| 2016-12-23 |
gmungoc | JAL-2360 removed UserDefinedColours.userColourSchemes
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| 2016-12-23 |
gmungoc | JAL-2120 JAL-2360 remove obsolete PDBViewer
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| 2016-12-22 |
gmungoc | JAL-2360 fix bug that prematurely created a SequenceGroup
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| 2016-12-22 |
gmungoc | JAL-2360 structure viewers now using ColourMenuHelper...
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| 2016-12-21 |
gmungoc | JAL-2360 set new/loaded colour scheme name correctly
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commit | commitdiff | tree |
| 2016-12-21 |
gmungoc | JAL-2360 simplified code to create a new colour scheme
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commit | commitdiff | tree |
| 2016-12-21 |
gmungoc | JAL-2360 added a table to show score colours
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| 2016-12-21 |
gmungoc | JAL-2360 ColourMenuHelper now builds and selects items...
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| 2016-12-21 |
gmungoc | JAL-2360 comment only
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| 2016-12-21 |
gmungoc | JAL-2360 tidy up, simplify isApplicableTo test
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| 2016-12-21 |
gmungoc | JAL-2360 no RNAHelices colouring for groups
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| 2016-12-21 |
gmungoc | JAL-2361 Blosum is enabled for peptide
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commit | commitdiff | tree |
| 2016-12-21 |
gmungoc | JAL-1421 add types to Map
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| 2016-12-21 |
gmungoc | JAL-2360 fix incorrect action on Cancel user defined...
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| 2016-12-21 |
gmungoc | JAL-2360 tidy spelling and file contents order only
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| 2016-12-21 |
gmungoc | JAL-2360 Javadoc and test cases for findAnnotation
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| 2016-12-20 |
gmungoc | JAL-2360 testRegisterColourScheme to demonstrate a...
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| 2016-12-20 |
gmungoc | JAL-2360 ColourSchemes holds configured schemes, AlignFrame...
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| 2016-12-19 |
gmungoc | JAL-2360 amended toAppletParameter() for reproducible...
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| 2016-12-19 |
gmungoc | JAL-2361 select colour menu item by matching its name...
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| 2016-12-16 |
gmungoc | JAL-2360 added UserColourScheme.toAppletParameter+test...
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| 2016-12-16 |
gmungoc | JAL-2360 getColour() renamed to getColourScheme(),...
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| 2016-12-16 |
gmungoc | JAL-1705 JAL-98 use SortedMap as more accurate type...
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commit | commitdiff | tree |
| 2016-12-16 |
gmungoc | JAL-2360 refactoring for JalviewColourScheme enum,
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| 2016-12-16 |
gmungoc | JAL-1354 use i18n text for expected value
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commit | commitdiff | tree |
| 2016-12-14 |
gmungoc | JAL-2360 test added
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| 2016-12-14 |
gmungoc | JAL-2360 added check for null annotations array
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| 2016-12-14 |
gmungoc | JAL-1544 JAL-2360 reformatted help page a bit nicer...
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| 2016-12-13 |
gmungoc | JAL-2365 test for lightgray, darkgray not lightGray...
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| 2016-12-13 |
gmungoc | JAL-2360 code formatting only and if-else changed to...
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| 2016-12-13 |
gmungoc | JAL-2361 adding items to applet colour menus, TCoffee...
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| 2016-12-12 |
gmungoc | JAL-2361 extract methods to (re-)build colour menu
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| 2016-12-12 |
gmungoc | JAL-2360 simplify nucleotide flag, remove setter
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commit | commitdiff | tree |
| 2016-12-12 |
gmungoc | JAL-2361 use consistent colour names on menus
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commit | commitdiff | tree |
| 2016-12-12 |
gmungoc | JAL-1544 backgroud -> background
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| 2016-12-12 |
gmungoc | JAL-2362 return correct lower-case colour; Javadoc...
