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JAL-2106 fix (last one!) remove the Sequence.sourceDBRef field!
[jalview.git] / test / jalview / datamodel /
2016-08-25 Jim ProcterJAL-2106 tighten DBRefEntry primary seq test for PDB tree | commitdiff
2016-08-25 Jim ProcterMerge branch 'refactor/JAL-2106_sourceDbRef_revision... tree | commitdiff
2016-08-25 Jim ProcterMerge branch 'develop' into refactor/JAL-2106_sourceDbR... tree | commitdiff
2016-08-24 Jim ProcterJAL-2106 TODO - verify Embl primary refs get added tree | commitdiff
2016-08-24 Jim ProcterJAL-2106 removed setSourceDBRef, refactor getSourceDBRe... tree | commitdiff
2016-08-24 Jim ProcterJAL-2106 stricter check for 1:1 mapping (same numbering... tree | commitdiff
2016-08-24 Jim ProcterJAL-2106 rejig test to minimally verify patch that... tree | commitdiff
2016-08-24 Jim ProcterJAL-2106 DBRefEntry.isPrimary() minimal test & implemen... tree | commitdiff
2016-08-23 Jim ProcterMerge branch 'develop' into bug/JAL-2154projectMappings tree | commitdiff
2016-08-23 gmungocJAL-2174 markColumns() refactored inside ColumnSelection tree | commitdiff
2016-08-22 Jim ProcterJAL-2154 always check dataset sequence for sequence... tree | commitdiff
2016-08-22 Jim ProcterJAL-2154 patch verifyAlignment so it fails for duplicat... tree | commitdiff
2016-08-22 Jim ProcterJAL-2154 tidy assert messages and fix test to verify... tree | commitdiff
2016-08-22 Jim ProcterJAL-2154 test that verifyAlignment fails for duplicate... tree | commitdiff
2016-08-19 Jim ProcterJAL-2154 testNG like assertAlignmentDatasetRefs static... tree | commitdiff
2016-08-18 gmungocJAL-2001 return copy of selection in getSelected() tree | commitdiff
2016-08-16 Jim ProcterJAL-2154 verify sequenceI/dataset refs for codonmappings tree | commitdiff
2016-08-16 Jim ProcterJAL-2154 check alignment isn’t null before validating tree | commitdiff
2016-08-16 gmungocJAL-2172 unit test added tree | commitdiff
2016-08-16 Jim ProcterJAL-2154 new assert to check reference integrity for... tree | commitdiff
2016-08-04 Jim ProcterJAL-2154 make sure all sequences referenced via DBRefEn... tree | commitdiff
2016-07-18 Jim ProcterJAL-2110 JAL-2145 fix out of date test for 2baee069f9ed... tree | commitdiff
2016-07-06 gmungocJAL-2110 AlignmentUtils.alignCdsAsProtein implemented tree | commitdiff
2016-07-06 gmungocJAL-2110 add 'mapFromId' to Mapping (for e.g. EMBL... tree | commitdiff
2016-07-06 gmungocJAL-2110 fixes and tests for adding dbrefs to EMBL... tree | commitdiff
2016-07-04 gmungocJAL-2110 added another test case (should fail but doesn't) tree | commitdiff
2016-07-04 gmungocRevert "JAL-2110 use shared alignment dataset when... tree | commitdiff
2016-07-04 gmungocJAL-2110 use shared alignment dataset when copying... tree | commitdiff
2016-06-30 gmungocJAL-2110 fixes and tests for synthesized EMBLCDSPROTEIN... tree | commitdiff
2016-06-29 gmungocMerge branch 'develop' into features/JAL-2110_crossRefD... tree | commitdiff
2016-06-27 gmungocJAL-1270 unit tests for HiddenSequences tree | commitdiff
2016-06-23 Jim ProcterJAL-2110 SequenceI.isProtein method tree | commitdiff
2016-06-21 Jim ProcterMerge branch 'features/JAL-2110_crossRefDuplications... tree | commitdiff
2016-06-21 Jim ProcterJAL-1270 ensure before/after clauses have at least... tree | commitdiff
2016-06-21 gmungocJAL-2113 tidy up canonicalisation of Uniprot xrefs... tree | commitdiff
2016-06-20 Jim ProcterJAL-2110 copy alcodonframes only if copy constructor... tree | commitdiff
2016-06-19 Jim ProcterJAL-2110 JAL-2131 JAL-1765 remove reference to jalview... tree | commitdiff
2016-06-16 gmungocJAL-2112 optimisation of EMBL CDS parsing tree | commitdiff
2016-06-14 gmungocJAL-1686 JAL-2110 equals and/or hashCode method added tree | commitdiff
2016-05-31 gmungocJAL-2110 refactor + tests to allow a dbref version... tree | commitdiff
2016-05-31 Jim ProcterMerge branch 'develop' into features/JAL-2113_emblXml1.2 tree | commitdiff
2016-05-30 gmungocJAL-1989 equals method strengthened to fully match... tree | commitdiff
2016-05-27 gmungocJAL-1989 added hashCode and equals, renamed field to... tree | commitdiff
2016-05-26 gmungocJAL-2113 additions to embl_mapping.xml / data models... features/JAL-2113_emblXml1.2 tree | commitdiff
2016-05-23 gmungocJAL-2113 remove spaces in sequence from unmarshalling... tree | commitdiff
2016-05-23 gmungocJAL-2114 save 'raw' ENA location as a sequence feature... tree | commitdiff
2016-05-20 gmungocJAL-2113 corrected test to use valid location syntax tree | commitdiff
2016-05-20 gmungocJAL-2113 embl_mapping.xml and code updated for EMBL... tree | commitdiff
2016-05-17 tcofoegbuJAL-1270 Fixed anntatedPDBFileInputTest and updated... tree | commitdiff
