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Merge branch 'develop' into features/JAL-2435splitScreenFont
[jalview.git]
/
src
/
2016-12-16
gmungoc
JAL-2356 enhanced unit test to verify reuse (or not...
tree
|
commitdiff
2016-12-16
gmungoc
JAL-2346 ensure view updates when annotation options...
tree
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commitdiff
2016-12-16
Jim Procter
JAL-2360 report line number when threshold cannot be...
tree
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commitdiff
2016-12-16
gmungoc
Merge branch 'develop' into bug/JAL-2346annotationChoice
tree
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commitdiff
2016-12-16
gmungoc
JAL-2360 added UserColourScheme.toAppletParameter+test...
tree
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commitdiff
2016-12-16
gmungoc
JAL-2360 getColour() renamed to getColourScheme(),...
tree
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commitdiff
2016-12-16
gmungoc
JAL-1705 JAL-98 use SortedMap as more accurate type...
tree
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commitdiff
2016-12-16
gmungoc
JAL-2360 refactoring for JalviewColourScheme enum,
tree
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commitdiff
2016-12-15
kiramt
JAL-2316 Changes following review.
tree
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commitdiff
2016-12-14
gmungoc
JAL-2360 added check for null annotations array
tree
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commitdiff
2016-12-14
Jim Procter
Merge branch 'patch/JAL-2197_jpredforjnets' into develop
tree
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commitdiff
2016-12-13
kiramt
Merge branch 'develop' into features/JAL-2316
tree
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commitdiff
2016-12-13
gmungoc
JAL-2365 test for lightgray, darkgray not lightGray...
tree
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commitdiff
2016-12-13
gmungoc
JAL-2360 code formatting only and if-else changed to...
tree
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commitdiff
2016-12-13
gmungoc
JAL-2361 adding items to applet colour menus, TCoffee...
tree
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commitdiff
2016-12-12
gmungoc
JAL-2361 extract methods to (re-)build colour menu
tree
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commitdiff
2016-12-12
gmungoc
JAL-2360 simplify nucleotide flag, remove setter
tree
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commitdiff
2016-12-12
gmungoc
JAL-1544 backgroud -> background
tree
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commitdiff
2016-12-12
kiramt
JAL-2316 Added GUI checks for duplicate link ids
tree
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commitdiff
2016-12-12
kiramt
JAL-2316 Unit test update to UrlLinkTableModel and...
tree
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commitdiff
2016-12-12
kiramt
JAL-2316 Added jalview.urls.* packages
tree
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commitdiff
2016-12-12
kiramt
JAL-2316 Missed change from previous checkin
tree
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commitdiff
2016-12-12
kiramt
JAL-2316 More unit testing and adjustments
tree
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commitdiff
2016-12-12
gmungoc
JAL-2362 return correct lower-case colour; Javadoc...
tree
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commitdiff
2016-12-12
gmungoc
JAL-2632 corrected lookup of residue colour
tree
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commitdiff
2016-12-12
kiramt
JAL-2316 Unit tests
tree
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commitdiff
2016-12-09
kiramt
JAL-2316 Unit test updates and associated minor changes...
tree
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commitdiff
2016-12-09
gmungoc
JAL-2105 updated for reviewed REST version 4.8
tree
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commitdiff
2016-12-09
kiramt
JAL-2316 Unit testing, relax constraint that default...
tree
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commitdiff
2016-12-09
gmungoc
JAL-1895 suppress RNA interaction colour option
tree
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commitdiff
2016-12-08
gmungoc
Merge branch 'develop' into features/JAL-2295setChimera...
tree
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commitdiff
2016-12-08
gmungoc
JAL-2359 add Window menu entry only after all danger...
tree
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commitdiff
2016-12-07
gmungoc
JAL-2356 use cached Sifts file if not expired
tree
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commitdiff
2016-12-07
gmungoc
JAL-2354 handle error response when fetching features
tree
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commitdiff
2016-12-07
gmungoc
JAL-2344 handle null format, simplify JalviewFileChoose...