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commit | commitdiff | tree |
| 2016-12-12 |
gmungoc | JAL-2632 corrected lookup of residue colour
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commit | commitdiff | tree |
| 2016-12-09 |
gmungoc | JAL-2105 updated for reviewed REST version 4.8
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commit | commitdiff | tree |
| 2016-12-09 |
gmungoc | JAL-1895 suppress RNA interaction colour option
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commit | commitdiff | tree |
| 2016-12-08 |
gmungoc | JAL-2359 add Window menu entry only after all danger...
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commit | commitdiff | tree |
| 2016-12-07 |
gmungoc | JAL-2356 use cached Sifts file if not expired
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commit | commitdiff | tree |
| 2016-12-07 |
gmungoc | JAL-2354 handle error response when fetching features
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commit | commitdiff | tree |
| 2016-12-07 |
gmungoc | JAL-2344 handle null format, simplify JalviewFileChooser...
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| 2016-11-30 |
gmungoc | JAL-2344 use ".cif" for saved mmCIF file (and refactor...
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commit | commitdiff | tree |
| 2016-11-29 |
gmungoc | JAL-2329 tests to confirm behaviour of Java extended...
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commit | commitdiff | tree |
| 2016-11-29 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-11-29 |
gmungoc | JAL-2344 corrected conversion of Type enum to FileFormat
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commit | commitdiff | tree |
| 2016-11-29 |
gmungoc | JAL-2344 FileFormat.isStructureFile replaces
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commit | commitdiff | tree |
| 2016-11-28 |
gmungoc | Merge branch 'develop' into trialMerge
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| 2016-11-28 |
gmungoc | JAL-2344 added FileFormatI.isStructureFile()
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commit | commitdiff | tree |
| 2016-11-28 |
gmungoc | JAL-2345 cache generated ImageIcon per file path
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commit | commitdiff | tree |
| 2016-11-25 |
gmungoc | JAL-2344 dynamically determine recognised extensions...
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commit | commitdiff | tree |
| 2016-11-25 |
gmungoc | Merge branch 'develop' into trialMerge
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commit | commitdiff | tree |
| 2016-11-25 |
gmungoc | JAL-2344 override to ignore (obsolete?) JalviewFileView
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commit | commitdiff | tree |
| 2016-11-25 |
gmungoc | JAL-2344 use .equals() to compare FileFormatI objects
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commit | commitdiff | tree |
| 2016-11-25 |
gmungoc | JAL-2344 correct roundtrip test to exclude Jalview...
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commit | commitdiff | tree |
| 2016-11-24 |
gmungoc | Distinguish text-only output formats and others (.jar...
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commit | commitdiff | tree |
| 2016-11-24 |
gmungoc | Further tweaks to get tests passing
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commit | commitdiff | tree |
| 2016-11-24 |
gmungoc | FileFormatI further tweaks, clean compile
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commit | commitdiff | tree |
| 2016-11-23 |
gmungoc | JAL-1738 Spanish versions added
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commit | commitdiff | tree |
| 2016-11-22 |
gmungoc | JAL-2337 fix: only adjust once for scroll offset
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commit | commitdiff | tree |
| 2016-11-22 |
gmungoc | JAL-1919 JAL-2177 handle empty pdbentries list correctly
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commit | commitdiff | tree |
| 2016-11-22 |
gmungoc | JAL-2277 refactored AlignmentPanel.printUnwrapped to...
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commit | commitdiff | tree |
| 2016-11-21 |
gmungoc | JAL-2333 test beefed up with gaps
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commit | commitdiff | tree |
| 2016-11-21 |
gmungoc | JAL-2333 corrected select columns with 'contact' feature
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commit | commitdiff | tree |
| 2016-11-21 |
gmungoc | Merge branch 'develop' into bug/JAL-2323disulfideOverview
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commit | commitdiff | tree |
| 2016-11-18 |
gmungoc | JAL-98 with the two types missing from last commit...
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commit | commitdiff | tree |
| 2016-11-17 |
gmungoc | JAL-2323 revert to thread-safe iteration over array...
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commit | commitdiff | tree |
| 2016-11-17 |
gmungoc | JAL-98 ProfilesI container for profiles for columns
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commit | commitdiff | tree |
| 2016-11-17 |
gmungoc | JAL-98 javadoc, third party acknowledgements (and very...
