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2016-12-09	gmungoc	JAL-2105 updated for reviewed REST version 4.8	commit \| commitdiff \| tree
2016-12-09	gmungoc	JAL-1895 suppress RNA interaction colour option	commit \| commitdiff \| tree
2016-12-08	gmungoc	JAL-2359 add Window menu entry only after all danger...	commit \| commitdiff \| tree
2016-12-07	gmungoc	JAL-2356 use cached Sifts file if not expired	commit \| commitdiff \| tree
2016-12-07	gmungoc	JAL-2354 handle error response when fetching features	commit \| commitdiff \| tree
2016-12-07	gmungoc	JAL-2344 handle null format, simplify JalviewFileChooser...	commit \| commitdiff \| tree
2016-11-30	gmungoc	JAL-2344 use ".cif" for saved mmCIF file (and refactor...	commit \| commitdiff \| tree
2016-11-29	gmungoc	JAL-2329 tests to confirm behaviour of Java extended...	commit \| commitdiff \| tree
2016-11-29	gmungoc	Merge branch 'develop' of https://source.jalview.org...	commit \| commitdiff \| tree
2016-11-29	gmungoc	JAL-2344 corrected conversion of Type enum to FileFormat	commit \| commitdiff \| tree
2016-11-29	gmungoc	JAL-2344 FileFormat.isStructureFile replaces	commit \| commitdiff \| tree
2016-11-28	gmungoc	Merge branch 'develop' into trialMerge	commit \| commitdiff \| tree
2016-11-28	gmungoc	JAL-2344 added FileFormatI.isStructureFile()	commit \| commitdiff \| tree
2016-11-28	gmungoc	JAL-2345 cache generated ImageIcon per file path	commit \| commitdiff \| tree
2016-11-25	gmungoc	JAL-2344 dynamically determine recognised extensions...	commit \| commitdiff \| tree
2016-11-25	gmungoc	Merge branch 'develop' into trialMerge	commit \| commitdiff \| tree
2016-11-25	gmungoc	JAL-2344 override to ignore (obsolete?) JalviewFileView	commit \| commitdiff \| tree
2016-11-25	gmungoc	JAL-2344 use .equals() to compare FileFormatI objects	commit \| commitdiff \| tree
2016-11-25	gmungoc	JAL-2344 correct roundtrip test to exclude Jalview...	commit \| commitdiff \| tree
2016-11-24	gmungoc	Distinguish text-only output formats and others (.jar...	commit \| commitdiff \| tree
2016-11-24	gmungoc	Further tweaks to get tests passing	commit \| commitdiff \| tree
2016-11-24	gmungoc	FileFormatI further tweaks, clean compile	commit \| commitdiff \| tree
2016-11-23	gmungoc	JAL-1738 Spanish versions added	commit \| commitdiff \| tree
2016-11-22	gmungoc	JAL-2337 fix: only adjust once for scroll offset	commit \| commitdiff \| tree
2016-11-22	gmungoc	JAL-1919 JAL-2177 handle empty pdbentries list correctly	commit \| commitdiff \| tree
2016-11-22	gmungoc	JAL-2277 refactored AlignmentPanel.printUnwrapped to...	commit \| commitdiff \| tree
2016-11-21	gmungoc	JAL-2333 test beefed up with gaps	commit \| commitdiff \| tree
2016-11-21	gmungoc	JAL-2333 corrected select columns with 'contact' feature	commit \| commitdiff \| tree
2016-11-21	gmungoc	Merge branch 'develop' into bug/JAL-2323disulfideOverview	commit \| commitdiff \| tree
2016-11-18	gmungoc	JAL-98 with the two types missing from last commit...	commit \| commitdiff \| tree
2016-11-17	gmungoc	JAL-2323 revert to thread-safe iteration over array...	commit \| commitdiff \| tree
2016-11-17	gmungoc	JAL-98 ProfilesI container for profiles for columns	commit \| commitdiff \| tree
2016-11-17	gmungoc	JAL-98 javadoc, third party acknowledgements (and very...	commit \| commitdiff \| tree