tree
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commitdiff
2016-12-07
kiramt
JAL-2316 Restructure identifiers.org download
tree
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commitdiff
2016-12-05
gmungoc
JAL-2346 JAL-1553 pull-up / push-down of fields and...
tree
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commitdiff
2016-12-05
kiramt
JAL-2316 Added UrlProvider factories. Tidied up labelling.
tree
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commitdiff
2016-12-05
gmungoc
JAL-1753 JAL-1596 JAL-1933 ensure AWT updates are on...
tree
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commitdiff
2016-12-05
kiramt
JAL-2316 Adjusted unit tests. Tidied UrlLinkProviderI...
tree
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commitdiff
2016-12-05
gmungoc
Merge branch 'features/JAL-1933_occupancy' into feature...
tree
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commitdiff
2016-12-04
Jim Procter
JAL-1933 show occupancy count as a tooltip
tree
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commitdiff
2016-12-04
Jim Procter
JAL-1933 switch from gap count to occupancy
tree
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commitdiff
2016-12-02
gmungoc
Merge branch 'features/JAL-1933_occupancy' into feature...
tree
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commitdiff
2016-12-02
gmungoc
Merge branch 'develop' into features/JAL-2295setChimera...
tree
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commitdiff
2016-12-02
gmungoc
JAL-1933 gap value as description; minor formatting
tree
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commitdiff
2016-12-02
kiramt
JAL-2316 GUI to allow to insert tokens into new URL...
tree
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commitdiff
2016-12-02
gmungoc
JAL-2346 Javadoc correction
tree
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commitdiff
2016-12-02
gmungoc
Unit tests added, minor refactoring
tree
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commitdiff
2016-12-02
gmungoc
JAL-2346 fixed bug (in code not reached by Jalview)
tree
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commitdiff
2016-12-02
kiramt
JAL-2316 GUI updates to Connections tab in Preferences...
tree
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commitdiff
2016-12-02
gmungoc
JAL-2346 unit test for annotation drop-down list builder
tree
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commitdiff
2016-12-01
gmungoc
JAL-2346 unused method removed
tree
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commitdiff
2016-12-01
gmungoc
JAL-2346 save annotation id instead of label with annot...
tree
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commitdiff
2016-12-01
gmungoc
JAL-2346 restore choice of annotation for colouring...
tree
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commitdiff
2016-12-01
Jim Procter
JAL-1933 update the bounds for the Gap annotation row...
tree
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commitdiff
2016-12-01
Jim Procter
JAL-1933 basic hack to get gap counts shown as an annot...
tree
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commitdiff
2016-11-30
Jim Procter
Merge branch 'features/JAL-2320_closeChimeraAction...
tree
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commitdiff
2016-11-30
gmungoc
Merge branch 'develop' into features/JAL-2295setChimera...
tree
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commitdiff
2016-11-30
gmungoc
JAL-2344 use ".cif" for saved mmCIF file (and refactor...
tree
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commitdiff
2016-11-29
gmungoc
Merge branch 'develop' into features/JAL-2295setChimera...
tree
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commitdiff
2016-11-29
gmungoc
JAL-2344 corrected conversion of Type enum to FileFormat
features/JAL-2344FileFormatI
tree
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commitdiff
2016-11-29
gmungoc
JAL-2344 FileFormat.isStructureFile replaces
tree
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commitdiff
2016-11-28
gmungoc
Merge branch 'develop' into trialMerge
tree
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commitdiff
2016-11-28
tcofoegbu
Merge branch 'features/JAL-2326_JOptionPane-refactoring...
tree
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commitdiff
2016-11-28
gmungoc
JAL-2344 added FileFormatI.isStructureFile()
tree
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commitdiff
2016-11-28
gmungoc
JAL-2345 cache generated ImageIcon per file path
tree
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commitdiff
2016-11-25
gmungoc
JAL-2344 dynamically determine recognised extensions...
