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JAL-2629 (probably not right issue) JAL-1950 - make a new alignment sequence version...
[jalview.git]
/
src
/
jalview
/
viewmodel
/
AlignmentViewport.java
2018-03-30
gmungoc
JAL-2939 field/method naming more consistent
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2018-03-30
gmungoc
JAL-2939 remove commented out code
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2018-03-26
gmungoc
JAL-2939 pull up set/IsNormalise[HMM]SequenceLogo
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2018-03-26
gmungoc
JAL-2939 no need to recalc HMM annotation for show...
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2018-03-21
gmungoc
JAL-2629 tweaks to Information annotation updating
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2018-03-16
gmungoc
Merge branch 'develop' into trialMerge
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2018-03-07
gmungoc
JAL-2629 storage and lifecycle of alignment/group HMM...
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2018-03-01
gmungoc
JAL-2629 revising hmmer annotation updating (wip)
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2018-02-28
gmungoc
JAL-2629 some tidying of Hmmer commands (wip)
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2018-02-27
Jim Procter
Merge branch 'feature/JAL-2759' into merge/JAL-2759_2104
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2018-02-22
gmungoc
JAL-2629 tidy unit tests, constants etc
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2018-02-20
gmungoc
JAL-2629 removed SequenceI.get/setLastPosition and...
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2018-02-20
gmungoc
Merge branch 'develop' into features/mchmmer
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2018-02-09
gmungoc
JAL-2666 fix failure to scroll split alignment of height 1
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2018-01-19
kiramt
JAL-2759 Changes to getVisibleSequenceStrings after...
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2018-01-16
kiramt
JAL-2759 Moved alignment annotation code out of HiddenC...
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2018-01-15
kiramt
JAL-2759 Rename findColumnPosition and adjustForHiddenC...
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2017-10-27
gmungoc
JAL-1793 spike branch updated to latest
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2017-10-26
Jim Procter
JAL-2488 patch causes of NPE during testStoreAndRecover...
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2017-10-25
Jim Procter
Merge branch 'bug/JAL-2727closeAllFreeMemory' into...
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2017-10-24
gmungoc
JAL-2738 update spike branch with latest
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2017-10-11
kiramt
JAL-2742 removed unused getViewAsCigars
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2017-10-03
gmungoc
JAL-2738 copy to spikes/mungo
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2017-09-14
gmungoc
JAL-2727 null more fields in AlignmentViewport.dispose...
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2017-09-13
gmungoc
JAL-2727 null additional references on close
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2017-09-12
gmungoc
Revert "JAL-2727 null hconsensus, "
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2017-09-12
gmungoc
JAL-2727 null hconsensus,
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2017-09-12
gmungoc
JAL-2727 ensure ViewportRanges (and gapcounts) are...
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2017-09-01
TZVanaalten
JAL-2629 manual curation of HMMs via reference annotati...
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2017-08-28
tzvanaalten
JAL-2629 add option to set HMM Logo letter height to...
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2017-08-25
TZVanaalten
JAL-2629 add adjustable parameters to hmmbuild
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2017-08-25
TZVanaalten
JAL-2629 fix for NPE caused by incorrect initiation...
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2017-08-25
TZVanaalten
JAL-2629 add basic parameter adjustment to hmmsearch...
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2017-08-18
TZVanaalten
Merge branch 'develop' into features/hmmer
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2017-08-17
TZVanaalten
JAL-2629 add documentation to previous work
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2017-08-16
Jim Procter
JAL-2418 source formatting
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2017-08-15
TZVanaalten
JAL-2629 selected HMM name now shown in HMMER menu
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2017-08-11
TZVanaalten
JAL-2629 add ability to select HMMs
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2017-08-10
TZVanaalten
JAL-2629 hmmalign now correctly creates a new frame
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2017-08-08
gmungoc
JAL-2560 alternative fix (reinstate lost line of code)
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2017-08-08
gmungoc
JAL-2649 JAL-2650 wait for Conservation calc to complet...
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2017-08-07
TZVanaalten
JAL-2629 current hmmer commands are now executed in...
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2017-08-04
TZVanaalten
JAL-2629 multiple HMMs can now be dropped onto an alignment
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2017-08-02
TZVanaalten
JAL-2599 fix for information annotation buttons
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2017-07-24
gmungoc
spike branch updated from latest features/JAL-2446
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2017-07-14
TZVanaalten
add partial button fix to annotation and statistics...
features/hmmer_statistics
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2017-07-12
TZVanaalten
test HMM annotaTION
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2017-07-06
gmungoc
JAL-147 unit test for hide/show sequences update Viewpo...
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2017-07-04
gmungoc
JAL-147 revised update of startSeq, endSeq on unhide...
