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JAL-2089 patch broken merge to master for Release 2.10.0b1
[jalview.git] / test / jalview / datamodel /
2016-10-25 Jim ProcterJAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch tree | commitdiff
2016-10-24 Jim ProcterMerge branch 'releases/Release_2_10_0_Branch' tree | commitdiff
2016-10-06 gmungocMerge branch 'develop' into task/JAL-2196pdbeProperties tree | commitdiff
2016-10-06 Jim ProcterJAL-2089 Merge branch releases/Release_2_10_Branch... tree | commitdiff
2016-10-05 Jim ProcterJAL-2189 apply license tree | commitdiff
2016-10-05 Jim ProcterJAL-2189 format tests tree | commitdiff
2016-10-05 gmungocMerge branch 'develop' into task/JAL-2196pdbeProperties tree | commitdiff
2016-10-05 Jim ProcterRevert "JAL-2245 Castor mapping and code changes for... tree | commitdiff
2016-10-04 gmungocMerge branch 'bug/JAL-2245enaXmlChange' into develop tree | commitdiff
2016-10-04 gmungocJAL-2245 Castor mapping and code changes for change... bug/JAL-2245enaXmlChange tree | commitdiff
2016-10-04 gmungocJAL-2232 added test that failed before last fix, passes... tree | commitdiff
2016-10-03 gmungocJAL-2110 additional tests for setDatasetSequence, javad... tree | commitdiff
2016-09-28 Jim ProcterJAL-2210 JAL-2235 fix deriveSequence test for tightened... tree | commitdiff
2016-09-28 Jim ProcterJAL-2235 implicit test to check that exception is raise... tree | commitdiff
2016-09-19 gmungocJAL-2172 test and code updates for readonly selection... tree | commitdiff
2016-09-16 gmungocJAL-2157 JAL-1803 refactored Sequence.updatePDBIds... tree | commitdiff
2016-09-13 gmungocJAL-1803 tests added for PDBEntry.Type tree | commitdiff
2016-09-13 gmungocJAL-2196 refactor PDBEntry.getProperty,setProperty... tree | commitdiff
2016-09-13 gmungocJAL-1803 extracted class ChainId to jalview.util.CaseIn... tree | commitdiff
2016-09-06 gmungocJAL-2106 DBRefEntry.isPrimary() renamed isPrimaryCandid... tree | commitdiff
2016-09-05 gmungocJAL-2106 increased coverage for testGetPrimaryDbRefs tree | commitdiff
2016-09-05 gmungocJAL-2106 corrections to DBRefEntry.isPrimary code and... tree | commitdiff
2016-09-04 Jim ProcterJAL-1803 JAL-2106 patch tests for tighter PDB Primary... tree | commitdiff
2016-08-30 Jim ProcterJAL-2154 javadoc, fix underloaded version of assertData... tree | commitdiff
2016-08-30 Jim ProcterMerge branch 'develop' into merge/develop_bug/JAL-2154p... tree | commitdiff
2016-08-29 Jim ProcterJAL-2154 Optional message parameter for assertDatasetNo... tree | commitdiff
2016-08-29 Jim ProcterJAL-2154 new assertDatasetIsNormalised to trivially... tree | commitdiff
2016-08-29 Jim ProcterJAL-2154 additional test that removing a duplicate... tree | commitdiff
2016-08-26 gmungocMerge branch 'develop' into bug/JAL-1841rnaSecStr tree | commitdiff
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 gmungocMerge branch 'develop' into bug/JAL-1841rnaSecStr 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 gmungocMerge branch 'develop' into bug/JAL-1841rnaSecStr tree | commitdiff
2016-08-16 gmungocJAL-2172 unit test added tree | commitdiff
2016-08-16 gmungocJAL-2171 matching bracket default character for rna... 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
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