2016-11-17	gmungoc	JAL-2327 disulfide bond abstracted to SequenceFeature...	commit \| commitdiff \| tree
2016-11-17	gmungoc	JAL-2327 add isContactFeature	commit \| commitdiff \| tree
2016-11-16	gmungoc	JAL-2323 render disulfide bond correctly on overview...	commit \| commitdiff \| tree
2016-11-16	gmungoc	JAL-2324 fix and tests for comparison of Float.NaN...	commit \| commitdiff \| tree
2016-11-16	gmungoc	JAL-2319 corrected reporting of SIFTS mapping	commit \| commitdiff \| tree
2016-11-10	gmungoc	JAL-2320 thread to close Chimera viewer panel if Chimera...	commit \| commitdiff \| tree
2016-11-10	gmungoc	JAL-2320 added getViewer() method to return Chimera...	commit \| commitdiff \| tree
2016-11-08	gmungoc	JAL-2301 corrected search example to match AA properties...	commit \| commitdiff \| tree
2016-11-08	gmungoc	JAL-2301 made T hydrophobic as per the cited conservation...	commit \| commitdiff \| tree
2016-11-08	gmungoc	JAL-1961 added link to GFF3 format as well as GFF2	commit \| commitdiff \| tree
2016-11-07	gmungoc	JAL-1270 renamed helper method so it is not run as...	commit \| commitdiff \| tree
2016-11-07	gmungoc	JAL-2272 another test case	commit \| commitdiff \| tree
2016-11-07	gmungoc	JAL-1805 groups=Functional added where missing	commit \| commitdiff \| tree
2016-11-07	gmungoc	JAL-2272 unit tests added for Platform.isControlDown	commit \| commitdiff \| tree
2016-11-07	gmungoc	JAL-2318 updated help text	commit \| commitdiff \| tree
2016-11-07	gmungoc	JAL-2282 show url links that need checked; remove ...	commit \| commitdiff \| tree
2016-11-04	gmungoc	JAL-2272 right mouse button on Mac is not Cmd equivalent!	commit \| commitdiff \| tree
2016-11-04	gmungoc	JAL-966 JAL-1854 removed redundant methods / modifiers...	commit \| commitdiff \| tree
2016-11-04	gmungoc	JAL-2302 unit tests added for Finder	commit \| commitdiff \| tree
2016-11-03	gmungoc	JAL-2310 don't double-count sequence matches; code...	commit \| commitdiff \| tree
2016-11-03	gmungoc	JAL-2281 test added to show searchRefs is now not case...	commit \| commitdiff \| tree
2016-11-02	gmungoc	JAL-2301 table formatted, and corrected to match the...	commit \| commitdiff \| tree
2016-11-02	gmungoc	JAL-98 JAL-1854 encapsulate 'magic number' threshold...	commit \| commitdiff \| tree
2016-11-02	gmungoc	JAL-98 ProfileI interface for Profile	commit \| commitdiff \| tree
2016-11-02	gmungoc	JAL-98 test updated for percentage rounded	commit \| commitdiff \| tree
2016-11-02	gmungoc	JAL-98 Profile and ResidueCount moved from analysis...	commit \| commitdiff \| tree
2016-11-02	gmungoc	JAL-98 wording "negatively conserved" now "absence...	commit \| commitdiff \| tree
2016-11-01	gmungoc	Conservation now using ResidueCount; tests added	commit \| commitdiff \| tree
2016-11-01	gmungoc	JAL-98 use Integer constants; tests added for propHash...	commit \| commitdiff \| tree
2016-11-01	gmungoc	JAL-98 typo in javadoc	commit \| commitdiff \| tree
2016-11-01	gmungoc	JAL-98 simplified repeat() method	commit \| commitdiff \| tree
2016-11-01	gmungoc	Merge branch 'develop' of https://source.jalview.org...	commit \| commitdiff \| tree
2016-10-31	gmungoc	JAL-98 round when formatting dec places	commit \| commitdiff \| tree
2016-10-31	gmungoc	JAL-1723 ellipsis in tooltip if xrefs to more than...	commit \| commitdiff \| tree
