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2018-05-31	Jim Procter	JAL-1950 JAL-2629 insert gaps into HMM used to search...	commit \| commitdiff \| tree
2018-05-31	Jim Procter	JAL-2629 (probably not right issue) JAL-1950 - make...	commit \| commitdiff \| tree
2018-05-31	Jim Procter	JAL-3011 JAL-2719 JAL-1958 add posterior probability...	commit \| commitdiff \| tree
2018-05-31	Jim Procter	JAL-3011 - show score in annotation row - looks like...	commit \| commitdiff \| tree
2018-05-31	Jim Procter	JAL-1958 use the annotation score for the sequence...	commit \| commitdiff \| tree
2018-05-31	Jim Procter	JAL-1950 JAL-1958 disable per-row score modulation...	commit \| commitdiff \| tree
2018-05-31	Jim Procter	Merge branch 'spike/JAL-1950_hmmer3client' into features...	commit \| commitdiff \| tree
2018-05-31	Jim Procter	Merge branch 'develop' into spike/JAL-1950_hmmer3client	commit \| commitdiff \| tree
2018-05-26	Jim Procter	JAL-2999 release date for 2.10.4b1 set for 27th May...	commit \| commitdiff \| tree
2018-05-25	Jim Procter	Merge branch 'documentation/JAL-2999_r2104b1' into...	commit \| commitdiff \| tree
2018-05-25	Jim Procter	Merge branch 'bug/JAL-2992panelHeight' into releases...	commit \| commitdiff \| tree
2018-05-25	Jim Procter	Merge branch 'bug/JAL-1460_dragndropWindows' into releases...	commit \| commitdiff \| tree
2018-05-25	Jim Procter	Merge branch 'bug/JAL-2991_exporttosvgwrapview' into...	commit \| commitdiff \| tree
2018-05-25	Jim Procter	Merge branch 'feature/JAL-2994chimeraPath' into releases...	commit \| commitdiff \| tree
2018-05-25	Jim Procter	JAL-1460 clarify release notes - and mention that shortcuts...	commit \| commitdiff \| tree
2018-05-25	Jim Procter	JAL-2994 add a few future release points for good measure...	commit \| commitdiff \| tree
2018-05-25	Jim Procter	JAL-1460 temp variable for clearer conditional and...	commit \| commitdiff \| tree
2018-05-25	Jim Procter	JAL-1460 javadoc	commit \| commitdiff \| tree
2018-05-24	Jim Procter	JAL-2999 issues resolved (or nearly so) for 2.10.4b1	commit \| commitdiff \| tree
2018-05-24	Jim Procter	JAL-1460 process .lnk files dragged to Jalview when...	commit \| commitdiff \| tree
2018-05-24	Jim Procter	JAL-1460 new data flavor for URLs added belt-and-braces...	commit \| commitdiff \| tree
2018-05-23	Jim Procter	fix for JAL-2991 - we could do better :/	commit \| commitdiff \| tree
2018-05-23	Jim Procter	JAL-2999 release notes and version bump for jalview...	commit \| commitdiff \| tree
2018-05-23	Jim Procter	JAL-2895 replace $$Jalview-Version$$ in help.jhm with...	commit \| commitdiff \| tree
2018-05-10	Jim Procter	JAL-2920 release notes	commit \| commitdiff \| tree
2018-05-10	Jim Procter	Merge branch 'bug/JAL-2920_uniprotvariantfeature' into...	commit \| commitdiff \| tree
2018-05-10	Jim Procter	JAL-2920 basic test for Description from features with...	commit \| commitdiff \| tree
2018-05-10	Jim Procter	JAL-2920 simplified logic and added corner cases for...	commit \| commitdiff \| tree
2018-05-09	Jim Procter	JAL-2906 update release date and release notes	commit \| commitdiff \| tree
2018-05-09	Jim Procter	JAL-2931 patch IA paths for new build box	commit \| commitdiff \| tree
2018-05-09	Jim Procter	Merge branch 'patch/JAL-2976_vaqua4_fallback' into...	commit \| commitdiff \| tree
2018-05-09	Jim Procter	JAL-2976 fixed bad equivalence check and implemented...	commit \| commitdiff \| tree
