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2016-06-21	Jim Procter	JAL-1369 jalview2xml tests need to be run sequentially	commit \| commitdiff \| tree
2016-06-21	Jim Procter	JAL-1369 mark reference sequence & view state and restore it	commit \| commitdiff \| tree
2016-06-21	Jim Procter	JAL-1369 project XML efficiency TODO	commit \| commitdiff \| tree
2016-06-21	Jim Procter	JAL-1369 dead code TODO?	commit \| commitdiff \| tree
2016-06-21	Jim Procter	JAL-1369 ensure real alignment’s metadata written...	commit \| commitdiff \| tree
2016-06-21	Jim Procter	JAL-1369 fix the test	commit \| commitdiff \| tree
2016-06-21	Jim Procter	JAL-1369 make sure the fake AlignmentI produced by...	commit \| commitdiff \| tree
2016-06-21	Jim Procter	JAL-1369 HUGE WARNING: datamodel.HiddenSequences is...	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-1369 updated project schema - flag on JSeq to mark...	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-1369 failing test	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-1989 JAL-1011 release notes	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-2086 JAL-2085 release notes	commit \| commitdiff \| tree
2016-06-20	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-2065 release notes	commit \| commitdiff \| tree
2016-06-20	Jim Procter	Merge branch 'bugs/JAL-2065' into develop	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-2065 port patch to applet	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-1551 tidy	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-1551 tidy	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-2065 don’t pass stale group reference	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-2068 avoid ArrayIndexOutOfBounds when consensus...	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-2065 check position lies within group before getting...	commit \| commitdiff \| tree
2016-06-20	Jim Procter	Merge branch 'r291_docs' into develop	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-1812 groovy always present	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-1812 release notes	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-1812 documentation TBC for AlignFrame->Calculate...	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-2089 typo	commit \| commitdiff \| tree
2016-06-20	Jim Procter	JAL-1868 fix typo in test data.	commit \| commitdiff \| tree
2016-06-20	Jim Procter	Merge branch 'features/JAL-1812_JAL-2083_groovyBinding...	commit \| commitdiff \| tree
2016-06-20	Jim Procter	Merge branch 'develop' into features/JAL-1812_JAL-2083_groov...	commit \| commitdiff \| tree
2016-06-16	Jim Procter	tests for validating start-end number/sequence length...	commit \| commitdiff \| tree
2016-06-10	Jim Procter	Merge branch 'r291_docs' into develop	commit \| commitdiff \| tree
2016-06-10	Jim Procter	JAL-2089 docs for June 10th	commit \| commitdiff \| tree
2016-06-10	Jim Procter	JAL-2089 signed off bug release notes	commit \| commitdiff \| tree
2016-06-10	Jim Procter	JAL-1941 remove improper test tag from Annotate3D test...	commit \| commitdiff \| tree
2016-06-10	Jim Procter	JAL-2089 documenting for 8th june RC1	commit \| commitdiff \| tree
2016-06-10	Jim Procter	JAL-1941 added test URL and notes about PyRNA restclient	commit \| commitdiff \| tree
2016-06-10	Jim Procter	JAL-1941 Annotate3d tests should be in network group	commit \| commitdiff \| tree
2016-06-02	Jim Procter	JAL-2125 remove SHA256 digest manifest and signatures...	commit \| commitdiff \| tree
2016-06-02	Jim Procter	JAL-2125 remove SHA256 digest manifest and signatures...	commit \| commitdiff \| tree
2016-06-01	Jim Procter	Merge branch 'testfix/JAL-2038' into develop	commit \| commitdiff \| tree
2016-06-01	Jim Procter	JAL-2038 fix tests for case insensitive eSequenceIdMatcher	commit \| commitdiff \| tree
2016-06-01	Jim Procter	JAL-2038 ensure bare Strings are lowercased before...	commit \| commitdiff \| tree
2016-06-01	Jim Procter	Merge branch 'apifix/JAL-1926_JAL-2106' into develop	commit \| commitdiff \| tree
2016-06-01	Jim Procter	fix build	commit \| commitdiff \| tree
2016-05-31	Jim Procter	Merge branch 'apifix/JAL-1926_JAL-2106' into develop	commit \| commitdiff \| tree
2016-05-31	Jim Procter	JAL-1551 JAL-2106 javadoc	commit \| commitdiff \| tree
2016-05-31	Jim Procter	JAL-2110 abstract methods should never reference their...	commit \| commitdiff \| tree
2016-05-31	Jim Procter	Merge branch 'features/JAL-2113_emblXml1.2' into develop	commit \| commitdiff \| tree
2016-05-31	Jim Procter	Merge branch 'develop' into features/JAL-2113_emblXml1.2	commit \| commitdiff \| tree
2016-05-31	Jim Procter	Merge branch 'jims/291patches' into develop	commit \| commitdiff \| tree
2016-05-30	Jim Procter	JAL-553 JAL-1557 always send selections after triggering...	commit \| commitdiff \| tree