2016-10-31	gmungoc	Merge branch 'develop' into features/JAL-1723_sequenceReport	commit \| commitdiff \| tree
2016-10-27	gmungoc	JAL-2282 test assertions for 'other' dbsource	commit \| commitdiff \| tree
2016-10-27	gmungoc	JAL-98 refactor bleachColour() to ColorUtils	commit \| commitdiff \| tree
2016-10-27	gmungoc	JAL-2287 treat Escape like Cancel in dialog box	commit \| commitdiff \| tree
2016-10-26	gmungoc	JAL-2287 Cancel option on Close Chimera? dialog	commit \| commitdiff \| tree
2016-10-26	gmungoc	Merge branch 'bug/JAL-98consensusMemory' into develop	commit \| commitdiff \| tree
2016-10-26	gmungoc	JAL-2286 modal residue check + commenting	commit \| commitdiff \| tree
2016-10-26	gmungoc	JAL-98 null reference to globalColourScheme as it has...	commit \| commitdiff \| tree
2016-10-26	gmungoc	JAL-2286 javadoc, refactor, unit tests for threshold...	commit \| commitdiff \| tree
2016-10-25	gmungoc	JAL-2286 use constant for fixed colours	commit \| commitdiff \| tree
2016-10-25	gmungoc	JAL-98 javadoc corrected	commit \| commitdiff \| tree
2016-10-25	gmungoc	JAL-98 javadoc added	commit \| commitdiff \| tree
2016-10-25	gmungoc	JAL-98 minor fixes to / tests for annotation derivation	commit \| commitdiff \| tree
2016-10-25	gmungoc	JAL-98 field comments updated	commit \| commitdiff \| tree
2016-10-25	gmungoc	JAL-98 small efficiency fix + commenting	commit \| commitdiff \| tree
2016-10-25	gmungoc	JAL-98 javadoc / comments updated	commit \| commitdiff \| tree
2016-10-24	gmungoc	JAL-98 fixme comment removed - nothing to do	commit \| commitdiff \| tree
2016-10-24	gmungoc	JAL-98 ResidueCount 100% test coverage (and bug fixes!)	commit \| commitdiff \| tree
2016-10-24	gmungoc	JAL-2272 Cmd-drag to group edit sequences on Mac (Ctrl...	commit \| commitdiff \| tree
2016-10-24	gmungoc	JAL-2283 corrected preferences settings for test	commit \| commitdiff \| tree
2016-10-24	gmungoc	Merge branch 'develop' into bug/JAL-98consensusMemory	commit \| commitdiff \| tree
2016-10-24	gmungoc	JAL-2283 set 'by conservation' correctly when changing...	commit \| commitdiff \| tree
2016-10-14	gmungoc	Merge branch 'releases/Release_2_10_Branch' into task...	commit \| commitdiff \| tree
2016-10-13	gmungoc	JAL-2253 2 second timeout on ping URL, default 5 minutes...	commit \| commitdiff \| tree
2016-10-13	gmungoc	Merge branch 'releases/Release_2_10_Branch' into develop	commit \| commitdiff \| tree
2016-10-13	gmungoc	JAL-1479 revise warning message to suit all contexts	commit \| commitdiff \| tree
2016-10-13	gmungoc	JAL-2044 increase Jmol file load timeout from 5 to...	commit \| commitdiff \| tree
2016-10-13	gmungoc	JAL-2044 ensure AAStructureBindingModel.pdbEntry has...	commit \| commitdiff \| tree
2016-10-13	gmungoc	JAL-2044 include model name in progress bar message...	commit \| commitdiff \| tree
2016-10-11	gmungoc	Merge branch 'releases/Release_2_10_Branch' into develop	commit \| commitdiff \| tree
2016-10-11	gmungoc	JAL-2241 check for null jprovider when processing New...	commit \| commitdiff \| tree
2016-10-11	gmungoc	Merge branch 'releases/Release_2_10_Branch' into develop	commit \| commitdiff \| tree
2016-10-11	gmungoc	JAL-1479 small tidy of error message when Sifts mapping...	commit \| commitdiff \| tree
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