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Merge branch 'releases/Release_2_11_3_Branch'
[jalview.git] / test / jalview / datamodel / SequenceTest.java
2023-11-03 James ProcterJAL-4090 JAL-1551 spotlessApply commit | commitdiff
2023-07-07 James ProcterJAL-4221 update description when transferring annotatio... commit | commitdiff
2023-05-25 James ProcterJAL-2381 copy and paste sequence also copies contact... commit | commitdiff
2022-11-14 Ben SoaresJAL-4019 Put original test back commit | commitdiff
2022-11-13 Ben SoaresJAL-4019 Added tests for new Nucleotide sequence detection commit | commitdiff
2022-03-08 Jim ProcterJAL-3438 spotless for 2.11.2.0 commit | commitdiff
2021-09-21 Ben SoaresJAL-3691 automatic insertion of Locale.ROOT to toUpperC... commit | commitdiff
2021-09-21 Jim ProcterJAL-3829 ignore the fake ID generated when a PDB format... commit | commitdiff
2021-09-17 Jim ProcterJAL-2226 new method to search for annotation matching... commit | commitdiff
2021-09-16 Jim ProcterJAL-3794 new test for recognition of protein or DNA... commit | commitdiff
2021-09-03 Jim ProcterJAL-3863 promote non-canonical version of dbref to... commit | commitdiff
2021-09-03 Jim ProcterJAL-3863 passing test to verify a uniprot accession... commit | commitdiff
2020-03-30 gmungocMerge branch 'develop' into Jalview-JS/develop commit | commitdiff
2019-06-10 gmungocJAL-3296 ensure sequence cursor reset when sequence... bug/JAL-3296changeStartInvalidateCursor commit | commitdiff
2019-03-13 gmungocMerge branch 'develop' into trialMerge commit | commitdiff
2019-03-01 gmungocMerge branch 'feature/intervalStoreJ' into merge/JAL... commit | commitdiff
2019-03-01 gmungocJAL-3140 reduced coupling to intervalstore.jar feature/intervalStoreJ commit | commitdiff
2019-02-04 hansonrTest suite try/catch reverted commit | commitdiff
2019-01-29 hansonrtest package fix for List<DBRefEntry> DBrefs (untested) commit | commitdiff
2018-12-17 Jim ProcterMerge branch 'develop' into bug/JAL-2541cutRelocateFeatures commit | commitdiff
2018-11-29 gmungocJAL-3140 NCList now via IntervalStore library commit | commitdiff
2018-05-11 gmungocJAL-2986 additional asserts for SequenceCursor updates commit | commitdiff
2018-05-11 gmungocJAL-2986 failing test added commit | commitdiff
2018-01-22 kiramtJAL-2579 Moved locateVisibleStartOfSequence to Sequence... commit | commitdiff
2017-11-22 gmungocJAL-2069 spike updated with latest (FeatureTypeSettings) commit | commitdiff
2017-11-21 kiramtMerge branch 'develop' into feature/JAL-2759 commit | commitdiff
2017-11-13 gmungocMerge branch 'bug/JAL-2829deleteCharsWithGaps' into commit | commitdiff
2017-11-10 gmungocJAL-2829 fixes and unit tests bug/JAL-2829deleteCharsWithGaps commit | commitdiff
2017-11-10 gmungocJAL-2829 unit tests for failing cases commit | commitdiff
2017-11-08 kiramtMerge branch 'develop' into feature/JAL-2759 commit | commitdiff
2017-11-06 Jim ProcterMerge branch 'bug/JAL-2541cutRelocateFeatures' into... commit | commitdiff
2017-10-24 gmungocJAL-2738 update spike branch with latest commit | commitdiff
2017-10-23 Jim ProcterMerge branch 'bug/JAL-2682parseId' into develop commit | commitdiff
2017-10-11 gmungocJAL-2772 check array bounds for sequence access bug/JAL-2772pdbArrayBounds commit | commitdiff
2017-10-03 gmungocJAL-2738 copy to spikes/mungo commit | commitdiff
2017-09-21 kiramtJAL-2674 unit test for gapBitSet commit | commitdiff
2017-09-14 gmungocJAL-2541 length check in deleteChars (redoing lost... commit | commitdiff
2017-09-14 gmungocJAL-2541 working Cut/Undo with feature relocation commit | commitdiff
2017-08-23 gmungocJAL-2481 a smidgin more test coverage of findFeatures commit | commitdiff
2017-08-23 gmungocJAL-2682 non-regex sequence id parsing, and tests added commit | commitdiff
2017-06-24 gmungocJAL-2547 fix case of gap followed by enclosing contact... commit | commitdiff
2017-06-22 gmungocJAL-2481 JAL-2593 JAL-2526 further optimisation of... commit | commitdiff
2017-06-21 gmungocJAL-2480 tidy generic initialisations, SequenceFeatures... commit | commitdiff
2017-06-14 gmungocJAL-2598 Sequence.getSequence return a copy of the... commit | commitdiff
2017-06-09 gmungocJAL-2446 merged to spike branch commit | commitdiff
2017-06-08 gmungocJAL-2526 correct boundary conditions for sequence left... commit | commitdiff
2017-06-08 gmungocJAL-2526 cache first/last residue column positions... commit | commitdiff
2017-06-05 gmungocMerge branch 'features/JAL-2526sequenceCursor' into commit | commitdiff
2017-06-05 gmungocMerge branch 'features/JAL-2446NCList' into commit | commitdiff
2017-06-05 gmungocMerge branch 'features/JAL-2446NCList' into features/JAL-2526sequenceCursor commit | commitdiff
2017-06-05 gmungocMerge branch 'develop' into features/JAL-2446NCList commit | commitdiff
