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2015-09-08	Jim Procter	Merge branch 'develop' into release/2_9_documentation	commit \| commitdiff \| tree
2015-09-08	Jim Procter	JAL-1626 added missing gap character and fixed typo...	commit \| commitdiff \| tree
2015-09-08	Jim Procter	Merge branch 'develop' into release/2_9_documentation	commit \| commitdiff \| tree
2015-09-08	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2015-09-08	Jim Procter	Merge branch 'develop' into release/2_9_documentation	commit \| commitdiff \| tree
2015-09-08	Jim Procter	JAL-1551 crlf change	commit \| commitdiff \| tree
2015-09-08	Jim Procter	Merge branch 'develop' into release/2_9_documentation	commit \| commitdiff \| tree
2015-09-08	Jim Procter	JAL-1645 draft release notes for v2.9...	commit \| commitdiff \| tree
2015-09-07	Jim Procter	Merge branch 'features/JAL-857_dynamic-example-files...	commit \| commitdiff \| tree
2015-09-07	Jim Procter	Merge branch 'features/JAL-857_dynamic-example-files...	commit \| commitdiff \| tree
2015-09-07	Jim Procter	JAL-1522 report commit id and branch in installation...	commit \| commitdiff \| tree
2015-09-07	Jim Procter	JAL-1522 make installation default 'applet' for the...	commit \| commitdiff \| tree
2015-09-07	Jim Procter	JAL-1701 added links to example files. will probably...	commit \| commitdiff \| tree
2015-09-06	Jim Procter	JAL-1655 transfer setting option only displayed in...	commit \| commitdiff \| tree
2015-09-06	Jim Procter	JAL-1368 JAL-1863 JAL-1304 reformatting and revision...	commit \| commitdiff \| tree
2015-09-06	Jim Procter	JAL-1368 JAL-1628 revise documentation in line with...	commit \| commitdiff \| tree
2015-09-06	Jim Procter	JAL-1645 JAL-1355 UI/i18n: added missing messages,...	commit \| commitdiff \| tree
2015-09-05	Jim Procter	JAL-1871 JAL-1553 don’t modify selection/view colour...	commit \| commitdiff \| tree
2015-09-05	Jim Procter	JAL-1871 choose a new RNA Helices palette when annotation...	commit \| commitdiff \| tree
2015-09-05	Jim Procter	JAL-1871 don’t change the palette every time an edit...	commit \| commitdiff \| tree
2015-09-05	Jim Procter	JAL-1871 reinstate random generation of palette when...	commit \| commitdiff \| tree
2015-09-05	Jim Procter	JAL-1869 make per-sequence RNA helix colours each time...	commit \| commitdiff \| tree
2015-09-05	Jim Procter	Merge branch 'bugfix/JAL-841_JAL-1081' into develop	commit \| commitdiff \| tree
2015-09-05	Jim Procter	JAL-1805 move misassigned test from Functional to Network	commit \| commitdiff \| tree
2015-09-05	Jim Procter	JAL-1233 tidy up and use same RNA helix colours in...	commit \| commitdiff \| tree
2015-09-05	Jim Procter	JAL-1081 JAL-891 don’t overwrite global colour scheme...	commit \| commitdiff \| tree
2015-09-05	Jim Procter	JAL-1081 JAL-841 JAL-1053 JAL-1081 use same selection...	commit \| commitdiff \| tree
2015-09-04	Jim Procter	JAL-1847 Merge branch 'thiago' into develop	commit \| commitdiff \| tree
2015-09-04	Jim Procter	JAL-1847 added AUTOSUPERIMPOSE property which can be...	commit \| commitdiff \| tree
2015-09-03	Jim Procter	JAL-1863 allow RNA secondary structure rows exported...	commit \| commitdiff \| tree
2015-09-03	Jim Procter	JAL-961 efficiency TODO: decouple overview updates...	commit \| commitdiff \| tree
2015-09-03	Jim Procter	JAL-1680 JAL-1576 JAL-1233 all conservation and consensus...	commit \| commitdiff \| tree
