create method to test HMM model as string
[jalview.git] / test / jalview / datamodel /
2016-08-24 Jim ProcterJAL-2106 DBRefEntry.isPrimary() minimal test & implemen...
2016-08-23 Jim ProcterMerge branch 'develop' into bug/JAL-2154projectMappings
2016-08-23 gmungocJAL-2174 markColumns() refactored inside ColumnSelection
2016-08-22 Jim ProcterJAL-2154 always check dataset sequence for sequence...
2016-08-22 Jim ProcterJAL-2154 patch verifyAlignment so it fails for duplicat...
2016-08-22 Jim ProcterJAL-2154 tidy assert messages and fix test to verify...
2016-08-22 Jim ProcterJAL-2154 test that verifyAlignment fails for duplicate...
2016-08-19 Jim ProcterJAL-2154 testNG like assertAlignmentDatasetRefs static...
2016-08-18 gmungocMerge branch 'develop' into bug/JAL-1841rnaSecStr
2016-08-18 gmungocJAL-2001 return copy of selection in getSelected()
2016-08-16 Jim ProcterJAL-2154 verify sequenceI/dataset refs for codonmappings
2016-08-16 Jim ProcterJAL-2154 check alignment isn’t null before validating
2016-08-16 gmungocMerge branch 'develop' into bug/JAL-1841rnaSecStr
2016-08-16 gmungocJAL-2172 unit test added
2016-08-16 gmungocJAL-2171 matching bracket default character for rna...
2016-08-16 Jim ProcterJAL-2154 new assert to check reference integrity for...
2016-08-04 Jim ProcterJAL-2154 make sure all sequences referenced via DBRefEn...
2016-07-18 Jim ProcterJAL-2110 JAL-2145 fix out of date test for 2baee069f9ed...
2016-07-11 gmungocfile format enum wip changes
2016-07-06 gmungocJAL-2110 AlignmentUtils.alignCdsAsProtein implemented
2016-07-06 gmungocJAL-2110 add 'mapFromId' to Mapping (for e.g. EMBL...
2016-07-06 gmungocJAL-2110 fixes and tests for adding dbrefs to EMBL...
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...
2016-06-30 gmungocJAL-2110 fixes and tests for synthesized EMBLCDSPROTEIN...
2016-06-29 gmungocMerge branch 'develop' into features/JAL-2110_crossRefD...
2016-06-27 gmungocJAL-1270 unit tests for HiddenSequences
2016-06-23 Jim ProcterJAL-2110 SequenceI.isProtein method
2016-06-21 Jim ProcterMerge branch 'features/JAL-2110_crossRefDuplications...
2016-06-21 Jim ProcterJAL-1270 ensure before/after clauses have at least...
2016-06-21 gmungocJAL-2113 tidy up canonicalisation of Uniprot xrefs...
2016-06-20 Jim ProcterJAL-2110 copy alcodonframes only if copy constructor...
2016-06-19 Jim ProcterJAL-2110 JAL-2131 JAL-1765 remove reference to jalview...
2016-06-16 gmungocJAL-2112 optimisation of EMBL CDS parsing
2016-06-14 gmungocJAL-1686 JAL-2110 equals and/or hashCode method added
2016-05-31 gmungocJAL-2110 refactor + tests to allow a dbref version...
2016-05-31 Jim ProcterMerge branch 'develop' into features/JAL-2113_emblXml1.2
2016-05-30 gmungocJAL-1989 equals method strengthened to fully match...
2016-05-27 gmungocJAL-1989 added hashCode and equals, renamed field to...
2016-05-26 gmungocJAL-2113 additions to embl_mapping.xml / data models... features/JAL-2113_emblXml1.2
2016-05-23 gmungocJAL-2113 remove spaces in sequence from unmarshalling...
2016-05-23 gmungocJAL-2114 save 'raw' ENA location as a sequence feature...
2016-05-20 gmungocJAL-2113 corrected test to use valid location syntax
2016-05-20 gmungocJAL-2113 embl_mapping.xml and code updated for EMBL...
2016-05-17 tcofoegbuJAL-1270 Fixed anntatedPDBFileInputTest and updated...
2016-05-05 Jim ProcterJAL-192 patch for off-by one and pathological case...
2016-04-29 Jim ProcterJAL-192 need visible and actual sequence limits for...
2016-04-29 Jim ProcterJAL-192 fix bounds when no hidden regions, and when...
2016-04-29 Jim ProcterJAL-192 ‘efficiently’ locate visible bounds for a seque...