tree
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commitdiff
2016-11-25
gmungoc
Merge branch 'develop' into trialMerge
tree
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commitdiff
2016-11-25
gmungoc
JAL-2344 override to ignore (obsolete?) JalviewFileView
tree
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commitdiff
2016-11-25
gmungoc
JAL-2344 use .equals() to compare FileFormatI objects
tree
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commitdiff
2016-11-24
gmungoc
Distinguish text-only output formats and others (.jar...
tree
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commitdiff
2016-11-24
tcofoegbu
JAL-2326 updated references of JOptionPane to JvOptionPane
tree
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commitdiff
2016-11-24
Jim Procter
JAL-2325 applied BSD license for chimera/StrucViz2...
tree
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commitdiff
2016-11-24
gmungoc
Further tweaks to get tests passing
tree
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commitdiff
2016-11-24
tcofoegbu
JAL-2326 added layer of abstraction between Jalview...
tree
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commitdiff
2016-11-24
Jim Procter
JAL-2325 apply license to new source files
tree
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commitdiff
2016-11-24
gmungoc
FileFormatI further tweaks, clean compile
tree
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commitdiff
2016-11-23
Jim Procter
Merge branch 'bug/JAL-2323disulfideOverview' into develop
tree
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commitdiff
2016-11-23
Jim Procter
Merge branch 'documentation/JAL-2325_release2101' into...
tree
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commitdiff
2016-11-23
Jim Procter
Merge branch 'develop' of source.jalview.org/git/jalvie...
tree
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commitdiff
2016-11-23
gmungoc
Merge branch 'develop' into features/JAL-2295setChimera...
tree
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commitdiff
2016-11-22
Jim Procter
JAL-2197 changed tooltip for Jnet annotation rows to...
tree
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commitdiff
2016-11-22
tcofoegbu
Merge branch 'bug/JAL-2277_refactorPrintUnwrapped'...
tree
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commitdiff
2016-11-22
Jim Procter
Merge branch 'features/JAL-2177_update_jmol_to_14.6...
tree
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commitdiff
2016-11-22
gmungoc
JAL-2337 fix: only adjust once for scroll offset
bug/JAL-2277_refactorPrintUnwrapped
tree
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commitdiff
2016-11-22
gmungoc
JAL-1919 JAL-2177 handle empty pdbentries list correctly
features/JAL-2177_update_jmol_to_14.6.4_2016.10.26
tree
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commitdiff
2016-11-22
Jim Procter
Merge branch 'develop' of source.jalview.org/git/jalvie...
tree
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commitdiff
2016-11-22
tcofoegbu
JAL-2322 added runnable interface to HTMLOutput class...
tree
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commitdiff
2016-11-22
Jim Procter
Merge branch 'features/JAL-1738_JAL-345_selectionfromhi...
tree
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commitdiff
2016-11-22
Jim Procter
JAL-1738 JAL-345 changed keystroke to ‘B’ (with modifie...
tree
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commitdiff
2016-11-22
gmungoc
JAL-2277 refactored AlignmentPanel.printUnwrapped to...
tree
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commitdiff
2016-11-21
tcofoegbu
JAL-2277 bug fix for mis-alligned graphics output for...
tree
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commitdiff
2016-11-21
Jim Procter
JAL-2335 patched FeatureRendererModel.findFeaturesAtRes...
bug/JAL-2323disulfideOverview
tree
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commitdiff
2016-11-21
tcofoegbu
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2016-11-21
tcofoegbu
JAL-2332 bugfix to enable structure chooser opening...
tree
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commitdiff
2016-11-21
gmungoc
JAL-2333 corrected select columns with 'contact' feature
tree
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commitdiff
2016-11-21
gmungoc
Merge branch 'develop' into bug/JAL-2323disulfideOverview
tree
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commitdiff
2016-11-18
gmungoc
JAL-98 with the two types missing from last commit...
bug/JAL-98consensusMemory
tree
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commitdiff
2016-11-18
kiramt
JAL-2316 First pass identifiers.org downloading working
tree
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commitdiff
next