2018-05-08	Jim Procter	JAL-2321 release notes	commit \| commitdiff \| tree
2018-05-08	Jim Procter	Merge branch 'patch/JAL-2321_addsecstrForDroppedPDBFile...	commit \| commitdiff \| tree
2018-05-07	Jim Procter	JAL-2321 patch test to ensure structures are actually...	commit \| commitdiff \| tree
2018-05-07	Jim Procter	JAL-2321 ensure default is ‘parseImmediately=true’	commit \| commitdiff \| tree
2018-05-07	Jim Procter	JAL-2321 use configured values for structure derived...	commit \| commitdiff \| tree
2018-05-07	Jim Procter	JAL-2321 add secondary structure & temp factor if not...	commit \| commitdiff \| tree
2018-05-07	Jim Procter	JAL-2321 use StructureImportSettings singleton settings...	commit \| commitdiff \| tree
2018-05-07	Jim Procter	JAL-2321 isParseImmediately() allows the parse() method...	commit \| commitdiff \| tree
2018-05-07	Jim Procter	JAL-2321 allow JmolParser to be configured before parsing...	commit \| commitdiff \| tree
2018-05-07	Jim Procter	JAL-2906 apply GPLv3 license source	commit \| commitdiff \| tree
2018-05-07	Jim Procter	JAL-2960 don’t override a swing method and create infinite...	commit \| commitdiff \| tree
2018-05-07	Jim Procter	Merge branch 'releases/Release_2_10_4_Branch' of http...	commit \| commitdiff \| tree
2018-05-04	Jim Procter	JAL-2906 2.10.4 release for 8th May 2018	commit \| commitdiff \| tree
2018-05-04	Jim Procter	Merge branch 'bug/JAL-2899' into releases/Release_2_10_4_Branch	commit \| commitdiff \| tree
2018-05-04	Jim Procter	JAL-2906 removed mention of experimental features,...	commit \| commitdiff \| tree
2018-05-04	Jim Procter	JAL-2976 patch NPE when trying to open Uniprot FTS	commit \| commitdiff \| tree
2018-05-04	Jim Procter	JAL-2929 JAL-2922 release notes	commit \| commitdiff \| tree
2018-05-04	Jim Procter	JAL-2976 typo in installAnywhere build for VAqua dependency	commit \| commitdiff \| tree
2018-05-04	Jim Procter	JAL-2960 release notes	commit \| commitdiff \| tree
2018-05-04	Jim Procter	JAL-2948 transfer features/annotation is now available...	commit \| commitdiff \| tree
2018-05-04	Jim Procter	JAL-2960 raise the structure view after adding structures...	commit \| commitdiff \| tree
2018-05-04	Jim Procter	JAL-2976 Vaqua fallback release notes JAL-2906	commit \| commitdiff \| tree
2018-05-04	Jim Procter	Merge branch 'patch/JAL-2976_vaqua4_fallback' into...	commit \| commitdiff \| tree
2018-05-02	Jim Procter	JAL-2976 fallback to Vaqua for Macs that don’t work...	commit \| commitdiff \| tree
2018-05-02	Jim Procter	JAL-2976 Vaqua(4) as a dependency	commit \| commitdiff \| tree
2018-05-01	Jim Procter	JAL-2899 release notes	commit \| commitdiff \| tree
2018-05-01	Jim Procter	JAL-2973 JAL-2974 known defects for 2.10.4 (JAL-2906)	commit \| commitdiff \| tree
2018-05-01	Jim Procter	JAL-2925 release notes	commit \| commitdiff \| tree
2018-05-01	Jim Procter	JAL-2593 JAL-2945 JAL-2952 JAL-2954 release notes for...	commit \| commitdiff \| tree
2018-05-01	Jim Procter	JAL-2223 JAL-2781 JAL-2780 JAL-2946 JAL-2906 release...	commit \| commitdiff \| tree
2018-05-01	Jim Procter	JAL-2906 reformat release notes	commit \| commitdiff \| tree
2018-05-01	Jim Procter	JAL-2906 typo	commit \| commitdiff \| tree
2018-05-01	Jim Procter	JAL-2944 revised docs and structure chooser screen...	commit \| commitdiff \| tree
2018-05-01	Jim Procter	JAL-2899 colouring moved from SwingWorker to a background...	commit \| commitdiff \| tree
2018-04-30	Jim Procter	Merge branch 'bug/JAL-2899' into releases/Release_2_10_4_Branch	commit \| commitdiff \| tree