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2017-07-04
gmungoc
JAL-147 corrected update of ViewportRanges for show...
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2017-07-04
gmungoc
JAL-147 update ViewportRanges height after show/hide...
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2017-07-03
gmungoc
Merge branch 'develop' into bug/JAL-147scrollWrappedView
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2017-06-30
gmungoc
JAL-2602 pulled up identical methods to base class
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2017-06-29
gmungoc
JAL-147 improved wrapped scrolling (including Overview...
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2017-06-29
TZVanaalten
transferred the storage position of the HMM to annotations
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2017-06-09
gmungoc
JAL-2446 merged to spike branch
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2017-06-06
kiramt
JAL-2591 Removed getHiddenRegions()==null checks which...
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2017-05-24
kiramt
JAL-2034 Added isDefined flag to SequenceGroup
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2017-05-15
Jim Procter
JAL-2371 create a default ResidueShader when constructi...
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2017-05-12
Jim Procter
Merge branch 'features/JAL-2435splitScreenFont' into...
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2017-05-05
gmungoc
Merge branch 'develop' into features/JAL-2435splitScree...
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2017-05-05
kiramt
Merge remote-tracking branch
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2017-05-05
kiramt
Merge remote-tracking branch 'origin/develop' into
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2017-05-03
Jim Procter
JAL-1933 JAL-2501 i18n for all auto calculated descriptions
features/JAL-2432_annotbypercent
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2017-04-27
Jim Procter
JAL-1933 consensus calculation doesn’t depend on occupa...
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2017-04-27
Jim Procter
JAL-1933 only create and add occupancy row to alignment...
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2017-04-27
Jim Procter
JAL-1933 occupancy row has a space below it for counts
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2017-04-24
kiramt
Merge remote-tracking branch
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2017-04-24
kiramt
JAL-2388 Finished split of hidden columns and selected...
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2017-04-24
kiramt
JAL-2388 Hidden cols separated from column selection...
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2017-04-19
kiramt
Merge remote-tracking branch 'origin/develop' into
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2017-04-03
gmungoc
Merge branch 'develop' into features/JAL-2435splitScree...
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2017-03-31
gmungoc
Merge branch 'develop' into bug/JAL-2431splitFrameNewView
bug/JAL-2431splitFrameNewView
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2017-03-31
gmungoc
JAL-2435 slightly more sensible behaviour changing...
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2017-03-22
kiramt
Merge remote-tracking branch 'origin/develop' into
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2017-03-21
kiramt
JAL-2388 Made ViewportRanges final
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2017-03-21
Jim Procter
Merge branch 'features/JAL-2388OverviewWindow' into...
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2017-03-16
kiramt
JAL-2388 Applied ViewportRanges to code
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2017-03-16
kiramt
JAL-2388 Renamed viewport position props to viewport...
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2017-03-15
gmungoc
JAL-2431 show cDNA consensus after New View in split...
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2017-03-15
kiramt
JAL-2388 Unit tests and tidies
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2017-03-01
kiramt
JAL-2388 Reverted to previous
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2017-03-01
gmungoc
Merge branch 'features/JAL-2295setChimeraAttributes...
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2017-03-01
kiramt
JAL-2388 Preliminary refactor check-in, does not compile
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2017-02-28
kiramt
JAL-2388 First move of endRes etc out of AlignmentViewp...
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2017-02-27
kiramt
JAL-2388 Make startRes,startSeq,endRes,endSeq private...
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2017-02-21
kiramt
Merge branch 'develop' into features/JAL-2388OverviewWindow
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2017-02-10
gmungoc
JAL-2371 small move of code, typo correction
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2017-02-09
kiramt
Merge remote-tracking branch 'origin/develop' into...
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2017-02-09
kiramt
JAL-2388 Initial refactor of OverviewPanel
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2017-02-09
gmungoc
JAL-2405 set initial selection group alignment context
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2017-02-08
gmungoc
JAL-2405 set context on selection group for tailored...
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2017-01-31
gmungoc
JAL-2371 commented code removed only
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2017-01-31
gmungoc
JAL-2371 rename global/viewportColourScheme to residueS...
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2017-01-31
gmungoc
JAL-2385 more tests/bug fixes mostly for gui.SliderPane...
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2017-01-27
gmungoc
JAL-2371 CollectionColourScheme renamed ResidueShader...
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2017-01-27
gmungoc
JAL-2360 JAL-2371 updates from review CR-JAL-1
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2017-01-23
gmungoc
JAL-2386 unit tests for change colour (and minor refact...
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2017-01-23
gmungoc
JAL-2386 simplify changeColour (doesn't change colour...
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2017-01-04
gmungoc
JAL-2371 CollectionColourScheme wraps ColourSchemeI
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