-4184 export description line in stockholm
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2023-05-17
James Procter
JAL-4184 failing test for description export and re...
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2023-05-16
James Procter
JAL-4089 - if no centerViewOn commands are given, don...
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2023-05-15
James Procter
JAL-4182 patch - map selection group onto sequence...
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2023-05-15
James Procter
JAL-4182 failing test
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2023-05-14
James Procter
JAL-2349 fix up tests for Java 11 compatibility and...
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2023-05-14
James Procter
JAL-4134 add tree distance engine test to functional
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2023-05-14
James Procter
JAL-2349 store/restore mappable contact matrix in project...
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2023-05-13
James Procter
JAL-2349 JAL-3855 PAE tests covers ContactListI.getMappedPos...
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2023-05-13
James Procter
JAL-2349 JAL-3855 helper method to make it easy to...
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2023-05-12
James Procter
JAL-2349 allow PAE or other contact matrices to hold...
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2023-05-01
James Procter
Merge branch 'features/JAL-4134_treeviewerforcolumns...
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2023-05-01
James Procter
JAL-4177 disable ‘Cancel’ as well - since we as yet...
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2023-05-01
James Procter
JAL-4177 disable add/new view when an import is started.
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2023-05-01
James Procter
JAL-4123 JAL-3914 JAL-3858 tweak wording and layout...
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2023-05-01
James Procter
JAL-4134 double click to select column groups
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2023-05-01
James Procter
JAL-3858 report errors when trying to parse JSON to...
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2023-05-01
James Procter
Merge branch 'features/JAL-4134_treeviewerforcolumns...
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2023-04-17
James Procter
Merge branch 'develop' into releases/Release_2_11_3_Branch
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2023-03-31
James Procter
Merge branch 'features/JAL-4134_treeviewerforcolumns...
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2023-03-24
James Procter
Merge branch 'develop' into features/JAL-4134_treeviewerforc...
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2023-03-24
James Procter
JAL-4134 - store colours in annotation row, so colour...
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2023-03-24
James Procter
JAL-4158 first attempt at stashing colours for contact...
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2023-03-23
James Procter
Merge branch 'patch/JAL-4153_flakyJvCacheableInputBoxTest...
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2023-03-20
James Procter
JAL-4134 override default hasTree so PAE tree is saved!
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2023-03-20
James Procter
JAL-4153 longer Thread.sleep() calls in the hope that...
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2023-03-20
James Procter
JAL-4134 - missing Jalview project JAXB class - st...
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2023-03-20
James Procter
Merge branch 'develop' into features/JAL-4134_treeviewerforc...
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2023-03-20
James Procter
JAL-4150 test and quick patch copying code from AlignFrame...
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2023-03-20
James Procter
JAL-2349 JAL-4134 Console log messages for contact...
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2023-03-20
James Procter
JAL-4134 propagate column selection changes in tree...
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2023-03-20
James Procter
JAL-4134 fix off-by-one in selection
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2023-03-20
James Procter
JAL-4134 fix NPEs when matrix not resolved or alignment...
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2023-03-20
James Procter
JAL-4134 better popup menu name ‘Tree for Contact Matrix’
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2023-03-20
James Procter
JAL-2349 test TODOs
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2023-03-20
James Procter
JAL-2349 fix off by one when resolving columns for...
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2023-03-17
James Procter
JAL-4134 fix up column selection when hidden regions...
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2023-03-17
James Procter
JAL-4134 store/restore Newick tree for PAE annotation row
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2023-03-15
James Procter
JAL-4091 JAL-4147 - revised annotation label display...
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2023-03-15
James Procter
JAL-4091 JAL-629 ‘Add Reference Annotations’ takes...
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2023-03-15
James Procter
JAL-2349 don’t clobber existing label/description...
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2023-03-15
James Procter
JAL-4134 JAL-3855 store/restore groups, tree and threshold...
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2023-03-08
James Procter
JAL-2349 handle matrix_clicked on mouse_release rather...
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2023-03-08
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
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2023-03-01
James Procter
JAL-4134 hold ctrl to select groups containing rows...
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2023-02-27
James Procter
JAL-2349 TODO consider caching contactRanges from getContact...
