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Merge branch 'releases/Release_2_11_1_Branch' of https://source.jalview.org/git/jalvi...
[jalview.git]
/
src
/
2019-01-30
Ben Soares
JAL-3141 Enabled the 'Include backpup files' checkbox...
tree
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commitdiff
2019-01-29
Ben Soares
JAL-3141 Found a good fix for updating the FileChooser...
tree
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commitdiff
2019-01-29
Ben Soares
JAL-3141 Found a (not ideal) fix for updating the FileC...
tree
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commitdiff
2019-01-29
gmungoc
JAL-3143 format alleles array for feature description
tree
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commitdiff
2019-01-28
Ben Soares
JAL-3141 improvement on BackupFilenameParts filename...
tree
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commitdiff
2019-01-25
Ben Soares
JAL-3141. This adds quite a lot of code to allow an...
tree
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commitdiff
2019-01-25
gmungoc
JAL-3187 return a colour for linked features with trans...
tree
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commitdiff
2019-01-25
gmungoc
JAL-3187 set initial state of checkbox from viewport
tree
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commitdiff
2019-01-25
gmungoc
JAL-3187 don't compute variant features on peptide...
tree
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commitdiff
2019-01-24
Ben Soares
JAL-3141 Added a '.fa' to filename examples
tree
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commitdiff
2019-01-24
Ben Soares
JAL-3141 Change of label
tree
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commitdiff
2019-01-24
Ben Soares
JAL-3141 Removed border around example filenames in...
tree
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commitdiff
2019-01-24
Ben Soares
JAL-3141 New layout and wording of Backups Preferences...
tree
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commitdiff
2019-01-24
gmungoc
JAL-3018 Ensembl version updated to 9.0
tree
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commitdiff
2019-01-24
Ben Soares
JAL-3141 Reformatted code in eclipse
tree
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commitdiff
2019-01-23
Ben Soares
JAL-3141 Added Presets options in the Backups Preferenc...
tree
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commitdiff
2019-01-23
gmungoc
JAL-3187 fix out by one feature on structure position
tree
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commitdiff
2019-01-23
gmungoc
Merge branch 'develop' into feature/JAL-3187linkedFeatures
tree
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commitdiff
2019-01-23
gmungoc
JAL-3063 correct handling of absent choice element...
tree
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commitdiff
2019-01-22
gmungoc
JAL-3187 clunky sort by renderorder in findComplementFe...
tree
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commitdiff
2019-01-22
Ben Soares
JAL-3141 Fixed what happens when suffix template has...
tree
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commitdiff
2019-01-21
Ben Soares
JAL-3141 Rejigged the Preferences tab and changed some...
tree
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commitdiff
2019-01-21
gmungoc
JAL-3187 also repaint complement on change in FeatureTy...
tree
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commitdiff
2019-01-21
gmungoc
JAL-3187 draw complement features on alignment / structure
tree
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commitdiff
2019-01-21
gmungoc
JAL-3187 unit tests updated and errors caught
tree
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commitdiff
2019-01-21
gmungoc
JAL-3187 findFeaturesAtResidue answer in render order...
tree
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commitdiff
2019-01-21
gmungoc
JAL-3187 repaint a 'following' complementary view on...
tree
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commitdiff
2019-01-21
gmungoc
JAL-3187 (hacked up) show complement features on struct...
tree
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commitdiff
2019-01-20
Ben Soares
JAL-3141 removing diagnostic output
tree
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commitdiff
2019-01-20
Ben Soares
JAL-3141 Fixed example filenames in Preferences pane...
tree
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commitdiff
2019-01-20
Ben Soares
JAL-3141 Changed suffix position to after the extension...
tree
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commitdiff
2019-01-20
Ben Soares
JAL-3141 Re-added some changes in Jalview2XML missed...
tree
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commitdiff
2019-01-18
gmungoc
JAL-3187 basic first version for tooltips only (renderi...
tree
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commitdiff
2019-01-18
Jim Procter
Merge branch 'feature/JAL-3063jaxbNoCastor' into featur...
