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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
2016-10-27	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
2016-10-11	gmungoc	JAL-2233 reverted changes to Jmol logging levels	commit \| commitdiff \| tree
2016-10-06	gmungoc	JAL-2254 map error text in root node of EMBL XML response	commit \| commitdiff \| tree
2016-10-06	gmungoc	Merge branch 'develop' into bug/JAL-98consensusMemory	commit \| commitdiff \| tree
2016-10-06	gmungoc	Merge branch 'develop' into task/JAL-2196pdbeProperties	commit \| commitdiff \| tree
2016-10-06	gmungoc	JAL-2252 now buffered read of 3 lines of a time in...	commit \| commitdiff \| tree
2016-10-06	gmungoc	JAL-2245 checks for null added (in case EMBL fetch...	commit \| commitdiff \| tree
2016-10-05	gmungoc	Merge branch 'develop' into task/JAL-2196pdbeProperties	commit \| commitdiff \| tree
2016-10-05	gmungoc	JAL-1191 revert to using SequenceOntologyLite due to...	commit \| commitdiff \| tree
2016-10-05	gmungoc	JAL-1191 configure full SO for desktop, SOLite for...	commit \| commitdiff \| tree
2016-10-05	gmungoc	JAL-2245 defence against NullPointer if no EMBL data...	commit \| commitdiff \| tree
2016-10-05	gmungoc	JAL-1191 use full SO in desktop application	commit \| commitdiff \| tree
2016-10-05	gmungoc	JAL-2105 update Ensembl REST version to 4.7	commit \| commitdiff \| tree
2016-10-05	gmungoc	JAL-1191 refined warning message	commit \| commitdiff \| tree
2016-10-05	gmungoc	JAL-1191 added mRNA isA transcript to SequenceOntologyLite...	commit \| commitdiff \| tree
2016-10-04	gmungoc	Merge branch 'bug/JAL-2245enaXmlChange' into develop	commit \| commitdiff \| tree
2016-10-04	gmungoc	Merge branch 'bug/JAL-2210_hack_for_Release_2_10' into...	commit \| commitdiff \| tree
2016-10-04	gmungoc	JAL-2245 Castor mapping and code changes for change...	commit \| commitdiff \| tree
2016-10-04	gmungoc	JAL-2232 some fix / partial fix of failing tests	commit \| commitdiff \| tree
2016-10-04	gmungoc	JAL-2232 added test that failed before last fix, passes...	commit \| commitdiff \| tree
2016-10-04	gmungoc	JAL-2232 JAL-2154 update dbrefs to newly created dataset...	commit \| commitdiff \| tree
2016-10-03	gmungoc	JAL-2110 javadoc formatting only	commit \| commitdiff \| tree
2016-10-03	gmungoc	JAL-2110 JAL-1705 handle not found (400) better	commit \| commitdiff \| tree
2016-10-03	gmungoc	JAL-2110 additional tests for setDatasetSequence, javadoc...	commit \| commitdiff \| tree
2016-10-03	gmungoc	JAL-98 throw exception (unhandled) for int overthrow...	commit \| commitdiff \| tree
2016-10-03	gmungoc	JAL-98 use Profile to store consensus, ResidueCount...	commit \| commitdiff \| tree
2016-10-03	gmungoc	JAL-98 bespoke fast percentage formatter for consensus...	commit \| commitdiff \| tree
2016-09-30	gmungoc	Merge branch 'develop' into bug/JAL-98consensusMemory	commit \| commitdiff \| tree
2016-09-30	gmungoc	JAL-2236 code restored (and some compiler warnings...	commit \| commitdiff \| tree
2016-09-30	gmungoc	Merge branch 'develop' into features/JAL-1856dbRefFetcherMes...	commit \| commitdiff \| tree
2016-09-30	gmungoc	JAL-2234 FER1_ARATH renamed FER2_ARATH and vice versa	commit \| commitdiff \| tree
2016-09-30	gmungoc	JAL-2236 fixes for desktop and applet implementation...	commit \| commitdiff \| tree
2016-09-29	gmungoc	JAL-1856 better warning messages for sequence matching...	commit \| commitdiff \| tree
2016-09-29	gmungoc	JAL-2213 code warnings addressed (typed collections...	commit \| commitdiff \| tree
2016-09-29	gmungoc	JAL-2213 removed PDB from db sources list; also code...	commit \| commitdiff \| tree
2016-09-29	gmungoc	JAL-2213 made RESNUM constant private (not used elsewhere...	commit \| commitdiff \| tree
2016-09-29	gmungoc	JAL-2213 corrected wait for files to load in Jmol;...	commit \| commitdiff \| tree
2016-09-29	gmungoc	JAL-2237 apply default filter as sort in initial search	commit \| commitdiff \| tree
2016-09-29	gmungoc	Merge branch 'develop' of https://source.jalview.org...	commit \| commitdiff \| tree
2016-09-29	gmungoc	JAL-2047 allow title to be shrunk; spelling fix	commit \| commitdiff \| tree
2016-09-29	gmungoc	JAL-1544 typo	commit \| commitdiff \| tree
2016-09-29	gmungoc	JAL-1903 increase REST reply timeout from 5 to 15 seconds	commit \| commitdiff \| tree
2016-09-27	gmungoc	JAL-2233 less verbose logging for Jmol	commit \| commitdiff \| tree
2016-09-27	gmungoc	JAL-2231 save preferred scroll height _without_ progress...	commit \| commitdiff \| tree
2016-09-27	gmungoc	JAL-2230 JAL-2049 added sequence feature transfer to	commit \| commitdiff \| tree
2016-09-27	gmungoc	JAL-2230 use correct mapping to transfer features to...	commit \| commitdiff \| tree
2016-09-26	gmungoc	JAL-98 bug fix, string optimisation, sorted AA properties	commit \| commitdiff \| tree
2016-09-26	gmungoc	JAL-98 don't include gaps in maxResidue!	commit \| commitdiff \| tree
2016-09-26	gmungoc	JAL-98 generalised increment() to add() and made faster	commit \| commitdiff \| tree
2016-09-23	gmungoc	JAL-98 performance tweaks to use of SparseIntArray	commit \| commitdiff \| tree
2016-09-23	gmungoc	JAL-98 first working version	commit \| commitdiff \| tree
2016-09-23	gmungoc	JAL-2214 Javadoc	commit \| commitdiff \| tree
2016-09-23	gmungoc	JAL-98 use SparseIntArray (wip)	commit \| commitdiff \| tree
2016-09-23	gmungoc	JAL-98 Android SparseIntArray added	commit \| commitdiff \| tree
2016-09-22	gmungoc	JAL-1421 use declared type of ResidueProperties.propHash	commit \| commitdiff \| tree
2016-09-22	gmungoc	JAL-1421 typed ResidueProperties.propHash; JAL-2176...	commit \| commitdiff \| tree
2016-09-22	gmungoc	JAL-2216 null currentAlignFrame on close all windows...	commit \| commitdiff \| tree
2016-09-22	gmungoc	JAL-2216 finalize call super.finalize()	commit \| commitdiff \| tree
2016-09-22	gmungoc	JAL-2216 finalise corrected to finalize	commit \| commitdiff \| tree
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