2016-05-05 Jim ProcterJAL-192 patch for off-by one and pathological case... tree | commitdiff
2016-04-29 Jim ProcterJAL-192 need visible and actual sequence limits for... tree | commitdiff
2016-04-29 Jim ProcterJAL-192 fix bounds when no hidden regions, and when... tree | commitdiff
2016-04-29 Jim ProcterJAL-192 ‘efficiently’ locate visible bounds for a seque... tree | commitdiff
2016-04-23 Jim ProcterJAL-2075 findPosition for SeqCigar (with test) tree | commitdiff
2016-04-13 Jim ProcterMerge branch 'bug/JAL-2046_ds_sharing_features_broken... tree | commitdiff
2016-04-11 tcofoegbuJAL-2054 Renamed getStartEnd in AlignFrame to getVisibl... tree | commitdiff
2016-04-08 Jim ProcterJAL-2050 JAL-1722 new getSelectedRange() method to... tree | commitdiff
2016-04-05 Jim ProcterJAL-2046 RFC about cyclic dataset sequence references... tree | commitdiff
2016-04-05 Jim ProcterJAL-2046 revise test for ambiguous case tree | commitdiff
2016-04-05 Jim ProcterJAL-2046 ambiguous test for addSequenceFeature when... tree | commitdiff
2016-04-05 Jim ProcterJAL-2046 RFC on addSequenceFeature behaviour after... tree | commitdiff
2016-04-05 Jim ProcterJAL-2046 test behaviour of copy constructor in differen... tree | commitdiff
2016-04-04 Jim ProcterJAL-2046 basic test to make sure any derived sequence... tree | commitdiff
2016-04-04 Jim ProcterJAL-2001 faster getMax/getMin selected column, with... tree | commitdiff
2016-04-01 gmungocJAL-2046 fix for broken test for deriveSequence tree | commitdiff
2016-04-01 gmungocJAL-1705 reworked AlignmentUtils.makeCdsAlignment and... tree | commitdiff
2016-04-01 gmungocJAL-1705 tweak to MapList.toString for debugging tree | commitdiff
2016-04-01 gmungocJAL-2037 set DBRefEntry.version to "0" not "" in EMBL... tree | commitdiff
2016-03-21 gmungocJAL-2029 many-to-many EnsemblCDS-to-Uniprot mappings tree | commitdiff
2016-03-01 gmungocJAL-1705 align CDS and peptide products to transcripts tree | commitdiff
2016-02-12 gmungocJAL-1705 JAL-1686 stronger SequenceFeature.equals(... tree | commitdiff
2016-02-04 gmungocJAL-1705 additional tests, validation regexp tweaks... tree | commitdiff
2016-01-28 gmungocMerge branch 'develop' into JAL-1705_trialMerge tree | commitdiff
2016-01-21 gmungocJAL-1705 tests for amended toString tree | commitdiff
2016-01-11 gmungocJAL-1989 more unit tests and encapsulation for ColumnSe... tree | commitdiff
2016-01-05 gmungocJAL-653 updating 'align as' tests to match latest tweak... tree | commitdiff
2015-12-22 gmungocJAL-653 realise virtual mappings and align when adding... tree | commitdiff
2015-12-22 gmungocJAL-653 GFF new/refactored helper classes tree | commitdiff
2015-12-22 gmungocJAL-653 AlignedCodonFrame internal refactor, merge... tree | commitdiff
2015-12-03 gmungocJAL-653 code tidy / tests for 'realise gff mappings' tree | commitdiff
2015-12-03 gmungocJAL-653 handle reverse strand mapping in SearchResults... tree | commitdiff
2015-12-03 gmungocJAL-653 mappings always reside on the dataset alignment... tree | commitdiff
2015-11-30 gmungocJAL-653 (experimental) methods to resolve dummy to... tree | commitdiff
2015-11-30 gmungocJAL-1270 constructor test added tree | commitdiff
2015-11-30 gmungocJAL-653 getStrand javadoc/refactor/test tree | commitdiff
2015-11-30 gmungocJAL-1270 constructor tests added, compiler warnings... tree | commitdiff
2015-11-21 gmungocJAL-653 JAL-1968 FeaturesFile now handles Jalview or... tree | commitdiff
2015-10-15 Jim ProcterMerge branch 'develop' into features/JAL-653_JAL-1766_h... tree | commitdiff
2015-09-14 gmungocJAL-1880 handle sequence offsets properly when mapping... tree | commitdiff
2015-09-10 Jim ProcterJAL-1645 licencing for new files in test and utils tree | commitdiff
2015-09-10 Jim ProcterJAL-1645 source formatting and organise imports tree | commitdiff
2015-09-01 Jim ProcterJAL-1853 add test to Functional group tree | commitdiff
2015-09-01 Jim ProcterJAL-1853 test origin of gapChar bug in AlignView method tree | commitdiff
2015-08-17 gmungocJAL-1800 separated SearchResults.getCharacters() from... tree | commitdiff
2015-08-17 gmungocJAL-1800 SearchResults.equals() to allow smarter mouseo... tree | commitdiff
2015-07-23 tcofoegbuJAL-1805 modified test setup's so the are ran for group... tree | commitdiff
2015-07-08 gmungocJAL-1759 merge from develop tree | commitdiff
2015-07-07 tcofoegbuJAL-1805 test envirionment separation tree | commitdiff
2015-06-24 Jim ProcterJAL-1782 refactored JAL-1766 JAL-653 tests to TestNG tree | commitdiff
2015-06-23 Jim ProcterJAL-1782 JAL-1780 JAL-653 JAL-1892 update patched refac... tree | commitdiff
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