tree
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commitdiff
2019-01-18
Jim Procter
Merge branch 'develop' into feature/JAL-3063jaxbNoCastor
tree
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commitdiff
2019-01-18
gmungoc
JAL-3143 'id' not 'ID' attribute drives generation...
tree
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commitdiff
2019-01-17
Jim Procter
JAL-3116 clear out whitespace when materialising Sequen...
tree
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commitdiff
2019-01-16
Ben Soares
JAL-3141 Remove no longer used exampleLabel
tree
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commitdiff
2019-01-16
Jim Procter
Merge branch 'feature/JAL-3063jaxbNoCastor' into develop
tree
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commitdiff
2019-01-16
Jim Procter
Merge branch 'features/pca_jaxb_datasetrefs_JAL-3171_JA...
tree
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commitdiff
2019-01-15
Jim Procter
JAL-1767 refactor associated view logic to public metho...
tree
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commitdiff
2019-01-14
Ben Soares
JAL-3141 Forgot this file, sorry!
tree
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commitdiff
2019-01-14
Ben Soares
JAL-3141 Added a 'Save Project as...' File menu item...
tree
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commitdiff
2019-01-14
Ben Soares
JAL-3141 Made more constants
tree
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commitdiff
2019-01-14
gmungoc
JAL-3186 remove Variable Colour from popup menu
tree
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commitdiff
2019-01-14
gmungoc
JAL-2069 wider dialog so all fields show!
tree
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commitdiff
2019-01-14
gmungoc
JAL-2069 clear any error colour when setting threshold...
tree
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commitdiff
2019-01-14
gmungoc
JAL-3125 tidy up
tree
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commitdiff
2019-01-14
gmungoc
JAL-3125 avoid slider 'rounding' threshold field value
tree
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commitdiff
2019-01-09
Ben Soares
JAL-3141 removed redundant method to tests
tree
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commitdiff
2019-01-09
Jim Procter
Merge branch 'feature/JAL-3063JAXB' into features/pca_j...
tree
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commitdiff
2019-01-09
Jim Procter
Merge branch 'feature/JAL-3063JAXB' into feature/JAL...
tree
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commitdiff
2019-01-09
Jim Procter
JAL-3063 remove stale JAXB binding POJO
tree
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commitdiff
2019-01-09
Ben Soares
JAL-3141 Added i18n for the example filenames in Prefer...
tree
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commitdiff
2019-01-09
Ben Soares
JAL-3141 forgot to add this file after extracting the...
tree
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commitdiff
2019-01-09
Ben Soares
JAL-3141 Made one more suggested change from code review
tree
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commitdiff
2019-01-08
Ben Soares
JAL-3141 Made some more suggested changes from code...
tree
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commitdiff
2019-01-08
Ben Soares
JAL-3141 Made some suggested changes from code review
tree
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commitdiff
2019-01-08
gmungoc
JAL-3180 Disabled 'By Annotation' group colour menu...
feature/JAL-3180colourAnnotationMenu
tree
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commitdiff
2019-01-04
gmungoc
JAL-3180 fix By Annotation selection state in colour...
tree
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commitdiff
2019-01-04
gmungoc
JAL-3181 refactor: extracted buildLinkMenu() for testab...
feature/JAL-3181linkOrdering
tree
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commitdiff
2019-01-04
gmungoc
JAL-3181 simplified code and test
tree
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commitdiff
2019-01-03
gmungoc
JAL-3181 order link menu items
tree
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commitdiff
2018-12-21
gmungoc
JAL-1767 minimise local variable scope
tree
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commitdiff
2018-12-20
Jim Procter
JAL-1767 port save/load PCA panel to JAXB - JAL-3063
tree
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commitdiff
2018-12-20
Jim Procter
JAL-3171 JAL-3063 merge updates from JAL-1767
tree
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commitdiff
2018-12-19
Jim Procter
Merge branch 'features/JAL-1767pcaInProject' into bug...
tree
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commitdiff
2018-12-19
gmungoc
JAL-2621 Overview uses hand cursor in drag box, crossha...
bug/JAL-2621
tree
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commitdiff
2018-12-19
gmungoc
JAL-3178 include non-positional features in their group...
