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Merge branch 'releases/Release_2_11_3_Branch'
[jalview.git] / src / jalview / datamodel / SequenceI.java
2023-11-03 James ProcterJAL-4090 JAL-1551 spotlessApply commit | commitdiff
2023-05-25 James ProcterJAL-2381 copy and paste sequence also copies contact... commit | commitdiff
2022-10-17 Jim ProcterJAL-2349 JAL-3855 Integrate pAE retrieval in StructureF... commit | commitdiff
2022-10-15 Jim ProcterJAL-2349 reusable contact map holder for SequenceI... commit | commitdiff
2022-03-08 Jim ProcterJAL-3438 spotless for 2.11.2.0 commit | commitdiff
2021-09-17 Jim ProcterJAL-2226 new method to search for annotation matching... commit | commitdiff
2019-03-13 gmungocMerge branch 'develop' into trialMerge commit | commitdiff
2019-03-05 gmungocMerge remote-tracking branch 'origin/bug/JAL-2839findWi... commit | commitdiff
2019-03-01 gmungocMerge branch 'feature/intervalStoreJ' into merge/JAL... commit | commitdiff
2019-02-28 gmungocJAL-3140 confine intervalstore imports to jalview.datam... commit | commitdiff
2019-02-04 hansonrrefactoring for DBMODList commit | commitdiff
2019-01-26 hansonrJalview.isJS() --> Platform.isJS(), DBRefEntry[] -... 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
2018-03-09 gmungocJAL-2839 Finder refactoring prior to fixing the defect commit | commitdiff
2018-03-07 Jim ProcterMerge branch 'releases/Release_2_10_4_Branch' into... commit | commitdiff
2018-01-22 kiramtJAL-2579 Moved locateVisibleStartOfSequence to Sequence... commit | commitdiff
2018-01-19 kiramtJAL-2759 Changes to getVisibleSequenceStrings after... commit | commitdiff
2017-11-22 gmungocJAL-2069 spike updated with latest (FeatureTypeSettings) commit | commitdiff
2017-11-22 gmungocMerge branch 'develop' into features/JAL-1793VCF commit | commitdiff
2017-11-21 kiramtMerge branch 'develop' into feature/JAL-2759 commit | commitdiff
2017-11-16 Jim ProcterMerge branch 'develop' into bug/JAL-2541cutRelocateFeatures commit | commitdiff
2017-11-16 Jim ProcterMerge branch 'bug/JAL-2829deleteCharsWithGaps' into... commit | commitdiff
2017-11-15 gmungocJAL-2835 spike updated with latest commit | commitdiff
2017-11-13 gmungocMerge branch 'develop' into features/JAL-1793VCF commit | commitdiff
2017-11-13 gmungocJAL-2176 removed unused Sequence.index commit | commitdiff
2017-11-13 gmungocMerge branch 'bug/JAL-2829deleteCharsWithGaps' into commit | commitdiff
2017-11-10 gmungocJAL-2562 updated findPosition javadoc to match behaviour commit | commitdiff
2017-11-07 Jim ProcterJAL-2822 JAL-2684 clarified javadoc commit | commitdiff
2017-10-20 gmungocPush 1793 latest to spike branch commit | commitdiff
2017-10-19 gmungocJAL-2755 add missing Javadoc commit | commitdiff
2017-10-03 gmungocJAL-2738 copy to spikes/mungo commit | commitdiff
2017-09-28 gmungocJAL-1796 GeneLociI as distinguished DBRefEntry commit | commitdiff
2017-09-26 gmungocJAL-2738 promote setGeneLoci to SequenceI! commit | commitdiff
2017-09-25 gmungocJAL-2738 getGeneLoci promoted to SequenceI commit | commitdiff
2017-09-21 kiramtJAL-2674 Rewrote propagateInsertions commit | commitdiff
2017-09-14 gmungocJAL-2541 working Cut/Undo with feature relocation commit | commitdiff
2017-09-14 gmungocJAL-2541 revised cut with features (work in progress) commit | commitdiff
2017-06-22 gmungocJAL-2481 JAL-2593 JAL-2526 further optimisation of... 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
2017-06-09 gmungocJAL-2480 tidy javadoc 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 SequenceI.getInsertionsAsBits for convenient... commit | commitdiff
2017-06-01 gmungocJAL-2526 zapCursor() renamed sequenceChanged() 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 gmungocMerge branch 'develop' into features/JAL-2446NCList commit | commitdiff
2017-05-29 gmungocJAL-2526 Sequence.findPositions to get residue position... commit | commitdiff