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2023-02-27
James Procter
JAL-4134 tree panel shouldn’t try to redraw before...
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2023-02-27
James Procter
JAL-4134 fix more of the egregious SeqNode/BinaryNode...
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2023-02-27
James Procter
JAL-4134 leaves marked when columns are selected -...
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2023-02-27
James Procter
JAL-4134 TODO: alternative way of performing interactive...
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2023-02-27
James Procter
JAL-4134 use average distance between PAE elements...
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2023-02-27
James Procter
JAL-4134 display tree for columns - selecting an internal...
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2023-02-27
James Procter
JAL-4134 compute normalised dot product for contact...
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2023-02-27
James Procter
JAL-4134 allow tree groups to be stored/recovered on...
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2023-02-27
James Procter
Merge branch 'develop' into features/JAL-4134_treeviewerforc...
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2023-02-24
James Procter
JAL-629 JAL-4124 JAL-3855 test to check we can import...
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2023-02-24
James Procter
JAL-629 JAL-4124 JAL-3855 test to check we can import...
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2023-02-24
James Procter
Merge branch 'features/JAL-3858_PAEsInProjects' into...
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2023-02-24
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
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2023-02-23
James Procter
JAL-4134 group columns using a tree cut - seems to...
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2023-02-23
James Procter
JAL-4134 - brutal hack to build a tree clustering columns...
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2023-02-23
James Procter
JAL-4134 tidied up refactoring and fix compilation...
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2023-02-23
James Procter
Merge branch 'features/JAL-3858_PAEsInProjects' into...
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2023-02-23
James Procter
JAL-3858 new MatrixType JAX-RI POJO
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2023-02-23
James Procter
JAL-4134 - refactor tree calculation code to work with...
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2023-02-23
James Procter
JAL-4133 update validChar width when font is changed...
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2023-02-22
James Procter
JAL-4133 store/restore alignment view’s charWidth and...
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2023-02-22
James Procter
JAL-3858 persist PAE matrix (only so far) as serialised...
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2023-02-22
James Procter
JAL-1551 source formatting
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2023-02-22
James Procter
JAL-3858 simple test for PAE matrix recovery
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2023-02-22
James Procter
JAL-3858 construct a PAE direct from float array
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2023-02-22
James Procter
JAL-629 make sure we show GUI when not driven programmatically
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2023-02-22
James Procter
JAL-4095 slightly better threshold setting and todos...
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2023-02-22
James Procter
JAL-4095 magic fill behaviour is PAE specific
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2023-02-22
James Procter
JAL-3858 JAL-2381 allow different linear shading schemes...
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2023-02-22
James Procter
JAL-4027 JAL-3858 rename CUSTOM_RENDERER to CONTACT_MATRIX...
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2023-02-16
James Procter
Merge branch 'features/r2_11_2_alphafold/JAL-629' into...
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2023-02-16
James Procter
JAL-1713 don’t close an automatically created overview...
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2023-02-15
James Procter
Merge branch 'develop' into feature/JAL-1713_overviewInProject
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2023-02-15
James Procter
Passing test for JAL-4127 failing on the JAL-1713 branch
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2023-02-15
James Procter
JAL-4090 move 2.11.3 series release notes to 2.11.3...
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2023-02-13
James Procter
Merge branch 'develop' into feature/JAL-1713_overviewInProject
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2023-02-10
James Procter
JAL-3077 broken conflict resolve resulted in failing...
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2023-02-10
James Procter
Fix for JAL-4126 - don’t automatically create a threshold...
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2023-02-10
James Procter
JAL-4126 comment out closeAll - so we can visually...
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2023-02-10
James Procter
JAL-4126 failing test - colour scheme appears to be...
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2023-02-03
James Procter
JAL-1551 remove temp file in src
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2023-02-03
James Procter
Merge branch 'develop' into features/r2_11_2_alphafold...
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2023-02-02
James Procter
JAL-4119 JAL-2144 ‘invalid’ DBRefEntry has a null version...
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2023-02-02
James Procter
JAL-4119 use split_xml directories rather than the...
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2023-01-31
James Procter
JAL-1713 update from Jalview 2.11.3 develop
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2023-01-25
James Procter
JAL-4116 relegate the failed to promote warning to...
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