2018-04-30	Jim Procter	JAL-2906 release 2.10.4 on 1st May 2018	commit \| commitdiff \| tree
2018-04-25	Jim Procter	Merge branch 'features/JAL-2944_openStructuresInSelectedView...	commit \| commitdiff \| tree
2018-04-11	Jim Procter	JAL-2946 catch unexpected SIFTS mapping exceptions...	commit \| commitdiff \| tree
2018-04-09	Jim Procter	JAL-2944 ’new view’ and ‘add to view’ button rather...	commit \| commitdiff \| tree
2018-04-09	Jim Procter	JAL-1847 superpose checkbox in structure chooser	commit \| commitdiff \| tree
2018-04-09	Jim Procter	JAL-1847 JAL-2944 make superposition step a configurable...	commit \| commitdiff \| tree
2018-04-06	Jim Procter	failing test for JAL-2223	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2945 resolve model as PDB file. Need to verify...	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2945 failing test for structure mapping	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2945 formatting	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2945 provide access to last highlighted results	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2944 open selected structures in existing or a...	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2944 combo box to pick which viewer to load structures...	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2944 methods to check existence and get a title...	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2944 allow StructureViewer proxy to be created...	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2944 get viewer’s title via toString()	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2944 expose UI update methods in api	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2944 remove modal prompt logic and expose methods...	commit \| commitdiff \| tree
2018-04-05	Jim Procter	JAL-2944 pull up structure viewer discovery routine...	commit \| commitdiff \| tree
2018-03-21	Jim Procter	JAL-2754 reinstate PA import from bad conflict merge	commit \| commitdiff \| tree
2018-03-21	Jim Procter	JAL-2754 remove duplicate classpath entry again	commit \| commitdiff \| tree
2018-03-21	Jim Procter	Merge branch 'releases/Release_2_10_4_Branch' into...	commit \| commitdiff \| tree
2018-03-21	Jim Procter	Merge branch 'patch/JAL-2754_patch2104forJava8' into...	commit \| commitdiff \| tree
2018-03-21	Jim Procter	JAL-2754 don’t use deprecated api for getting font...	commit \| commitdiff \| tree
2018-03-21	Jim Procter	JAL-2754 fix eclipse compilation error about referencing...	commit \| commitdiff \| tree
2018-03-21	Jim Procter	Merge branch 'patch/JAL-2754_patch2104forJava8' into...	commit \| commitdiff \| tree
2018-03-21	Jim Procter	Merge branch 'patch/JAL-2754_patch2104forJava8' into...	commit \| commitdiff \| tree
2018-03-21	Jim Procter	JAL-2754 dont put '<>' in <echo> text!	commit \| commitdiff \| tree
2018-03-21	Jim Procter	Merge branch 'releases/Release_2_10_4_Branch' into...	commit \| commitdiff \| tree
2018-03-21	Jim Procter	Merge branch 'patch/JAL-2754_patch2104forJava8' into...	commit \| commitdiff \| tree
2018-03-21	Jim Procter	JAL-2754 clean up proguard path spec and config variables	commit \| commitdiff \| tree
2018-03-21	gmungoc	JAL-2754 renamed proguard.jar to include version number	commit \| commitdiff \| tree
2018-03-21	gmungoc	JAL-2754 5.3.3 update of proguard.jar	commit \| commitdiff \| tree
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