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Merge branch 'releases/Release_2_11_3_Branch'
[jalview.git] / src / jalview / commands / EditCommand.java
2023-11-03 James ProcterJAL-4090 JAL-1551 spotlessApply commit | commitdiff
2023-08-10 Ben SoaresJAL-629 Change all stdout and stderr output to use... 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
2019-07-16 gmungocJAL-3210 Merge branch 'develop' into trialMerge commit | commitdiff
2019-06-18 Jim ProcterMerge branch 'bug/JAL-2830_editManglesDatasetSequence... commit | commitdiff
2019-03-13 gmungocMerge branch 'develop' into trialMerge commit | commitdiff
2019-03-01 gmungocMerge branch 'feature/JAL-1244stretchStatusMsg' into... commit | commitdiff
2019-03-01 gmungocJAL-3140 update for change to SequenceI api commit | commitdiff
2019-01-17 gmungocMerge branch 'develop' into Jalview-BH/JAL-3026-JAL... commit | commitdiff
2018-12-17 Jim ProcterJAL-2830 reinstate toUppercase for new dataset sequence... commit | commitdiff
2018-10-05 gmungocJAL-1244 improved status message for insert/delete gap commit | commitdiff
2018-06-22 gmungocJAL-3032 avoid assignments on the same line as synchronized commit | commitdiff
2018-01-18 gmungocJAL-2830 removed toUpperCase() from edited dataset... commit | commitdiff
2018-01-18 gmungocJAL-2541 cutWithFeatures_exhaustive test including... commit | commitdiff
2017-11-16 Jim ProcterJAL-2822 rejig new dataset after edit computation so... commit | commitdiff
2017-11-16 Jim ProcterJAL-2822 stash start/end before setSequence (which... commit | commitdiff
2017-11-13 gmungocJAL-2830 failing test added for Replace commit | commitdiff
2017-11-13 gmungocMerge branch 'bug/JAL-2829deleteCharsWithGaps' into commit | commitdiff
2017-11-13 gmungocJAL-2541 add new dataset sequence to alignment dataset commit | commitdiff
2017-11-07 Jim ProcterJAL-2684 JAL-2822 avoid out of bounds exception if... commit | commitdiff
2017-11-07 Jim ProcterJAL-2822 JAL-2684 only create dataset seq for an edit... commit | commitdiff
2017-10-24 Jim ProcterJAL-2541 remove second unnecessary if commit | commitdiff
2017-10-24 Jim ProcterJAL-2541 only need to shift features for ‘internal... commit | commitdiff
2017-10-24 Jim ProcterJAL-2541 Cut ops always stash the old dataset sequence... commit | commitdiff
2017-10-24 Jim ProcterJAL-2541 don’t need to trash the sequence features... commit | commitdiff
2017-10-03 gmungocJAL-2738 copy to spikes/mungo commit | commitdiff
2017-09-14 gmungocJAL-2541 test with seq start > 1 (and fix Undo bug... commit | commitdiff
2017-09-14 gmungocJAL-2541 it works!! it works!!! commit | commitdiff
2017-09-14 gmungocJAL-2541 clean unit test of cut/undo (ungapped sequence) commit | commitdiff
2017-09-14 gmungocJAL-2541 save/Undo only 'diffs' for features with Cut... commit | commitdiff
2017-09-14 gmungocJAL-2541 adjust end of contact feature spanning cut... commit | commitdiff
2017-09-14 gmungocJAL-2541 clearer comments (redo of lost commit f7967ad) 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
2017-08-21 gmungocMerge branch 'develop' into features/JAL-2446NCList features/JAL-2446NCList commit | commitdiff
2017-08-16 Jim ProcterJAL-2418 source formatting commit | commitdiff
2017-06-09 gmungocJAL-2446 merged to spike branch commit | commitdiff
2017-06-01 gmungocJAL-2526 zapCursor() renamed sequenceChanged() commit | commitdiff
2017-05-30 gmungocJAL-2526 first draft of findIndex/findPosition with... 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 gmungocMerge branch 'bug/JAL-2541cutWithFeatures' into feature... commit | commitdiff
2017-05-24 gmungocJAL-2505 delete and readd modified feature after Cut... commit | commitdiff
2016-10-25 Jim ProcterJAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch 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
2015-09-22 Jim ProcterMerge branch 'develop' into Release_2_9_0b1_Branch commit | commitdiff
2015-09-14 gmungocJAL-1880 handle sequence offsets properly when mapping... 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
