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JAL-4167 Adjustments to get clover to work with normal tests
[jalview.git]
/
src
/
2022-07-21
Ben Soares
JAL-4036 New configuration, target and pagination proce...
tree
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commitdiff
2022-07-20
Jim Procter
JAL-4045 - don't apply distribution dependent scale...
tree
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commitdiff
2022-07-15
Ben Soares
JAL-4034 Use the new non-modal JDialog for 3DBeacons...
tree
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commitdiff
2022-07-15
Ben Soares
JAL-4034 Allow request for non-modal JDialog, which...
tree
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commitdiff
2022-07-12
Ben Soares
JAL-4034 change to jalview property name
tree
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commitdiff
2022-07-12
Ben Soares
JAL-4034 showConfirmDialog works for both desktop and...
tree
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commitdiff
2022-07-11
Ben Soares
JAL-4034 Non-blocking 3D Beacons query after warning...
tree
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commitdiff
2022-07-11
Ben Soares
JAL-4034 allow a jalview_property to set the threshold...
tree
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commitdiff
2022-07-04
Jim Procter
JAL-4034 fix #3 change uniprot ref fetch dialog to...
tree
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commitdiff
2022-07-04
Jim Procter
JAL-4034 Fix #2 show an icon and a button to press...
tree
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commitdiff
2022-06-30
Jim Procter
JAL-4036 use the legacy endpoint (and report the FTS...
tree
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commitdiff
2022-06-28
Ben Soares
Merge branch 'improvement/JAL-1988+JAL-3416_Java8_macOS...
tree
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commitdiff
2022-06-28
Ben Soares
JAL-1988 Don't put Quit in the File menu if there's...
tree
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commitdiff
2022-06-24
Jim Procter
JAL-2349 JAL-3855 formatting
tree
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commitdiff
2022-06-24
Jim Procter
JAL-4033 TODO re highlighting current column selection
tree
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commitdiff
2022-06-24
Jim Procter
JAL-2349 debugged and simplified (a little) the scaled...
tree
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commitdiff
2022-06-24
Jim Procter
JAL-3855 update EBI Alphafold barcoded URL generation...
tree
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commitdiff
2022-06-24
Jim Procter
JAL-2349 JAL-3855 resolve sequence position for contact...
tree
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commitdiff
2022-06-23
Ben Soares
Merge branch 'improvement/JAL-1988+JAL-3416_Java8_macOS...
tree
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commitdiff
2022-06-23
Ben Soares
JAL-1988 Check for setHandler capability to avoid About...
tree
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commitdiff
2022-06-17
Ben Soares
JAL-3027 Avoid FlatLAF Desktop class is JalviewJS
tree
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commitdiff
2022-06-15
Jim Procter
JAL-1988 JAL-3416 avoid unnecessary static flag
tree
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commitdiff
2022-06-15
Jim Procter
JAL-3418 JAL-1988 don’t need java version check anymore
tree
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commitdiff
2022-06-13
Ben Soares
JAL-1988 Hack to ensure Quit dialog box is moved to...
tree
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commitdiff
2022-06-13
Ben Soares
JAL-1988 Moved APQHandlers to jalview.jbgui and called...
tree
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commitdiff
2022-06-13
Jim Procter
Merge branch 'improvement/JAL-1988+JAL-3416_Java8_macOS...
tree
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commitdiff
2022-06-13
Ben Soares
JAL-3416 remove flat as default for linux
tree
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commitdiff
2022-06-13
Ben Soares
JAL-1988 JAL-3416 Using the flatlaf-extras About, Prefe...
tree
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commitdiff
2022-06-13
Ben Soares
JAL-3416 Added some mac specific FlatLAF settings....
tree
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commitdiff
2022-06-10
Jim Procter
JAL-2349 JAL-4027 JAL-3855 quick hack to add contact...
tree
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commitdiff
2022-06-10
Jim Procter
JAL-4027 getter for contact matrices on the Alignment.
tree
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commitdiff
2022-06-10
Jim Procter
JAL-1551 formatting
tree
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commitdiff
2022-06-10
Jim Procter
Merge branch 'features/r2_11_2_alphafold/JAL-2349_JAL...
