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2017-06-05	Jim Procter	JAL-2590 patch for rendering eggnog trees with polytomies...	commit \| commitdiff \| tree
2017-06-05	Jim Procter	Merge branch 'documentation/JAL-2418_release2102' into...	commit \| commitdiff \| tree
2017-06-05	Jim Procter	JAL-2576 release notes	commit \| commitdiff \| tree
2017-06-05	Jim Procter	Merge branch 'bug/JAL-2576' into develop	commit \| commitdiff \| tree
2017-06-05	Jim Procter	Merge branch 'bug/JAL-2586' into develop	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2228 java 1.7 compliance	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2291 updated docs	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2291 only hide/show columns intersecting with currently...	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2291 get bitset representing hidden columns	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2291 use HiddenColumns.hideMarkedBits and take...	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2291 method taking a BitSet for hiding columns	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2291 bug fix - BitSet.set is [start,end+1)	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2291 fixed broken asserts for SequenceI.getInsertionsAsBits	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2291 ‘Hide Insertions’ now operates on selection...	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2291 SequenceI.getInsertionsAsBits for convenient...	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2582 comment about IDs being lost if they resembl...	commit \| commitdiff \| tree
2017-06-04	Jim Procter	JAL-2582 recognise ENS…P peptide IDs and make two getParent...	commit \| commitdiff \| tree
2017-06-02	Jim Procter	Merge branch 'bug/JAL-2578' into develop	commit \| commitdiff \| tree
2017-06-02	Jim Procter	Merge branch 'bug/JAL-2577' into develop	commit \| commitdiff \| tree
2017-06-02	Jim Procter	Merge branch 'features/JAL-2228_featureSetCounts_minRangeTwe...	commit \| commitdiff \| tree
2017-06-02	Jim Procter	JAL-2228 always create zero score annotations, since...	commit \| commitdiff \| tree
2017-06-02	Jim Procter	JAL-2228 always set minimum for count to zero for annotation row	commit \| commitdiff \| tree
2017-06-01	Jim Procter	Merge branch 'features/JAL-1648_cache_user_inputs'...	commit \| commitdiff \| tree
2017-05-31	Jim Procter	Merge branch 'documentation/JAL-2418_release2102' into...	commit \| commitdiff \| tree
2017-05-31	Jim Procter	JAL-2418 release notes for JAL-2547, JAL-2563, JAL...	commit \| commitdiff \| tree
2017-05-31	Jim Procter	Merge branch 'JAL-2571' into develop	commit \| commitdiff \| tree
2017-05-31	Jim Procter	Merge branch 'documentation/JAL-2418_release2102' into...	commit \| commitdiff \| tree
2017-05-31	Jim Procter	JAL-2398 - updated groovy script for direct field modification	commit \| commitdiff \| tree
2017-05-31	Jim Procter	JAL-2418 JAL-2563 release notes	commit \| commitdiff \| tree
2017-05-31	Jim Procter	JAL-2418 typo	commit \| commitdiff \| tree
2017-05-31	Jim Procter	Merge branch 'develop' into documentation/JAL-2418_release2102	commit \| commitdiff \| tree
2017-05-29	Jim Procter	Merge branch 'bug/JAL-2034contextchange' into develop	commit \| commitdiff \| tree
2017-05-29	Jim Procter	JAL-2388 release notes	commit \| commitdiff \| tree
2017-05-29	Jim Procter	Merge branch 'documentation/JAL-2418_release2102' into...	commit \| commitdiff \| tree
