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2018-11-19	Jim Procter	JAL-3156 javadoc re JAL-3127 and FIXME to make AlignmentI...	commit \| commitdiff \| tree
2018-11-19	Jim Procter	JAL-3127 drop redundant hidden representative sequences...	commit \| commitdiff \| tree
2018-11-19	Jim Procter	JAL-3127 JAL-2773 don’t need to call paintAlignment...	commit \| commitdiff \| tree
2018-11-19	Jim Procter	JAL-3127 tidier tree group colour -> view propagation	commit \| commitdiff \| tree
2018-11-09	Jim Procter	JAL-3127 polished setColor after review	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 always look up sequence ID colour from view...	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 tidy up terminology in colour schemes help...	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 updated colours menu and tree view documentation	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 reinstate ability to set sequence ID colour...	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 use AlignViewportI.addGroup to create & propagate...	commit \| commitdiff \| tree
2018-10-16	Jim Procter	JAL-3127 use AlignViewportI.addGroup() to add group...	commit \| commitdiff \| tree
2018-10-16	Jim Procter	viewport flag to indicate when structure view needs...	commit \| commitdiff \| tree
2018-10-09	Jim Procter	JAL-3127 Colour sequences by ID - need to check that...	commit \| commitdiff \| tree
2018-10-09	Jim Procter	JAL-3127 TODO - resolve reference to Viewport for group...	commit \| commitdiff \| tree
2018-10-09	Jim Procter	JAL-3127 pass reference to AlignViewportI when creating...	commit \| commitdiff \| tree
2018-09-19	Jim Procter	Merge branch 'bug/JAL-3120restoreFeatureColour' into...	commit \| commitdiff \| tree
2018-09-19	Jim Procter	Merge branch 'cherrypick/JAL-2808_notabs' into develop	commit \| commitdiff \| tree
2018-09-19	Jim Procter	JAL-2808 JAL-3026 deleted all commented out tab code...	commit \| commitdiff \| tree
2018-09-19	gmungoc	JAL-2808 JAL-3032 drop tabbed layout for Colours and...	commit \| commitdiff \| tree
2018-09-18	Jim Procter	JAL-2865 release notes	commit \| commitdiff \| tree
2018-09-12	Jim Procter	Merge branch 'merge/JAL-3091_JAL-3111_develop_211'...	commit \| commitdiff \| tree
2018-09-11	Jim Procter	JAL-3112 increased TEST_TIMEOUT to 9000ms - needed...	commit \| commitdiff \| tree
2018-09-11	Jim Procter	JAL-3112 Use classgraph to reconstruct the classpath...	commit \| commitdiff \| tree
2018-09-11	Jim Procter	Merge branch 'merge/JAL-3091_JAL-3111_develop_211'...	commit \| commitdiff \| tree
2018-09-11	Jim Procter	JAL-3111 drop hts-1.33 as a dependency (in favour of...	commit \| commitdiff \| tree
2018-09-11	Jim Procter	Merge branch 'merge/JAL-3091_JAL-3111_develop_211'...	commit \| commitdiff \| tree
2018-09-11	Jim Procter	Merge branch 'releases/Release_2_11_Branch' into merge...	commit \| commitdiff \| tree
2018-09-11	Jim Procter	Merge branch 'develop' into releases/Release_2_11_Branch	commit \| commitdiff \| tree
2018-09-09	Jim Procter	JAL-3091 changed release date to 10th September - tweaked...	commit \| commitdiff \| tree
2018-09-09	Jim Procter	JAL-3106 normalise extension before checking if it...	commit \| commitdiff \| tree
2018-09-07	Jim Procter	JAL-3107 update any group associated annotation rows...	commit \| commitdiff \| tree
2018-09-07	Jim Procter	JAL-2988 JAL-2968 renamed patched VAqua5 to VAqua5...	commit \| commitdiff \| tree
