jalview.git
2016-06-23 Jim ProcterJAL-1270 test group fix
2016-06-23 Jim ProcterJAL-2110 make indirect xref searches work by not filter...
2016-06-23 Jim ProcterJAL-2110 warning message when routine finds non-ds...
2016-06-23 Jim ProcterJAL-2110 clarify javadoc
2016-06-23 Jim ProcterJAL-2110 refactor to split SequenceFetcher from x-ref...
2016-06-23 Jim ProcterJAL-2110 JAL-1551 formatting
2016-06-23 Jim ProcterJAL-2110 enable and fix failing tests
2016-06-23 Jim ProcterJAL-2110 enable and fix test
2016-06-23 Jim ProcterJAL-2110 refactor sequenceFetcherTest to allow verifyin...
2016-06-23 Jim ProcterJAL-2110 use SequenceI.isProtein()
2016-06-23 Jim ProcterJAL-2110 SequenceI.isProtein method
2016-06-22 Jim ProcterJAL-2110 remove hardwired detection of search context...
2016-06-21 Jim ProcterMerge branch 'features/JAL-2110_crossRefDuplications...
2016-06-21 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie...
2016-06-21 gmungocJAL-2074 suppress prompt to save closed Groovy script...
2016-06-21 gmungocJAL-1270 remove test artefact file after test
2016-06-21 Jim ProcterMerge branch 'features/JAL-1956_featureStyles' into...
2016-06-21 Jim ProcterJAL-1270 ensure before/after clauses have at least...
2016-06-21 gmungocJAL-1270 added runAlways=true to setUp method
2016-06-21 gmungocJAL-2074 reuse Groovy window when reopening; rebind...
2016-06-21 Jim ProcterJAL-2089 cleared out old ‘What’s new’
2016-06-21 Jim ProcterJAL-192 JAL-1369 release notes
2016-06-21 Jim ProcterMerge branch 'features/JAL-1369_refseqproject' into...
2016-06-21 Jim ProcterJAL-1369 make sure desktop is cleared before test starts
2016-06-21 Jim ProcterJAL-1369 jalview2xml tests need to be run sequentially
2016-06-21 gmungocJAL-2110 updated unit test to match code changes
2016-06-21 Jim ProcterJAL-1369 mark reference sequence & view state and resto...
2016-06-21 Jim ProcterJAL-1369 project XML efficiency TODO
2016-06-21 Jim ProcterJAL-1369 dead code TODO?
2016-06-21 Jim ProcterJAL-1369 ensure *real* alignment’s metadata written...
2016-06-21 Jim ProcterJAL-1369 fix the test
2016-06-21 Jim ProcterJAL-1369 make sure the fake AlignmentI produced by...
2016-06-21 Jim ProcterJAL-1369 HUGE WARNING: datamodel.HiddenSequences is...
2016-06-21 gmungocJAL-2113 tidy up canonicalisation of Uniprot xrefs...
2016-06-21 gmungocJAL-2113 tidy up canonicalisation of Uniprot xrefs...
2016-06-20 Jim ProcterJAL-1369 updated project schema - flag on JSeq to mark...
2016-06-20 Jim ProcterJAL-1369 failing test
2016-06-20 Jim ProcterJAL-1989 JAL-1011 release notes
2016-06-20 Jim ProcterJAL-2086 JAL-2085 release notes
2016-06-20 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie...
2016-06-20 Jim ProcterJAL-2065 release notes
2016-06-20 Jim ProcterMerge branch 'bugs/JAL-2065' into develop
2016-06-20 Jim ProcterJAL-2065 port patch to applet
2016-06-20 Jim ProcterJAL-1551 tidy
2016-06-20 Jim ProcterJAL-1551 tidy
2016-06-20 Jim ProcterJAL-2065 don’t pass stale group reference
2016-06-20 Jim ProcterJAL-2068 avoid ArrayIndexOutOfBounds when consensus...
2016-06-20 Jim ProcterJAL-2065 check position lies within group before gettin...
2016-06-20 tcofoegbuJAL-1996 added JalviewApplet to download list in applet...
2016-06-20 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-06-20 tcofoegbuJAL-1823 Deleted two obsolete methods in PopupMenu...
