jalview.git
2016-07-14 Jim ProcterJAL-2147 findMappingsBetweenSequenceAndOthers for scopi...
2016-07-14 Jim ProcterJAL-1115 change implementation to avoid possibility...
2016-07-14 Jim ProcterJAL-1270 test coverage TODO Alignment.append(AlignmentI)
2016-07-14 Jim ProcterJAL-2110 JAL-2147 JAL-2145 - pad CDS alignment reconstr...
2016-07-13 Jim ProcterMerge branch 'features/JAL-2110_crossRefDuplications...
2016-07-13 Jim ProcterMerge branch 'develop' into features/JAL-2110_crossRefD...
2016-07-13 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-07-13 tcofoegbuJAL-2135 minor house-keeping
2016-07-12 Jim ProcterJAL-2144 TODO - new methods for canonicalisation and...
2016-07-12 Jim ProcterJAL-2110 avoid potential race condition where user...
2016-07-12 Jim ProcterJAL-2110 TODO for JAL-2131
2016-07-12 Jim ProcterJAL-2110 note about use case for when alignAsSameSequen...
2016-07-12 Jim ProcterJAL-2110 test demonstrating limitation of current imple...
2016-07-12 Jim ProcterJAL-2110 javadoc and TODO re shortcomings of implementation
2016-07-12 Jim ProcterJAL-2110 javadoc
2016-07-12 Jim ProcterJAL-2110 scalability todo
2016-07-12 Jim ProcterJAL-1381 JAL-2110 efficiency TODO
2016-07-12 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie...
2016-07-12 Jim ProcterJAL-1369 release notes for patch of save/restore repres...
2016-07-12 tcofoegbuJAL-2135 NPE bugfix when parsing a structure file with...
2016-07-09 gmungocMerge branch 'develop' into features/JAL-2110_crossRefD... features/JAL-2110_crossRefDuplications
2016-07-08 tcofoegbuJAL-1919 Fixed failing tests, enabled HETATM processing...
2016-07-07 gmungocJAL-2110 added alignAsSameSequences to handle 'direct...
2016-07-07 gmungocJAL-2110 field 'cf' moved to stack
2016-07-06 gmungocJAL-2110 generic rather than specific check for gap...
2016-07-06 gmungocJAL-2110 AlignmentUtils.alignCdsAsProtein implemented
2016-07-06 gmungocJAL-2110 ensuring mapped dbrefs between protein and cds
2016-07-06 gmungocJAL-2110 add 'mapFromId' to Mapping (for e.g. EMBL...
2016-07-06 gmungocJAL-2110 cross-refs from protein to show cds not non...
2016-07-06 gmungocJAL-2110 fixes and tests for adding dbrefs to EMBL...
2016-07-04 gmungocMerge branch 'develop' into features/JAL-2110_crossRefD...
2016-07-04 gmungocJAL-2110 use shared dataset when copying alignment...
2016-07-04 gmungocJAL-2110 added another test case (should fail but doesn't)
2016-07-04 gmungocRevert "JAL-2110 use shared alignment dataset when...
2016-07-04 gmungocJAL-2110 use shared alignment dataset when copying...
2016-07-04 gmungocJAL-2110 bug fix / test for searchDataset mappings...
2016-07-04 gmungocJAL-2110 unused method removed
2016-07-04 gmungocJAL-2110 defensive check in code
2016-07-01 gmungocJAL-2110 bug fixing and tidying for get cross-refs
2016-07-01 gmungocJAL-2110 set reasonable bounds to initial split of...
2016-07-01 tcofoegbuJAL-2135 bugfix for error preventing processing of...
2016-07-01 gmungocJAL-2110 add 'products' parameter to filter results...
2016-07-01 gmungocJAL-2110 code/comment tidy
2016-06-30 gmungocMerge branch 'develop' into features/JAL-2110_crossRefD...
2016-06-30 tcofoegbuJAL-2074 Improvement to StructureChooser and FTS interf...
2016-06-30 gmungocJAL-2110 fixes and tests for synthesized EMBLCDSPROTEIN...
2016-06-30 gmungocMerge branch 'develop' into features/JAL-2110_crossRefD...
2016-06-30 tcofoegbuJAL-1919 updated PDBSequenceFetcherTest and JMol parser...
2016-06-29 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-06-29 tcofoegbuJAL-1479 added test case to elaborate getEntityByMostOp...
2016-06-29 gmungocMerge branch 'develop' into features/JAL-2110_crossRefD...
2016-06-29 gmungocJAL-1270 avoid overwriting .jalview_properties with...
2016-06-29 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-06-29 tcofoegbuJAL-1479 improved Sifts PID calculation for determining...
2016-06-29 gmungocMerge branch 'develop' into features/JAL-2110_crossRefD...
2016-06-29 gmungocJAL-1369 fix bug reloading a project with group sequenc...
2016-06-28 tcofoegbuJAL-1479 minor refactor and housekeeping
2016-06-28 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-06-28 tcofoegbuJAL-1479 improved SiftsClient test coverage and impleme...
2016-06-27 gmungoctidied loop with generic iteration / loop variable
2016-06-27 gmungocJAL-2133 refactored duplicated code to AlignmentViewport
2016-06-27 gmungocJAL-1369 additional asserts in testStoreAndRecoverRefer...
2016-06-27 gmungocJAL-1270 unit tests for HiddenSequences
2016-06-24 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-06-24 tcofoegbuJAL-1960 updated unit test to include the test case...
2016-06-23 gmungocJAL-2130 now simply viewer.dispose() to close down...
2016-06-23 Jim ProcterMerge branch 'develop' into merge_JAL-2110
2016-06-23 tcofoegbuJAL-1996 added notes for an alternative way to view...
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 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-06-22 tcofoegbuJAL-1996 added link for viewing example source codes...
2016-06-22 gmungocJAL-2015 fixed bug in copy constructor and added tests
2016-06-22 gmungocJAL-1982 defensive checks for null annotations array
2016-06-22 gmungocMerge branch 'develop' of https://source.jalview.org...
2016-06-22 gmungocJAL-1982 defensive test for null array of annotations
2016-06-22 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2016-06-22 tcofoegbuJAL-1996 removed quick links in example pages, added...
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
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