2018-09-07	Jim Procter	JAL-2988 if selected file is null (On Java 10/OSX ...	commit \| commitdiff \| tree
2018-09-07	Jim Procter	JAL-2988 workaround: overload getSelectedFile() because...	commit \| commitdiff \| tree
2018-09-07	Jim Procter	JAL-3106 use .jvp as default	commit \| commitdiff \| tree
2018-09-07	Jim Procter	JAL-3105 fix for focus transfer after window closed...	commit \| commitdiff \| tree
2018-09-06	Jim Procter	JAL-3091 code committed in error (failed patch for...	commit \| commitdiff \| tree
2018-09-06	Jim Procter	JAL-3091 release notes for JAL-3104	commit \| commitdiff \| tree
2018-09-06	Jim Procter	JAL-3105 reallocate quality and consensus annotation...	commit \| commitdiff \| tree
2018-09-06	Jim Procter	JAL-2854 compute visible annotation panel height and...	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-3065 don’t quote class path args for Runtime.exec...	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-3091 update whats new!	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-3091 update Java 10 known issues/workarounds in...	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-3091 known defect in whats new for Java 10 issues...	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-3091 add Ben Soares to authors list and switch...	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-3091 release notes for updated memory settings	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-3091 release notes	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-3101 increase default heap size in IA and JNLP...	commit \| commitdiff \| tree
2018-09-05	Jim Procter	Merge branch 'patch/VAqua_saveload_update_JAL-2988...	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-2988 update InstallAnywhere install dependencies...	commit \| commitdiff \| tree
2018-09-05	Jim Procter	Merge branch 'bug/JAL-3076ensemblGeneId' into develop	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-3091 release date set for Thursday 6th September	commit \| commitdiff \| tree
2018-09-05	Jim Procter	Merge branch 'bug/JAL-3065_DH_keyPair_Exception_nogroovysett...	commit \| commitdiff \| tree
2018-09-05	Jim Procter	JAL-3065 - amended commit 4906697ab6e5a79fbce3baae89f7f6417...	commit \| commitdiff \| tree
2018-09-04	Jim Procter	JAL-3091 JAL-2988 release notes re Java 10 and OSX	commit \| commitdiff \| tree
2018-09-03	Jim Procter	Merge branch 'patch/VAqua_saveload_update_JAL-2988...	commit \| commitdiff \| tree
2018-09-03	Jim Procter	Merge branch 'releases/Release_2_10_5_Branch' of http...	commit \| commitdiff \| tree
2018-09-03	Jim Procter	JAL-3091 -Dnosign to disable jar signing phase of build	commit \| commitdiff \| tree
2018-09-03	Jim Procter	JAL-3091 -Dnosign to disable jar signing phase of build	commit \| commitdiff \| tree
2018-09-03	Jim Procter	JAL-3091 release notes and whats new !	commit \| commitdiff \| tree
2018-09-03	Jim Procter	JAL-3065 release notes	commit \| commitdiff \| tree
2018-09-03	Jim Procter	Merge branch 'bug/JAL-3065_DH_keyPair_Exception' into...	commit \| commitdiff \| tree
2018-09-03	Jim Procter	JAL-3076 clarify javadoc handling single sequence response...	commit \| commitdiff \| tree
2018-09-03	Jim Procter	JAL-3087 release notes	commit \| commitdiff \| tree
2018-08-31	Jim Procter	JAL-3095 account for sequence start when highlighting...	commit \| commitdiff \| tree
2018-08-31	Jim Procter	JAL-3053 JAL-3061 JAL-3095 release notes	commit \| commitdiff \| tree
