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2016-06-23 Jim ProcterJAL-2110 clarify javadoc commit | commitdiff | tree | snapshot
2016-06-23 Jim ProcterJAL-2110 refactor to split SequenceFetcher from x-ref... commit | commitdiff | tree | snapshot
2016-06-23 Jim ProcterJAL-2110 JAL-1551 formatting commit | commitdiff | tree | snapshot
2016-06-23 Jim ProcterJAL-2110 enable and fix failing tests commit | commitdiff | tree | snapshot
2016-06-23 Jim ProcterJAL-2110 enable and fix test commit | commitdiff | tree | snapshot
2016-06-23 Jim ProcterJAL-2110 refactor sequenceFetcherTest to allow verifyin... commit | commitdiff | tree | snapshot
2016-06-23 Jim ProcterJAL-2110 use SequenceI.isProtein() commit | commitdiff | tree | snapshot
2016-06-23 Jim ProcterJAL-2110 SequenceI.isProtein method commit | commitdiff | tree | snapshot
2016-06-22 Jim ProcterJAL-2110 remove hardwired detection of search context... commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterMerge branch 'features/JAL-2110_crossRefDuplications... commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie... commit | commitdiff | tree | snapshot
2016-06-21 gmungocJAL-2074 suppress prompt to save closed Groovy script... commit | commitdiff | tree | snapshot
2016-06-21 gmungocJAL-1270 remove test artefact file after test commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterMerge branch 'features/JAL-1956_featureStyles' into... commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-1270 ensure before/after clauses have at least... commit | commitdiff | tree | snapshot
2016-06-21 gmungocJAL-1270 added runAlways=true to setUp method commit | commitdiff | tree | snapshot
2016-06-21 gmungocJAL-2074 reuse Groovy window when reopening; rebind... commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-2089 cleared out old ‘What’s new’ commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-192 JAL-1369 release notes commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterMerge branch 'features/JAL-1369_refseqproject' into... commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-1369 make sure desktop is cleared before test starts commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-1369 jalview2xml tests need to be run sequentially commit | commitdiff | tree | snapshot
2016-06-21 gmungocJAL-2110 updated unit test to match code changes commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-1369 mark reference sequence & view state and resto... commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-1369 project XML efficiency TODO commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-1369 dead code TODO? commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-1369 ensure *real* alignment’s metadata written... commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-1369 fix the test commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-1369 make sure the fake AlignmentI produced by... commit | commitdiff | tree | snapshot
2016-06-21 Jim ProcterJAL-1369 HUGE WARNING: datamodel.HiddenSequences is... commit | commitdiff | tree | snapshot
2016-06-21 gmungocJAL-2113 tidy up canonicalisation of Uniprot xrefs... commit | commitdiff | tree | snapshot
2016-06-21 gmungocJAL-2113 tidy up canonicalisation of Uniprot xrefs... commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-1369 updated project schema - flag on JSeq to mark... commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-1369 failing test commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-1989 JAL-1011 release notes commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2086 JAL-2085 release notes commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie... commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2065 release notes commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterMerge branch 'bugs/JAL-2065' into develop commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2065 port patch to applet commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-1551 tidy commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-1551 tidy commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2065 don’t pass stale group reference commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2068 avoid ArrayIndexOutOfBounds when consensus... commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2065 check position lies within group before gettin... commit | commitdiff | tree | snapshot
2016-06-20 tcofoegbuJAL-1996 added JalviewApplet to download list in applet... commit | commitdiff | tree | snapshot
2016-06-20 tcofoegbuMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-06-20 tcofoegbuJAL-1823 Deleted two obsolete methods in PopupMenu... commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterMerge branch 'r291_docs' into develop commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-1812 groovy always present commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-1812 release notes commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-1812 documentation TBC for AlignFrame->Calculate... commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2089 typo commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-1868 fix typo in test data. commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterMerge branch 'features/JAL-1812_JAL-2083_groovyBinding... commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterMerge branch 'develop' into features/JAL-1812_JAL-2083_... features/JAL-1812_JAL-2083_groovyBinding commit | commitdiff | tree | snapshot