bug/JAL-2791exportFilteredFeature
tree
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commitdiff
2018-12-19
gmungoc
JAL-2791 JAL-2808 correct Javadoc for api method
tree
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commitdiff
2018-12-17
Jim Procter
Merge branch 'bug/JAL-2864nullOverviewCanvas' into...
tree
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commitdiff
2018-12-17
Jim Procter
Merge branch 'bug/JAL-2750' into develop
tree
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commitdiff
2018-12-17
Jim Procter
JAL-2830 reinstate toUppercase for new dataset sequence...
tree
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commitdiff
2018-12-17
Jim Procter
Merge branch 'develop' into bug/JAL-2541cutRelocateFeatures
tree
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commitdiff
2018-12-14
Jim Procter
JAL-3171 record mapping between unmarshalled sequence...
tree
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commitdiff
2018-12-14
Jim Procter
JAL-3171 raise warning when a dataset reference exists...
tree
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commitdiff
2018-12-14
Jim Procter
JAL-3171 resolve dataset for imported projects via...
tree
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commitdiff
2018-12-14
Jim Procter
JAL-3171 register existing dataset for new view
tree
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commitdiff
2018-12-14
Ben Soares
JAL-3130 single class testing on CLI with ant [ -Dclass...
tree
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commitdiff
2018-12-13
Ben Soares
JAL-3130 Fixing a few more tests that pass on a Mac...
tree
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commitdiff
2018-12-13
Ben Soares
JAL-3130 Use non-deprecated check for Mac CMD key press
tree
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commitdiff
2018-12-13
Ben Soares
JAL-3130 Attempting to fix 8 tests that pass on a Mac...
tree
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commitdiff
2018-12-11
Ben Soares
JAL-3130 Turns out Quit/About/Preferences handlers...
tree
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commitdiff
2018-12-10
gmungoc
JAL-1421 added type to List and Vector
feature/JAL-3169cancelOverwrite
tree
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commitdiff
2018-12-10
gmungoc
JAL-3169 leave file browser open on Cancel in overwrite...
tree
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commitdiff
2018-12-06
Ben Soares
JAL-3130 incorporating feature/JAL-3063jaxbNoCastor...
tree
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commitdiff
2018-12-06
gmungoc
JAL-1854 fix Checkstyle import violations
tree
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commitdiff
2018-12-03
gmungoc
JAL-3063 Castor removed from codebase
tree
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commitdiff
2018-12-03
gmungoc
Merge branch 'feature/JAL-3063JAXB' into feature/JAL...
tree
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commitdiff
2018-12-03
Ben Soares
JAL-3130 Added flagged runtime 'Reflection' check on...
tree
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commitdiff
2018-11-30
gmungoc
JAL-2420 don't offer Reveal All over alignment panel
bug/JAL-2420revealAllMenu
tree
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commitdiff
2018-11-30
gmungoc
JAL-3166 catch NPE if all sequences are hidden
bug/JAL-3166npeAllRowsHidden
tree
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commitdiff
2018-11-29
gmungoc
JAL-3140 NCList now via IntervalStore library
tree
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commitdiff
2018-11-28
gmungoc
JAL-3164 redraw complement overview on hide columns
bug/JAL-3164complementOverview
tree
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commitdiff
2018-11-28
gmungoc
JAL-3158 additional calls to reset 'selection changed...
bug/JAL-3158selectionBroadcasts
tree
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commitdiff
2018-11-22
gmungoc
JAL-3161 limit tooltip and status updates to visible...
bug/JAL-3161annotationTooltipRange
tree
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commitdiff
2018-11-20
Jim Procter
JAL-3127 Sequence ID Colour and nominal spanish translation
tree
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commitdiff
2018-11-19
Jim Procter
JAL-3127 javadoc, don’t darken white when shading resid...
tree
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commitdiff
2018-11-19
Jim Procter
JAL-3156 JAL-3127 code tidy
tree
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commitdiff
2018-11-19
Jim Procter
JAL-3156 javadoc re JAL-3127 and FIXME to make Alignmen...
tree
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commitdiff
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