2018-08-31	Jim Procter	Merge branch 'bug/JAL-3061_RNA_secondary_structure_annotatio...	commit \| commitdiff \| tree
2018-08-31	Jim Procter	Merge branch 'releases/Release_2_10_5_Branch' of http...	commit \| commitdiff \| tree
2018-08-31	Jim Procter	JAL-3095 release notes	commit \| commitdiff \| tree
2018-08-31	Jim Procter	java doc and fix for JAL-3095 - region of trimmed RNA...	commit \| commitdiff \| tree
2018-08-30	Jim Procter	JAL-3092 release notes	commit \| commitdiff \| tree
2018-08-30	Jim Procter	JAL-3092 make sure base pair counter is always moved...	commit \| commitdiff \| tree
2018-08-29	Jim Procter	JAL-3091 release notes for JAL-3003 JAL-3059	commit \| commitdiff \| tree
2018-08-28	Jim Procter	JAL-3003 different coloured borders in demo annotation...	commit \| commitdiff \| tree
2018-08-28	gmungoc	JAL-3059 use correct border colour for groups	commit \| commitdiff \| tree
2018-08-28	gmungoc	JAL-3003 draw selection group outline on main graphics...	commit \| commitdiff \| tree
2018-08-28	Jim Procter	JAL-247 release notes	commit \| commitdiff \| tree
2018-08-28	gmungoc	JAL-247 comment to clarify wrapped print algorithm	commit \| commitdiff \| tree
2018-08-28	gmungoc	JAL-247 print/export wrapped uses common code to draw...	commit \| commitdiff \| tree
2018-08-28	gmungoc	JAL-3087 include full alignment height in repeating...	commit \| commitdiff \| tree
2018-08-28	gmungoc	JAL-247 draw/print sequence ids now uses common code...	commit \| commitdiff \| tree
2018-08-28	Jim Procter	JAL-3091 release 2.10.5 added to release notes	commit \| commitdiff \| tree
2018-08-22	Jim Procter	JAL-2988 workaround for jalview save as dialogs - clear...	commit \| commitdiff \| tree
2018-08-22	Jim Procter	JAL-2988 JAL-2976 update to latest VAqua release: VAqua5	commit \| commitdiff \| tree
2018-08-01	Jim Procter	Merge branch 'releases/Release_2_10_4_Branch' into...	commit \| commitdiff \| tree
2018-08-01	Jim Procter	Merge branch 'task/JAL-3047_clover2104b1_cherrypick...	commit \| commitdiff \| tree
2018-08-01	Jim Procter	JAL-3047 don't set classes unconditionally (forgot...	commit \| commitdiff \| tree
2018-08-01	Jim Procter	JAL-3047 don’t let the makedist task complete if a...	commit \| commitdiff \| tree
2018-08-01	Jim Procter	JAL-3047 ‘cloverclasses’ build directory for instrumented...	commit \| commitdiff \| tree
2018-08-01	Jim Procter	JAL-3047 enable clover for testng	commit \| commitdiff \| tree
2018-08-01	Jim Procter	JAL-3047 ignore clover output dir	commit \| commitdiff \| tree
2018-07-19	Jim Procter	Merge branch 'task/JAL-3047_clovercoverage' into develop	commit \| commitdiff \| tree
2018-07-19	Jim Procter	JAL-3047 don't set classes unconditionally (forgot...	commit \| commitdiff \| tree
2018-07-12	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2018-07-02	Jim Procter	Merge branch 'task/JAL-3047_clovercoverage' into develop	commit \| commitdiff \| tree
2018-07-02	Jim Procter	JAL-3047 don’t let the makedist task complete if a...	commit \| commitdiff \| tree
2018-07-02	Jim Procter	JAL-3047 ‘cloverclasses’ build directory for instrumented...	commit \| commitdiff \| tree
2018-06-27	Jim Procter	JAL-3047 enable clover for testng	commit \| commitdiff \| tree
2018-06-27	Jim Procter	JAL-3047 ignore clover output dir	commit \| commitdiff \| tree
2018-06-27	Jim Procter	JAL-3047 ant -Dclover.jar=../path/to/clover/lib/clover...	commit \| commitdiff \| tree
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