2017-05-29	Jim Procter	JAL-2520 properly documented as a fixed bug in release...	commit \| commitdiff \| tree
2017-05-29	Jim Procter	Merge branch 'documentation/JAL-2418_release2102' into...	commit \| commitdiff \| tree
2017-05-29	Jim Procter	JAL-2465,JAL-2520,JAL-2533 release notes	commit \| commitdiff \| tree
2017-05-29	Jim Procter	Merge branch 'features/JAL-2465_No-mapping_Jmol-structures...	commit \| commitdiff \| tree
2017-05-29	Jim Procter	JAL-2533 update javadoc	commit \| commitdiff \| tree
2017-05-29	Jim Procter	JAL-2465 fixed groups for JmolViewerTest.testStructureLoadin...	commit \| commitdiff \| tree
2017-05-29	Jim Procter	Merge branch 'bug/JAL-2536' into develop	commit \| commitdiff \| tree
2017-05-29	Jim Procter	JAL-2536 tweak javadoc wording	commit \| commitdiff \| tree
2017-05-29	Jim Procter	Merge branch 'documentation/JAL-2418_release2102' into...	commit \| commitdiff \| tree
2017-05-29	Jim Procter	JAL-2517 release notes	commit \| commitdiff \| tree
2017-05-29	Jim Procter	Merge branch 'bug/JAL-2517cancelAppletColour' into...	commit \| commitdiff \| tree
2017-05-29	Jim Procter	release notes	commit \| commitdiff \| tree
2017-05-29	Jim Procter	JAL-2418 updated JABAWS server in what’s new	commit \| commitdiff \| tree
2017-05-29	Jim Procter	JAL-2491 JAL-2526 JAL-2566 JAL-2563 JAL-2547 release...	commit \| commitdiff \| tree
2017-05-27	Jim Procter	Merge branch 'bug/JAL-2491' into develop	commit \| commitdiff \| tree
2017-05-27	Jim Procter	Merge branch 'bug/JAL-2547tooltipOnGap' into develop	commit \| commitdiff \| tree
2017-05-27	Jim Procter	Merge branch 'task/JAL-2562_SequenceI.findPosition...	commit \| commitdiff \| tree
2017-05-27	Jim Procter	JAL-2563 failing test to verify SetStatus returns position...	commit \| commitdiff \| tree
2017-05-27	Jim Procter	JAL-2563 test to verify SetStatus returns -1 so mouseOver...	commit \| commitdiff \| tree
2017-05-27	Jim Procter	Merge branch 'task/JAL-2562_SequenceI.findPosition...	commit \| commitdiff \| tree
2017-05-27	Jim Procter	JAL-2547 JAL-2562 rejig SetStatusMessage return value...	commit \| commitdiff \| tree
2017-05-27	Jim Procter	Merge branch 'task/JAL-2562_SequenceI.findPosition...	commit \| commitdiff \| tree
2017-05-27	Jim Procter	JAL-2526 test and documentation for SeqPanel.setStatus...	commit \| commitdiff \| tree
2017-05-27	Jim Procter	JAL-2562 javadoc TODO	commit \| commitdiff \| tree
2017-05-26	Jim Procter	Merge branch 'documentation/JAL-2418_release2102' into...	commit \| commitdiff \| tree
2017-05-26	Jim Procter	JAL-2418 updated JPred documentation and screenshot...	commit \| commitdiff \| tree
2017-05-26	Jim Procter	JAL-2418 JAL-2549 JABAWS 2.2 release notes	commit \| commitdiff \| tree
2017-05-26	Jim Procter	Merge branch 'features/JAL-2549_updateJABAWSto220'...	commit \| commitdiff \| tree
2017-05-25	Jim Procter	Merge branch 'develop' into features/JAL-1648_cache_user_inputs	commit \| commitdiff \| tree
2017-05-23	Jim Procter	JAL-2549 RNAAliFold result to annotation file roundtrip...	commit \| commitdiff \| tree
2017-05-23	Jim Procter	JAL-2549 skip ‘Unrecognised Service’ which resolves...	commit \| commitdiff \| tree
2017-05-23	Jim Procter	JAL-2549 replace JABAWS 2.1 with 2.2 client and remove...	commit \| commitdiff \| tree
2017-05-22	Jim Procter	JAL-2418 patch build - broken htsjdk import	commit \| commitdiff \| tree