2015-03-26 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
2014-12-22 Jim ProcterMerge: 497958b 68dcaa7 commit | commitdiff
2014-12-15 Jim ProcterJAL-1620 version bump and release notes commit | commitdiff
2014-11-25 gmungocJFAL-1594 fix Undo bug; enum EditCommand.Action; basic... commit | commitdiff
2014-10-30 Charles OfoegbuJAL-353 updated patch for undo successive remove redund... commit | commitdiff
2014-10-29 Charles OfoegbuJAL-353 updated patch for undo successive remove redund... commit | commitdiff
2014-10-28 Charles OfoegbuJAL-353 undo for successive removal of redundant sequen... commit | commitdiff
2014-06-06 Jim ProcterJAL-1517 fix copyright for 2.8.2 commit | commitdiff
2014-06-05 Jim ProcterJAL-1517 update copyright to version 2.8.2 commit | commitdiff
2014-05-22 Jim ProcterJAL-1503 update version in GPL header commit | commitdiff
2014-01-29 Jim ProcterJAL-1432 updated copyright notices commit | commitdiff
2012-10-22 jprocterJalview 2.8 Source Header commit | commitdiff
2012-10-03 jprocterformatting commit | commitdiff
2012-08-05 jprocterJAL-1131 - todos for later versions commit | commitdiff
2012-08-05 jprocterJAL-1131 ensure new dataset sequence is created if... commit | commitdiff
2012-06-13 jprocterjavatidy commit | commitdiff
2012-06-12 jprocterJAL-1115 refactor base collection for Alignment from... commit | commitdiff
2011-10-10 jprocterupdate author list in license for (JAL-826) commit | commitdiff
2011-10-04 jprocterMerge remote-tracking branch 'remotes/origin/2_5_1_rna_... commit | commitdiff
2011-09-27 jprocterapply version 2.7 copyright commit | commitdiff
2011-07-25 janengelhardtJAL-842; toy example to insert nucleotides in sequences... commit | commitdiff
2010-09-23 jprocterapply jalview code style commit | commitdiff
2010-09-23 jprocterJalview 2.6 source licence commit | commitdiff
2010-04-30 jprocterjalview 2.5 release banner commit | commitdiff
2009-06-08 jprocterapply gpl development license commit | commitdiff
2008-09-04 jproctermerge from 2_4_Release branch commit | commitdiff
2008-08-26 jprocterbugfix todo for the 'edit sequence' command commit | commitdiff
2007-06-17 jprocterrecovery of identical dataset sequence object on undo... commit | commitdiff
2007-05-04 amwaterhouseAnnotations do not extend when full alignment is adjusted commit | commitdiff
2007-05-02 jprocterrefactored do and undo() method to take array of alignm... commit | commitdiff
2007-04-27 jprocterbugfix for deleted annotation undo commit | commitdiff
2007-04-25 jprocterAlignmentAnnotation: added annotation score attribute... commit | commitdiff
2007-04-19 jprocterensure edit command gapChar is updated and used for... commit | commitdiff
2007-04-19 amwaterhouseREPLACE added to edit command commit | commitdiff
2007-04-18 amwaterhousePad gaps when annotation editing commit | commitdiff
2007-04-17 jprocterpaste/cut now adds or removes associated AlignmentAnnot... commit | commitdiff
2007-02-07 amwaterhouseFormatting commit | commitdiff
2007-02-05 amwaterhouseAlignment editing columns 0 and 1 fixed commit | commitdiff
2007-02-05 amwaterhouseFixed bug in trim right annotation adjust commit | commitdiff
2007-02-05 amwaterhouseFixed bug in trim right annotation adjust commit | commitdiff
2007-02-02 amwaterhousecheck annotation size when cutting commit | commitdiff
2007-01-31 amwaterhouseAdjust features when cutting and pasting commit | commitdiff
2007-01-26 amwaterhouseAdjusts annotations for sequence edits commit | commitdiff
2007-01-25 amwaterhouseAnnotation adjustment moved to EditCommand commit | commitdiff
2007-01-24 amwaterhouseThis constructor is never called commit | commitdiff
2006-12-05 amwaterhouseSequence is char [] commit | commitdiff
2006-11-30 amwaterhousechar array replaces string for cuts commit | commitdiff
2006-11-21 amwaterhouseUndo cut from end of alignment, padding on commit | commitdiff
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