2016-05-30	Jim Procter	JAL-1557 allow group associated rows to be used to...	commit \| commitdiff \| tree
2016-05-30	Jim Procter	JAL-2077 release notes	commit \| commitdiff \| tree
2016-05-30	Jim Procter	JAL-2077 fix: convenience method and checks for CMD...	commit \| commitdiff \| tree
2016-05-30	Jim Procter	JAL-1551 formatting	commit \| commitdiff \| tree
2016-05-30	Jim Procter	JAL-2089 update release date for 2.9.1	commit \| commitdiff \| tree
2016-05-30	Jim Procter	JAL-1552 fix JAL-2122 resolve File->string before adding...	commit \| commitdiff \| tree
2016-05-26	Jim Procter	JAL-2030 - add servlet-api-3.1.jar to installAnywhere...	commit \| commitdiff \| tree
2016-05-26	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2016-05-26	Jim Procter	JAL-2121 refactor todo	commit \| commitdiff \| tree
2016-05-26	Jim Procter	JAL-2089 update developer doc	commit \| commitdiff \| tree
2016-05-26	Jim Procter	Merge branch 'develop' of http://source.jalview.org...	commit \| commitdiff \| tree
2016-05-26	Jim Procter	JAL-1400 JAL-2089 allow configurable signature algorithms	commit \| commitdiff \| tree
2016-05-26	Jim Procter	JAL-1551 formatting	commit \| commitdiff \| tree
2016-05-26	Jim Procter	JAL-1552 refactor shared dataflavor hander	commit \| commitdiff \| tree
2016-05-26	Jim Procter	JAL-1552 extra debug logging for dataflavor if drop...	commit \| commitdiff \| tree
2016-05-25	Jim Procter	JAL-1522 patch - try to pick best text dataflavor	commit \| commitdiff \| tree
2016-05-06	Jim Procter	Merge branch 'features/JAL-192_scalerelativetoseq'...	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-192 fix javadoc	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-192 JAL-2099 unused variables	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-1551 formatting	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-192 JAL-2099 reuse refactored scale code for wrapped...	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-192 JAL-2099 factored out calculation from rendering...	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-192 JAL-2099 factored out calculation from rendering...	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-192 JAL-2099 factored out calculation from rendering...	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-2100 centre triangles on hidden column vertical...	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-2100 optimisation	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-2100 triangles shown below in jvdesktop unwrapped...	commit \| commitdiff \| tree
2016-05-06	Jim Procter	JAL-192 patch off-by-one for pathological gap case	commit \| commitdiff \| tree
2016-05-05	Jim Procter	JAL-192 patch for off-by one and pathological case...	commit \| commitdiff \| tree
2016-05-04	Jim Procter	Revert "JAL-2074 removed xerces to explore wierdness"	commit \| commitdiff \| tree
2016-05-03	Jim Procter	Merge branch 'r291_docs' into develop	commit \| commitdiff \| tree
2016-05-02	Jim Procter	JAL-1270 move some Network tests to External (require...	commit \| commitdiff \| tree
2016-05-02	Jim Procter	JAL-1270 capitalise test groups	commit \| commitdiff \| tree
2016-05-02	Jim Procter	JAL-2089 JAL-1551 formatting	commit \| commitdiff \| tree
2016-05-02	Jim Procter	JAL-2089 release 2.9.1 entry in release notes	commit \| commitdiff \| tree
2016-04-29	Jim Procter	Merge branch 'features/JAL-192_scalerelativetoseq'...	commit \| commitdiff \| tree
2016-04-29	Jim Procter	JAL-192 need visible and actual sequence limits for...	commit \| commitdiff \| tree
2016-04-29	Jim Procter	JAL-192 fix bounds when no hidden regions, and when...	commit \| commitdiff \| tree
2016-04-29	Jim Procter	JAL-192 scale origin relative to start of reference...	commit \| commitdiff \| tree
2016-04-29	Jim Procter	JAL-966 JAL-1553  todo: remove UI components from Column...	commit \| commitdiff \| tree
2016-04-29	Jim Procter	JAL-1551 formatting	commit \| commitdiff \| tree
2016-04-29	Jim Procter	JAL-192 ‘efficiently’ locate visible bounds for a sequence...	commit \| commitdiff \| tree
2016-04-29	Jim Procter	JAL-1551 formatting	commit \| commitdiff \| tree
2016-04-27	Jim Procter	Merge branch 'features/JAL-192_scalerelativetoseq'...	commit \| commitdiff \| tree
2016-04-27	Jim Procter	JAL-192 fix off-by-one for alignment ruler with no...	commit \| commitdiff \| tree
2016-04-27	Jim Procter	Merge branch 'features/JAL-192_scalerelativetoseq'...	commit \| commitdiff \| tree
2016-04-27	Jim Procter	JAL-192 show reference sequence position and residue...	commit \| commitdiff \| tree
2016-04-27	Jim Procter	JAL-1366 JAL-2086 reinstate bolding of reference sequence	commit \| commitdiff \| tree
2016-04-27	Jim Procter	JAL-2085 JAL-2086 fix hiddenRepSequence and new referenceSeq...	commit \| commitdiff \| tree
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