tree
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commitdiff
2022-06-09
Jim Procter
Merge branch 'bug/JAL-4020_add_pymolwin_paths' into...
tree
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commitdiff
2022-06-09
Jim Procter
JAL-4026 ignore StructureSelectionManager events if...
tree
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commitdiff
2022-06-09
Jim Procter
JAL-4026 update the viewport’s wrapped width after...
tree
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commitdiff
2022-06-08
Jim Procter
Merge branch 'improvement/JAL-4023_snotation_for_trees...
tree
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commitdiff
2022-06-08
Jim Procter
Merge branch 'patch/JAL-4024_jumpScrollHang' into develop
tree
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commitdiff
2022-06-08
Jim Procter
JAL-4024 only render partially when new view overlaps...
patch/JAL-4024_jumpScrollHang
tree
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commitdiff
2022-06-07
Ben Soares
JAL-4020 class formatting
tree
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commitdiff
2022-06-07
Ben Soares
JAL-4020 added the \Scripts\pymol.exe. to the pathList
tree
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commitdiff
2022-06-06
Ben Soares
JAL-4020 Added the +2 arg for PyMOLWin.exe allowing...
tree
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commitdiff
2022-06-06
Ben Soares
JAL-4020 class reformatting
tree
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commitdiff
2022-06-06
Ben Soares
JAL-4020 Added path search for global installation...
tree
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commitdiff
2022-06-06
Jim Procter
JAL-4023 use %g for distances (scientific notation...
improvement/JAL-4023_snotation_for_trees
tree
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commitdiff
2022-06-06
Ben Soares
JAL-4020 Added search for PyMOLWinWithConsole.bat ...
tree
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commitdiff
2022-06-06
Jim Procter
JAL-4023 store distances as doubles
tree
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commitdiff
2022-05-12
Ben Soares
JAL-4014 4 gecos colour schemes added
tree
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commitdiff
2022-04-21
Ben Soares
Merge branch 'develop' into merge/JAL-3978+JAL-3553...
tree
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commitdiff
2022-04-21
Ben Soares
Merge branch 'develop' into task/JAL-3991_check_actual_...
tree
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commitdiff
2022-04-19
Jim Procter
Merge branch 'bug/JAL-3997_NPE_in_wrapped_mode' into...
tree
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commitdiff
2022-04-18
Jim Procter
JAL-3997 check for tooltip being null before checking...
bug/JAL-3997_NPE_in_wrapped_mode
tree
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commitdiff
2022-04-16
Jim Procter
JAL-3365 expand range of allowed DSSP secondary structu...
tree
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commitdiff
2022-04-06
Ben Soares
JAL-3991 Made info displayed only when needed (Java...
tree
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commitdiff
2022-04-06
Ben Soares
JAL-3991 Added information output about the slightly...
tree
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commitdiff
2022-04-06
Ben Soares
JAL-3991 JAVA_COMPILE_VERSION put into build_properties...
tree
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commitdiff
2022-04-05
Jim Procter
JAL-3981 patch tests and remove errant imports
tree
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commitdiff
2022-04-05
Jim Procter
JAL-3990 gradle spotlessApply
tree
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commitdiff
2022-04-05
Jim Procter
Merge branch 'bug/JAL-3980_JAL-3981_tooltips_sequence_d...
tree
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commitdiff
2022-03-31
Ben Soares
Merge branch 'develop' into improvement/JAL-3978_add_gr...
tree
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commitdiff
2022-03-31
Jim Procter
JAL-3985 formatting
tree
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commitdiff
2022-03-31
Jim Procter
JAL-3985 split PDB id queries into multiple queries...
tree
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commitdiff
2022-03-30
Jim Procter
Merge branch 'patch/JAL-3976_3dbeaconsnull' into develop
tree
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commitdiff
2022-03-30
Jim Procter
JAL-360 JAL-3975 update parent for text colour dialog...
tree
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commitdiff
2022-03-30
Ben Soares
JAL-360 JAL-3975 make AlignFrame the parent of FeatureE...