2017-05-27 Jim ProcterJAL-2562 javadoc TODO commit | commitdiff
2017-05-25 gmungocJAL-2557 removal of Sequence.sequenceFeatures commit | commitdiff
2017-04-27 gmungocJAL-2480 don't allow null type in SequenceFeature commit | commitdiff
2017-04-26 gmungocJAL-2490 findFeaturesAtRes with performant feature... commit | commitdiff
2017-04-18 gmungocJAL-2480 SequenceFeaturesI encapsulates features api commit | commitdiff
2017-03-21 gmungocMerge branch 'develop' into features/JAL-2446NCList features/JAL-653_JAL-1766_htslib_refseqsupport commit | commitdiff
2017-03-20 gmungocJAL-2446 FeatureStore with NCList - work in progress commit | commitdiff
2016-11-14 gmungocJAL-2296 report whether SequenceFeature actually added... 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 source formatting commit | commitdiff
2016-10-03 gmungocJAL-2110 additional tests for setDatasetSequence, javad... commit | commitdiff
2016-09-28 Jim ProcterJAL-2210 instrument setDBRefs to call ensurePrimaries commit | commitdiff
2016-09-16 gmungocJAL-2157 JAL-1803 refactored Sequence.updatePDBIds... commit | commitdiff
2016-09-07 Jim ProcterJAL-1803 first pass at updatePDBEntry commit | commitdiff
2016-08-24 Jim ProcterJAL-2106 removed setSourceDBRef, refactor getSourceDBRe... commit | commitdiff
2016-07-12 Jim ProcterJAL-2110 javadoc commit | commitdiff
2016-06-23 Jim ProcterJAL-2110 SequenceI.isProtein method commit | commitdiff
2016-05-17 tcofoegbuJAL-2106 JAL-1926 updated source doc for set/getSourceDBRef commit | commitdiff
2016-04-05 Jim ProcterJAL-2046 explicit contract for get/set SequenceFeatures... commit | commitdiff
2015-11-05 tcofoegbuJAL-1942 JAL-1479 refactored SequenceI.getDBRef/Sequenc... commit | commitdiff
2015-10-16 Jim ProcterJAL-1925 update source version in license Release_2_9_0b2 commit | commitdiff
2015-10-15 tcofoegbuJAL-1479 refactored SequenceI interface - changed getDB... commit | commitdiff
2015-10-14 tcofoegbuJAL-1926 added supporting model changes to enable savin... 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 source formatting and organise imports commit | commitdiff
2015-08-07 tcofoegbuJAL-1824 updated caching procedure for pdb entries... commit | commitdiff
2015-06-12 tcofoegbuJAL-1641 refactor commit | commitdiff
2015-06-05 tcofoegbuJAL-1760 JAL-1641 Serialisation of Hidden Seqs and... commit | commitdiff
2015-06-05 Jim ProcterJAL-653 refactor sequence interface to separate concret... commit | commitdiff
2015-05-12 gmungocJAL-1712 fixes/tests for Castor binding and 'show flank... commit | commitdiff
2015-04-13 gmungocJAL-1693 make exon alignment for get-xref splitframe... commit | commitdiff
2015-03-26 gmungocMerge develop to Release_2_8_3_Branch commit | commitdiff
2015-03-06 Jim ProcterJAL-1683 replace year/version strings with tokens in... commit | commitdiff
2015-03-06 Jim ProcterMerge commit 'ab43013b7e357b84b4abade0dba949668dfb2a0e... commit | commitdiff
2015-02-12 Jim Procterjavadoc commit | commitdiff
2015-01-18 Jim ProcterJAL-1628 new method to get a list of insertions in... commit | commitdiff
2015-01-18 Jim ProcterJAL-1372 JAL-1114 JAL-1628 tidy sequenceI/sequence commit | commitdiff
2014-12-22 Jim ProcterMerge: 497958b 68dcaa7 commit | commitdiff
2014-12-15 Jim ProcterJAL-1620 version bump and release notes commit | commitdiff
2014-11-28 gmungocJAL-1610 check reference annotations against alignment... commit | commitdiff
2014-11-12 Jim Procterjavadoc commit | commitdiff
2014-10-21 Jim ProcterJAL-674 JAL-1551 imports dropped during merge commit | commitdiff
2014-10-21 Jim ProcterMerge branch 'features/JAL-1264_showHideAnnotations... commit | commitdiff
2014-10-21 Jim ProcterJAL-1551 crlf changes commit | commitdiff
2014-10-15 Jim ProcterJAL-1551 crlf changes due to checkout with text=auto commit | commitdiff
2014-10-15 Jim ProcterJAL-1551 crlf changes due to checkout with text=auto commit | commitdiff
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