2016-04-23 Jim ProcterJAL-2075 findPosition for SeqCigar (with test)
2016-04-13 Jim ProcterMerge branch 'bug/JAL-2046_ds_sharing_features_broken...
2016-04-11 tcofoegbuJAL-2054 Renamed getStartEnd in AlignFrame to getVisibl...
2016-04-08 Jim ProcterJAL-2050 JAL-1722 new getSelectedRange() method to...
2016-04-05 Jim ProcterJAL-2046 RFC about cyclic dataset sequence references...
2016-04-05 Jim ProcterJAL-2046 revise test for ambiguous case
2016-04-05 Jim ProcterJAL-2046 ambiguous test for addSequenceFeature when...
2016-04-05 Jim ProcterJAL-2046 RFC on addSequenceFeature behaviour after...
2016-04-05 Jim ProcterJAL-2046 test behaviour of copy constructor in differen...
2016-04-04 Jim ProcterJAL-2046 basic test to make sure any derived sequence...
2016-04-04 Jim ProcterJAL-2001 faster getMax/getMin selected column, with...
2016-04-01 gmungocJAL-2046 fix for broken test for deriveSequence
2016-04-01 gmungocJAL-1705 reworked AlignmentUtils.makeCdsAlignment and...
2016-04-01 gmungocJAL-1705 tweak to MapList.toString for debugging
2016-04-01 gmungocJAL-2037 set DBRefEntry.version to "0" not "" in EMBL...
2016-03-21 gmungocJAL-2029 many-to-many EnsemblCDS-to-Uniprot mappings
2016-03-01 gmungocJAL-1705 align CDS and peptide products to transcripts
2016-02-12 gmungocJAL-1705 JAL-1686 stronger SequenceFeature.equals(...
2016-02-04 gmungocJAL-1705 additional tests, validation regexp tweaks...
2016-01-28 gmungocMerge branch 'develop' into JAL-1705_trialMerge
2016-01-21 gmungocJAL-1705 tests for amended toString
2016-01-11 gmungocJAL-1989 more unit tests and encapsulation for ColumnSe...
2016-01-05 gmungocJAL-653 updating 'align as' tests to match latest tweak...
2015-12-22 gmungocJAL-653 realise virtual mappings and align when adding...
2015-12-22 gmungocJAL-653 GFF new/refactored helper classes
2015-12-22 gmungocJAL-653 AlignedCodonFrame internal refactor, merge...
2015-12-03 gmungocJAL-653 code tidy / tests for 'realise gff mappings'
2015-12-03 gmungocJAL-653 handle reverse strand mapping in SearchResults...
2015-12-03 gmungocJAL-653 mappings always reside on the dataset alignment...
2015-11-30 gmungocJAL-653 (experimental) methods to resolve dummy to...
2015-11-30 gmungocJAL-1270 constructor test added
2015-11-30 gmungocJAL-653 getStrand javadoc/refactor/test
2015-11-30 gmungocJAL-1270 constructor tests added, compiler warnings...
2015-11-21 gmungocJAL-653 JAL-1968 FeaturesFile now handles Jalview or...
2015-10-16 Jim ProcterJAL-1925 update source version in license Release_2_9_0b2
2015-10-15 Jim ProcterMerge branch 'develop' into features/JAL-653_JAL-1766_h...
2015-10-08 Jim ProcterJAL-1894 update year/version in copyright
2015-09-22 Jim ProcterMerge branch 'develop' into Release_2_9_0b1_Branch
2015-09-14 gmungocJAL-1880 handle sequence offsets properly when mapping...
2015-09-10 Jim ProcterJAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin...
2015-09-10 Jim ProcterJAL-1645 licencing for new files in test and utils
2015-09-10 Jim ProcterJAL-1645 source formatting and organise imports
2015-09-01 Jim ProcterJAL-1853 add test to Functional group
2015-09-01 Jim ProcterJAL-1853 test origin of gapChar bug in AlignView method
2015-08-17 gmungocJAL-1800 separated SearchResults.getCharacters() from...
2015-08-17 gmungocJAL-1800 SearchResults.equals() to allow smarter mouseo...
2015-07-23 tcofoegbuJAL-1805 modified test setup's so the are ran for group...
2015-07-08 gmungocJAL-1759 merge from develop
2015-07-07 tcofoegbuJAL-1805 test envirionment separation
2015-06-24 Jim ProcterJAL-1782 refactored JAL-1766 JAL-653 tests to TestNG
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