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commit | commitdiff | tree |
| 2016-11-17 |
gmungoc | JAL-2327 disulfide bond abstracted to SequenceFeature...
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commit | commitdiff | tree |
| 2016-11-17 |
gmungoc | JAL-2327 add isContactFeature
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commit | commitdiff | tree |
| 2016-11-16 |
gmungoc | JAL-2323 render disulfide bond correctly on overview...
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commit | commitdiff | tree |
| 2016-11-16 |
gmungoc | JAL-2324 fix and tests for comparison of Float.NaN...
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commit | commitdiff | tree |
| 2016-11-16 |
gmungoc | JAL-2319 corrected reporting of SIFTS mapping
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commit | commitdiff | tree |
| 2016-11-10 |
gmungoc | JAL-2320 thread to close Chimera viewer panel if Chimera...
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commit | commitdiff | tree |
| 2016-11-10 |
gmungoc | JAL-2320 added getViewer() method to return Chimera...
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commit | commitdiff | tree |
| 2016-11-08 |
gmungoc | JAL-2301 corrected search example to match AA properties...
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commit | commitdiff | tree |
| 2016-11-08 |
gmungoc | JAL-2301 made T hydrophobic as per the cited conservation...
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commit | commitdiff | tree |
| 2016-11-08 |
gmungoc | JAL-1961 added link to GFF3 format as well as GFF2
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commit | commitdiff | tree |
| 2016-11-07 |
gmungoc | JAL-1270 renamed helper method so it is not run as...
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commit | commitdiff | tree |
| 2016-11-07 |
gmungoc | JAL-2272 another test case
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commit | commitdiff | tree |
| 2016-11-07 |
gmungoc | JAL-1805 groups=Functional added where missing
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commit | commitdiff | tree |
| 2016-11-07 |
gmungoc | JAL-2272 unit tests added for Platform.isControlDown
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commit | commitdiff | tree |
| 2016-11-07 |
gmungoc | JAL-2318 updated help text
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commit | commitdiff | tree |
| 2016-11-07 |
gmungoc | JAL-2282 show url links that need checked; remove ...
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commit | commitdiff | tree |
| 2016-11-04 |
gmungoc | JAL-2272 right mouse button on Mac is not Cmd equivalent!
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commit | commitdiff | tree |
| 2016-11-04 |
gmungoc | JAL-966 JAL-1854 removed redundant methods / modifiers...
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commit | commitdiff | tree |
| 2016-11-04 |
gmungoc | JAL-2302 unit tests added for Finder
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commit | commitdiff | tree |
| 2016-11-03 |
gmungoc | JAL-2310 don't double-count sequence matches; code...
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commit | commitdiff | tree |
| 2016-11-03 |
gmungoc | JAL-2281 test added to show searchRefs is now not case...
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commit | commitdiff | tree |
| 2016-11-02 |
gmungoc | JAL-2301 table formatted, and corrected to match the...
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commit | commitdiff | tree |
| 2016-11-02 |
gmungoc | JAL-98 JAL-1854 encapsulate 'magic number' threshold...
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commit | commitdiff | tree |
| 2016-11-02 |
gmungoc | JAL-98 ProfileI interface for Profile
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commit | commitdiff | tree |
| 2016-11-02 |
gmungoc | JAL-98 test updated for percentage rounded
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commit | commitdiff | tree |
| 2016-11-02 |
gmungoc | JAL-98 Profile and ResidueCount moved from analysis...
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commit | commitdiff | tree |
| 2016-11-02 |
gmungoc | JAL-98 wording "negatively conserved" now "absence...
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commit | commitdiff | tree |
| 2016-11-01 |
gmungoc | Conservation now using ResidueCount; tests added
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commit | commitdiff | tree |
| 2016-11-01 |
gmungoc | JAL-98 use Integer constants; tests added for propHash...
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commit | commitdiff | tree |
| 2016-11-01 |
gmungoc | JAL-98 typo in javadoc
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commit | commitdiff | tree |
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