2016-06-20 gmungocJAL-2130 call viewer.dispose() on closing Jmol commit | commitdiff | tree | snapshot
2016-06-20 gmungocJAL-1667 updated PDB example query to a valid id (witho... commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2110 pass dataset to makeCDSalignment commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2110 catch case when updateDBRef argument has null... commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2110 List now used for AlignCodonFrame references commit | commitdiff | tree | snapshot
2016-06-20 Jim ProcterJAL-2110 copy alcodonframes only if copy constructor... commit | commitdiff | tree | snapshot
2016-06-19 Jim ProcterJAL-2110 distinct alignedcodonframe entries for tests commit | commitdiff | tree | snapshot
2016-06-19 Jim ProcterJAL-2110 test alcodonframes must be distinct commit | commitdiff | tree | snapshot
2016-06-19 Jim ProcterJAL-2110 JAL-2131 JAL-1765 remove reference to jalview... commit | commitdiff | tree | snapshot
2016-06-17 tcofoegbuJAL-1823 Updated tooltip to reflect how a specific... commit | commitdiff | tree | snapshot
2016-06-17 tcofoegbuJAL-1976 clear message if export is cancelled at 'Rende... commit | commitdiff | tree | snapshot
2016-06-17 tcofoegbuMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-06-17 tcofoegbuJAL-1996 update applet deployment note pages commit | commitdiff | tree | snapshot
2016-06-17 gmungocJAL-1557 selection from annotation (and group annotatio... commit | commitdiff | tree | snapshot
2016-06-17 tcofoegbuJAL-1976 improved exception handler. commit | commitdiff | tree | snapshot
2016-06-17 tcofoegbuJAL-1976 added an intermediate message between a user... commit | commitdiff | tree | snapshot
2016-06-16 Jim Proctertests for validating start-end number/sequence length... commit | commitdiff | tree | snapshot
2016-06-16 gmungocJAL-1993 close sequence fetcher when opening database... commit | commitdiff | tree | snapshot
2016-06-16 Jim ProcterJAL-2110 todo - select mappings involving sequences... commit | commitdiff | tree | snapshot
2016-06-16 Jim ProcterJAL-2110 change test for desired behaviour of getCodonF... commit | commitdiff | tree | snapshot
2016-06-16 Jim ProcterJAL-2110 equals and hashcode should check fromSeq commit | commitdiff | tree | snapshot
2016-06-16 Jim ProcterJAL-2110 throw implementation error if not given a... commit | commitdiff | tree | snapshot
2016-06-16 Jim ProcterJAL-2110 typo caused infinite loop commit | commitdiff | tree | snapshot
2016-06-16 gmungocJAL-2124 JAL-1990 additional translations commit | commitdiff | tree | snapshot
2016-06-16 gmungocJAL-2112 optimisation of EMBL CDS parsing commit | commitdiff | tree | snapshot
2016-06-16 gmungocJAL-1993 hide sequence fetcher dialogue until database... commit | commitdiff | tree | snapshot
2016-06-15 Jim ProcterMerge branch 'develop' into features/JAL-2110_crossRefD... commit | commitdiff | tree | snapshot
2016-06-15 tcofoegbuMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-06-15 tcofoegbuJAL-2002 disabled 'Best Uniport Coverage' filter. JAL... commit | commitdiff | tree | snapshot
2016-06-15 gmungocJAL-2025 unit tests added commit | commitdiff | tree | snapshot
2016-06-15 gmungocJAL-2101 unit test updated to match config file commit | commitdiff | tree | snapshot
2016-06-14 tcofoegbuMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-06-14 tcofoegbuJAL-2102 right justify 'Mass' in uniprot FTS, and ... commit | commitdiff | tree | snapshot
2016-06-14 gmungocJAL-2114 more helpful reporting of parse failures commit | commitdiff | tree | snapshot
2016-06-14 gmungocMerge branch 'develop' into features/JAL-2110_crossRefD... commit | commitdiff | tree | snapshot
2016-06-14 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-06-14 gmungocJAL-2110 fixes to dbref resolution and mappings, use... commit | commitdiff | tree | snapshot
2016-06-14 gmungocJAL-2110 ensure "UniProtKB/Swiss-Prot" dbrefs canonical... commit | commitdiff | tree | snapshot
2016-06-14 tcofoegbuJAL-2047 trapped block that could likely cause ClassCas... commit | commitdiff | tree | snapshot
2016-06-14 tcofoegbuJAL-2047 resolved structure chooser's displayed column... commit | commitdiff | tree | snapshot
2016-06-14 gmungocJAL-1686 JAL-2110 equals and/or hashCode method added commit | commitdiff | tree | snapshot
2016-06-10 tcofoegbuMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-06-10 tcofoegbuJAL-1479 updated SIFTS FTP download URL, added improvem... commit | commitdiff | tree | snapshot
2016-06-10 Jim ProcterMerge branch 'r291_docs' into develop commit | commitdiff | tree | snapshot
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