2015-09-03	Jim Procter	JAL-1576 fix: trigger broadcast of colour change with...	commit \| commitdiff \| tree
2015-09-03	Jim Procter	JAL-961 TODO use workers for calculations supporting...	commit \| commitdiff \| tree
2015-09-03	Jim Procter	JAL-1551 source tidy	commit \| commitdiff \| tree
2015-09-03	Jim Procter	JAL-1550 JAL-1551 formatting	commit \| commitdiff \| tree
2015-09-03	Jim Procter	JAL-1233 JAL-1576 copy constructor to propagate helix...	commit \| commitdiff \| tree
2015-09-02	Jim Procter	JAL-1853 add test to list for ant task	commit \| commitdiff \| tree
2015-09-02	Jim Procter	JAL-535 todo: refactor logic to desktop controller...	commit \| commitdiff \| tree
2015-09-02	Jim Procter	JAL-1772 non-functional test added. not doing any more...	commit \| commitdiff \| tree
2015-09-01	Jim Procter	Merge branch 'bug/JAL-1853_gapchar_output' into develop	commit \| commitdiff \| tree
2015-09-01	Jim Procter	JAL-1853 add test to Functional group	commit \| commitdiff \| tree
2015-09-01	Jim Procter	JAL-1853 make getVisibleSeqs more memory efficient...	commit \| commitdiff \| tree
2015-09-01	Jim Procter	JAL-1853 refactor clip routine from getSequenceStrings	commit \| commitdiff \| tree
2015-09-01	Jim Procter	patch for JAL-1853 - use given gap character to reconstruct...	commit \| commitdiff \| tree
2015-09-01	Jim Procter	JAL-1853 test origin of gapChar bug in AlignView method	commit \| commitdiff \| tree
2015-09-01	Jim Procter	JAL-1853 test demonstrating bug	commit \| commitdiff \| tree
2015-08-27	Jim Procter	JAL-1844 adding more missing jars - jersey, other json...	commit \| commitdiff \| tree
2015-08-27	Jim Procter	fix for JAL-1844 add jersey-core,json,client-1.19 to...	commit \| commitdiff \| tree
2015-08-10	Jim Procter	JAL-1645 updated final release date for version 2.9	commit \| commitdiff \| tree
2015-08-10	Jim Procter	Merge branch 'release/2_9_documentation' into develop	commit \| commitdiff \| tree
2015-08-10	Jim Procter	JAL-736 relocate group associated conservation symbols...	commit \| commitdiff \| tree
2015-08-10	Jim Procter	JAL-736 source formatting	commit \| commitdiff \| tree
2015-08-05	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2015-08-05	Jim Procter	JAL-1821 formatting	commit \| commitdiff \| tree
2015-08-05	Jim Procter	JAL-1821 launch the structure view in a separate thread...	commit \| commitdiff \| tree
2015-08-05	Jim Procter	JAL-1822 create dataset sequences if they aren’t already...	commit \| commitdiff \| tree
2015-08-05	Jim Procter	JAL-1821 JAL-1759 make sure we wait around until the...	commit \| commitdiff \| tree
2015-08-05	Jim Procter	JAL-1821 patch for completeness - first model number...	commit \| commitdiff \| tree
2015-08-03	Jim Procter	JAL-1821 JAL-1759 reinstate rotation speed configuration...	commit \| commitdiff \| tree
2015-08-03	Jim Procter	JAL-1821 JAL-1759 updated Jmol has different model...	commit \| commitdiff \| tree
2015-08-03	Jim Procter	JAL-1821 avoid race condition when multiple structures...	commit \| commitdiff \| tree
2015-07-23	Jim Procter	Merge branch 'features/JAL-1759jmolUpdate' into develop	commit \| commitdiff \| tree
2015-07-23	Jim Procter	JAL-1759 formatting	commit \| commitdiff \| tree
2015-07-23	Jim Procter	JAL-1759 reinstate changes from bdfde6ef989da0702cef90f03858...	commit \| commitdiff \| tree
2015-07-23	Jim Procter	JAL-1759 formatting	commit \| commitdiff \| tree
2015-07-23	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2015-07-23	Jim Procter	Merge branch 'task/JAL-1794_jettyExamplesServer' into...	commit \| commitdiff \| tree