2017-06-04 Jim ProcterJAL-2291 fixed broken asserts for SequenceI.getInsertio... commit | commitdiff
2017-06-04 Jim ProcterJAL-2291 SequenceI.getInsertionsAsBits for convenient... commit | commitdiff
2017-06-02 gmungocJAL-2526 additional tests for findPosition with/without... commit | commitdiff
2017-06-01 gmungocJAL-2754 Sequence.findFeatures(fromCol, toCol) features/JAL-2754findFeaturesByColumn commit | commitdiff
2017-05-30 gmungocJAL-2526 first draft of findIndex/findPosition with... commit | commitdiff
2017-05-29 gmungocJAL-2526 Sequence.findPositions to get residue position... commit | commitdiff
2017-05-25 gmungocJAL-2557 removal of Sequence.sequenceFeatures commit | commitdiff
2017-05-25 gmungocJAL-2050 make SequenceFeature.score final, adjust const... commit | commitdiff
2017-05-24 gmungocJAL-2505 make SequenceFeature type, begin, end, feature... commit | commitdiff
2017-05-24 gmungocMerge branch 'bug/JAL-2541cutWithFeatures' into feature... commit | commitdiff
2017-05-18 gmungocJAL-2541 fix to initSeqFrom (and minor code tidy);... commit | commitdiff
2017-05-09 gmungocJAL-2480 include sequenceFeatureStore in createDatasetS... commit | commitdiff
2017-04-27 gmungocJAL-2480 don't allow null type in SequenceFeature commit | commitdiff
2016-11-24 tcofoegbuJAL-2326 added setup method for JvOptionPane in all... features/JAL-2326_JOptionPane-refactoring commit | commitdiff
2016-10-25 Jim ProcterJAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch commit | commitdiff
2016-10-06 Jim ProcterJAL-2089 Merge branch releases/Release_2_10_Branch... commit | commitdiff
2016-10-05 Jim ProcterJAL-2189 format tests commit | commitdiff
2016-10-03 gmungocJAL-2110 additional tests for setDatasetSequence, javad... commit | commitdiff
2016-09-28 Jim ProcterJAL-2210 JAL-2235 fix deriveSequence test for tightened... commit | commitdiff
2016-09-28 Jim ProcterJAL-2235 implicit test to check that exception is raise... commit | commitdiff
2016-09-16 gmungocJAL-2157 JAL-1803 refactored Sequence.updatePDBIds... commit | commitdiff
2016-09-05 gmungocJAL-2106 increased coverage for testGetPrimaryDbRefs commit | commitdiff
2016-09-04 Jim ProcterJAL-1803 JAL-2106 patch tests for tighter PDB Primary... commit | commitdiff
2016-08-25 Jim ProcterJAL-2106 tighten DBRefEntry primary seq test for PDB commit | commitdiff
2016-08-25 Jim ProcterMerge branch 'develop' into refactor/JAL-2106_sourceDbR... commit | commitdiff
2016-08-24 Jim ProcterJAL-2106 removed setSourceDBRef, refactor getSourceDBRe... commit | commitdiff
2016-08-24 Jim ProcterJAL-2106 rejig test to minimally verify patch that... commit | commitdiff
2016-08-23 gmungocJAL-2174 markColumns() refactored inside ColumnSelection commit | commitdiff
2016-07-04 gmungocJAL-2110 added another test case (should fail but doesn't) commit | commitdiff
2016-07-04 gmungocRevert "JAL-2110 use shared alignment dataset when... commit | commitdiff
2016-07-04 gmungocJAL-2110 use shared alignment dataset when copying... commit | commitdiff
2016-06-23 Jim ProcterJAL-2110 SequenceI.isProtein method commit | commitdiff
2016-05-31 gmungocJAL-2110 refactor + tests to allow a dbref version... commit | commitdiff
2016-05-17 tcofoegbuJAL-1270 Fixed anntatedPDBFileInputTest and updated... commit | commitdiff
2016-04-05 Jim ProcterJAL-2046 RFC about cyclic dataset sequence references... commit | commitdiff
2016-04-05 Jim ProcterJAL-2046 revise test for ambiguous case commit | commitdiff
2016-04-05 Jim ProcterJAL-2046 ambiguous test for addSequenceFeature when... commit | commitdiff
2016-04-05 Jim ProcterJAL-2046 RFC on addSequenceFeature behaviour after... commit | commitdiff
2016-04-05 Jim ProcterJAL-2046 test behaviour of copy constructor in differen... commit | commitdiff
2016-04-04 Jim ProcterJAL-2046 basic test to make sure any derived sequence... commit | commitdiff
2016-04-01 gmungocJAL-2046 fix for broken test for deriveSequence commit | commitdiff
2016-03-01 gmungocJAL-1705 align CDS and peptide products to transcripts commit | commitdiff
2016-02-04 gmungocJAL-1705 additional tests, validation regexp tweaks... commit | commitdiff
2016-01-28 gmungocMerge branch 'develop' into JAL-1705_trialMerge commit | commitdiff
2015-11-30 gmungocJAL-1270 constructor tests added, compiler warnings... commit | commitdiff
2015-10-16 Jim ProcterJAL-1925 update source version in license Release_2_9_0b2 commit | commitdiff
2015-10-08 Jim ProcterJAL-1894 update year/version in copyright commit | commitdiff
2015-09-10 Jim ProcterJAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin... commit | commitdiff
2015-09-10 Jim ProcterJAL-1645 licencing for new files in test and utils commit | commitdiff
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