2017-05-18	Jim Procter	Merge branch 'bug/JAL-2388_typeCheckAlignView.getUpdatedView...	commit \| commitdiff \| tree
2017-05-18	Jim Procter	JAL-2388 return empty hidden columns for fully visible...	commit \| commitdiff \| tree
2017-05-18	Jim Procter	JAL-2418 remove explicit test suite stats	commit \| commitdiff \| tree
2017-05-17	Jim Procter	Merge branch 'develop' into documentation/JAL-2418_release2102	commit \| commitdiff \| tree
2017-05-17	Jim Procter	Merge branch 'bug/JAL-2510amendFeatures' into develop	commit \| commitdiff \| tree
2017-05-17	Jim Procter	JAL-2447 add links to issues.jalview.org for experimental...	commit \| commitdiff \| tree
2017-05-17	Jim Procter	Merge branch 'documentation/JAL-2418_release2102' into...	commit \| commitdiff \| tree
2017-05-17	Jim Procter	JAL-2447 experimental section in ‘Whats New’	commit \| commitdiff \| tree
2017-05-17	Jim Procter	JAL-2447 JAL-2295 JAL-2296 documenting as experimental...	commit \| commitdiff \| tree
2017-05-17	Jim Procter	Merge branch 'develop' into documentation/JAL-2418_release2102	commit \| commitdiff \| tree
2017-05-17	Jim Procter	Merge branch 'features/JAL-2447experimentalFlag' into...	commit \| commitdiff \| tree
2017-05-17	Jim Procter	JAL-2418 release notes	commit \| commitdiff \| tree
2017-05-16	Jim Procter	Merge branch 'documentation/JAL-2418_release2102' into...	commit \| commitdiff \| tree
2017-05-16	Jim Procter	JAL-2418 release notes	commit \| commitdiff \| tree
2017-05-16	Jim Procter	JAL-384 documentation on custom colours groovy examples	commit \| commitdiff \| tree
2017-05-16	Jim Procter	JAL-384 - groovy scripts for conserved/unconserved...	commit \| commitdiff \| tree
2017-05-16	Jim Procter	JAL-2418 release notes	commit \| commitdiff \| tree
2017-05-16	Jim Procter	JAL-2418 JAL-2316 added to new features	commit \| commitdiff \| tree
2017-05-16	Jim Procter	JAL-2316 tweaking docs and links in help	commit \| commitdiff \| tree
2017-05-16	Jim Procter	JAL-2418 release 2.10.2 release notes template	commit \| commitdiff \| tree
2017-05-16	Jim Procter	alternative patch for JAL-2339 readability in java...	commit \| commitdiff \| tree
2017-05-16	Jim Procter	Merge branch 'bug/JAL-2507_rnasecstrstockholm' into...	commit \| commitdiff \| tree
2017-05-15	Jim Procter	JAL-2507 fix test: knockon from capitalisation on secondary...	commit \| commitdiff \| tree
2017-05-15	Jim Procter	Merge branch 'bug/JAL-2507_rnasecstrstockholm' into...	commit \| commitdiff \| tree
2017-05-15	Jim Procter	JAL-2311 disable and relocate Jared service tests to...	commit \| commitdiff \| tree
2017-05-15	Jim Procter	JAL-2507 capitalisation for annotation lines generated...	commit \| commitdiff \| tree
2017-05-15	Jim Procter	JAL-2507 case insensitive recognition of annotation...	commit \| commitdiff \| tree
2017-05-15	Jim Procter	JAL-2507 - required callers to specify exact ignore...	commit \| commitdiff \| tree
2017-05-15	Jim Procter	JAL-2535 quick hack to implement posterior probabilities...	commit \| commitdiff \| tree
2017-05-15	Jim Procter	Merge branch 'features/JAL-2376_add-horizontal-bar...	commit \| commitdiff \| tree
2017-05-15	Jim Procter	JAL-2371 create a default ResidueShader when constructing...	commit \| commitdiff \| tree
2017-05-12	Jim Procter	Merge branch 'features/JAL-2435splitScreenFont' into...	commit \| commitdiff \| tree
2017-05-12	Jim Procter	JAL-2418 broken help ref	commit \| commitdiff \| tree
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