2016-06-20 Jim ProcterMerge branch 'r291_docs' into develop
2016-06-20 Jim ProcterJAL-1812 groovy always present
2016-06-20 Jim ProcterJAL-1812 release notes
2016-06-20 Jim ProcterJAL-1812 documentation TBC for AlignFrame->Calculate...
2016-06-20 Jim ProcterJAL-2089 typo
2016-06-20 Jim ProcterJAL-1868 fix typo in test data.
2016-06-20 Jim ProcterMerge branch 'features/JAL-1812_JAL-2083_groovyBinding...
2016-06-20 Jim ProcterMerge branch 'develop' into features/JAL-1812_JAL-2083_... features/JAL-1812_JAL-2083_groovyBinding
2016-06-20 gmungocJAL-2130 call viewer.dispose() on closing Jmol
2016-06-20 gmungocJAL-1667 updated PDB example query to a valid id (witho...
2016-06-20 Jim ProcterJAL-2110 pass dataset to makeCDSalignment
2016-06-20 Jim ProcterJAL-2110 catch case when updateDBRef argument has null...
2016-06-20 Jim ProcterJAL-2110 List now used for AlignCodonFrame references
2016-06-20 Jim ProcterJAL-2110 copy alcodonframes only if copy constructor...
2016-06-19 Jim ProcterJAL-2110 distinct alignedcodonframe entries for tests
2016-06-19 Jim ProcterJAL-2110 test alcodonframes must be distinct
2016-06-19 Jim ProcterJAL-2110 JAL-2131 JAL-1765 remove reference to jalview...
2016-06-17 tcofoegbuJAL-1823 Updated tooltip to reflect how a specific...
2016-06-17 tcofoegbuJAL-1976 clear message if export is cancelled at 'Rende...
2016-06-17 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-06-17 tcofoegbuJAL-1996 update applet deployment note pages
2016-06-17 gmungocJAL-1557 selection from annotation (and group annotatio...
2016-06-17 tcofoegbuJAL-1976 improved exception handler.
2016-06-17 tcofoegbuJAL-1976 added an intermediate message between a user...
2016-06-16 Jim Proctertests for validating start-end number/sequence length...
2016-06-16 gmungocJAL-1993 close sequence fetcher when opening database...
2016-06-16 Jim ProcterJAL-2110 todo - select mappings involving sequences...
2016-06-16 Jim ProcterJAL-2110 change test for desired behaviour of getCodonF...
2016-06-16 Jim ProcterJAL-2110 equals and hashcode should check fromSeq
2016-06-16 Jim ProcterJAL-2110 throw implementation error if not given a...
2016-06-16 Jim ProcterJAL-2110 typo caused infinite loop
2016-06-16 gmungocJAL-2124 JAL-1990 additional translations
2016-06-16 gmungocJAL-2112 optimisation of EMBL CDS parsing
2016-06-16 gmungocJAL-1993 hide sequence fetcher dialogue until database...
2016-06-15 Jim ProcterMerge branch 'develop' into features/JAL-2110_crossRefD...
2016-06-15 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-06-15 tcofoegbuJAL-2002 disabled 'Best Uniport Coverage' filter. JAL...
2016-06-15 gmungocJAL-2025 unit tests added
2016-06-15 gmungocJAL-2101 unit test updated to match config file
2016-06-14 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-06-14 tcofoegbuJAL-2102 right justify 'Mass' in uniprot FTS, and ...
2016-06-14 gmungocJAL-2114 more helpful reporting of parse failures
2016-06-14 gmungocMerge branch 'develop' into features/JAL-2110_crossRefD...
2016-06-14 gmungocMerge branch 'develop' of https://source.jalview.org...
2016-06-14 gmungocJAL-2110 fixes to dbref resolution and mappings, use...
2016-06-14 gmungocJAL-2110 ensure "UniProtKB/Swiss-Prot" dbrefs canonical...
2016-06-14 tcofoegbuJAL-2047 trapped block that could likely cause ClassCas...
2016-06-14 tcofoegbuJAL-2047 resolved structure chooser's displayed column...
2016-06-14 gmungocJAL-1686 JAL-2110 equals and/or hashCode method added
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