2015-07-23	Jim Procter	Merge branch 'bug/JAL-1819_isNaN' into develop	commit \| commitdiff \| tree
2015-07-23	Jim Procter	JAL-1819 commented out debugging message to stderr	commit \| commitdiff \| tree
2015-07-23	Jim Procter	JAL-1551 JAL-1819 formatting/imports	commit \| commitdiff \| tree
2015-07-23	Jim Procter	JAL-1819 use Float.isNaN() to check for NaNs!	commit \| commitdiff \| tree
2015-07-22	Jim Procter	JAL-1805 add group spec to the BeforeMethod setup ...	commit \| commitdiff \| tree
2015-07-22	Jim Procter	JAL-1782 added summary test report for Release_2_9_Branch...	commit \| commitdiff \| tree
2015-07-21	Jim Procter	Merge branch 'ismb/2015_demo' into develop	commit \| commitdiff \| tree
2015-07-16	Jim Procter	revision for JAL-1749 - ensure view 2D structure menu...	commit \| commitdiff \| tree
2015-07-16	Jim Procter	fix for JAL-1776 renamed popup menu entry	commit \| commitdiff \| tree
2015-06-30	Jim Procter	JAL-1682 JAL-1645 remove references to 2.8.3	commit \| commitdiff \| tree
2015-06-30	Jim Procter	JAL-1645 update release history for 2.8.2b1	commit \| commitdiff \| tree
2015-06-25	Jim Procter	JAL-1794 simple file server class - configured for...	commit \| commitdiff \| tree
2015-06-25	Jim Procter	JAL-1691 avoid NPE when original split frame has been...	commit \| commitdiff \| tree
2015-06-25	Jim Procter	JAL-1780 JAL-653 JAL-1892 brackets in wrong place broke...	commit \| commitdiff \| tree
2015-06-24	Jim Procter	Merge branch 'features/JAL-1370_patchshowunconserved...	commit \| commitdiff \| tree
2015-06-24	Jim Procter	JAL-1790 fix: javac.source=1.7 and javac.target=1.7...	commit \| commitdiff \| tree
2015-06-24	Jim Procter	JAL-653 JAL-1780 JAL-1892 fix jalviewLite compilation	commit \| commitdiff \| tree
2015-06-24	Jim Procter	Merge branch 'merge/develop_JAL-1780_JAL-653_JAL-1892...	commit \| commitdiff \| tree
2015-06-23	Jim Procter	JAL-1780 JAL-653 jim forgot to put the conditional...	commit \| commitdiff \| tree
2015-06-23	Jim Procter	JAL-1782 JAL-1780 JAL-653 JAL-1892 update patched refactored...	commit \| commitdiff \| tree
2015-06-22	Jim Procter	JAL-1270 fix logic in stockholm test allowing annotation...	commit \| commitdiff \| tree
2015-06-22	Jim Procter	JAL-653 JAL-1780 JAL-1140 added RNAML example alignment...	commit \| commitdiff \| tree
2015-06-22	Jim Procter	JAL-653 JAL-1780 dropped unnecessary refs	commit \| commitdiff \| tree
2015-06-22	Jim Procter	JAL-1780 JAL-653 Format/AppletFormat import and export...	commit \| commitdiff \| tree
2015-06-22	Jim Procter	JAL-653 JAL-1780 reorder imports	commit \| commitdiff \| tree
2015-06-19	Jim Procter	JAL-653 JAL-1780 refactor getGroups so HTMLfile/JSONfile...	commit \| commitdiff \| tree
2015-06-19	Jim Procter	JAL-1780 JAL-653 organise imports	commit \| commitdiff \| tree
2015-06-19	Jim Procter	JAL-653 JAL-1780 minimise call rate now av.hasHiddenRows...	commit \| commitdiff \| tree
2015-06-19	Jim Procter	JAL-653 JAL-1780 dropped av.setHasHiddenRows() and...	commit \| commitdiff \| tree
2015-06-19	Jim Procter	JAL-1780 JAL-653 organise imports	commit \| commitdiff \| tree
2015-06-18	Jim Procter	JAL-653 patch broken test code - test still not passing	commit \| commitdiff \| tree
2015-06-18	Jim Procter	JAL-653 JAL-1780 JAL-1543 javadoc and comment about...	commit \| commitdiff \| tree
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