tree
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commitdiff
2022-03-25
Jim Procter
JAL-3980 JAL-3979 TODOs
bug/JAL-3980_JAL-3981_tooltips_sequence_details
tree
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commitdiff
2022-03-25
Jim Procter
JAL-3980 defensive copy - inefficient but fixes bug
tree
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commitdiff
2022-03-25
Jim Procter
JAL-3981 Additional line breaks - sort of helps
tree
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commitdiff
2022-03-24
Jim Procter
JAL-3981 strategic newlines to help speed up Java's...
tree
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commitdiff
2022-03-23
Jim Procter
JAL-3976 skip entries with null values when analyzing
tree
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commitdiff
2022-03-18
Ben Soares
JAL-3978 Using getdowninstanceappdir and getdowninstanc...
tree
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commitdiff
2022-03-18
Ben Soares
JAL-3978 New tasks to build archive 'old' dir with...
tree
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commitdiff
2022-03-08
Jim Procter
JAL-3746 apply copyright to source
tree
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commitdiff
2022-03-08
Jim Procter
JAL-3438 spotless for 2.11.2.0
tree
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commitdiff
2022-03-08
Jim Procter
JAL-3108 updated Ensembl client and model species names
tree
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commitdiff
2022-03-08
Ben Soares
JAL-3103 Removed code and unused widgets for defaultBrowser
tree
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commitdiff
2022-03-08
Ben Soares
JAL-3103 Remove BrowserLauncher2 and use Desktop.browse...
tree
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commitdiff
2022-03-08
Ben Soares
JAL-3103 Put jalview.jar first in getdown for .properti...
tree
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commitdiff
2022-03-07
Ben Soares
JAL-3103 Switched to (a wrapper around) BrowserLauncher2
tree
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commitdiff
2022-03-04
Jim Procter
JAL-3746 JAL-3811 document SHOW_JWS2_SERVICES user...
tree
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commitdiff
2022-03-04
Jim Procter
JAL-3746 JAL-3812 new argument ‘-nohtmltemplates’ and...
tree
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commitdiff
2022-03-04
Jim Procter
JAL-3746 JAL-3813 NOIDENTIFIERSSERVICE preference disab...
tree
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commitdiff
2022-03-04
Jim Procter
JAL-3746 JAL-3814 don’t automatically launch the news...
tree
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commitdiff
2022-03-04
Jim Procter
JAL-3746 JAL-3814 NONEWS property
tree
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commitdiff
2022-03-02
Jim Procter
Merge branch 'benreview/JAL-3691_for_2_11_2_getdownrebu...
tree
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commitdiff
2022-03-02
Jim Procter
JAL-3619 fix up error messages and try to bail quietly...
tree
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commitdiff
2022-03-02
Jim Procter
JAL-3619 fix up warning message and minimal patch to...
tree
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commitdiff
2022-02-17
Jim Procter
JAL-3959 add key retrieval urls that support CORS neede...
tree
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commitdiff
2022-02-17
Jim Procter
JAL-3691 patch toUpper/toLower to use Locale.ROOT for...
tree
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commitdiff
2022-02-16
Jim Procter
JAL-3551 - wrap pair_fit with undo_disable and undo_enable
tree
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commitdiff
2022-02-16
Jim Procter
JAL-3837 GPL license on splashscreen (finally !) and...
tree
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commitdiff
2022-02-16
Jim Procter
JAL-3949 report Pymol XMLRPC port via log.info
tree
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commitdiff
2022-02-16
Jim Procter
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
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commitdiff
2022-02-15
Jim Procter
JAL-1761 backbone type parameter for configuring which...
tree
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commitdiff
2022-02-15
Jim Procter
JAL-1761 need to pass molecule type when generating...
tree
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commitdiff
2022-02-15
Jim Procter
JAL-3906 use indicate to highlight current mousedOver...
tree
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commitdiff
2022-02-14
Jim Procter
Merge branch 'task/r_2_11_2/JAL-3956_alphaFill_authorit...
tree
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commitdiff
2022-02-14
Jim Procter
JAL-3551
tree
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commitdiff
2022-02-14
Jim Procter
JAL-3956 - PDBEntry objects constructed from 3D-Beacons...
tree
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commitdiff
2022-02-11
Jim Procter
Merge branch 'update/JAL-3949_jalview_bin_Console_to_cu...
tree
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commitdiff
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