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[jalview.git] / src / jalview / gui / Jalview2XML.java

2016-05-13	gmungoc	JAL-2105 capture Ensembl data version, check REST versi...	blob \| commitdiff
2016-05-09	gmungoc	JAL-2018 export graduated feature colours correctly	blob \| commitdiff \| diff to current
2016-03-07	gmungoc	JAL-2023 CDS sequences added to / share alignment dataset	blob \| commitdiff \| diff to current
2016-01-28	gmungoc	Merge branch 'develop' into JAL-1705_trialMerge	blob \| commitdiff \| diff to current
2015-12-22	gmungoc	JAL-653 hold AlignedCodonFrame collections as list...	blob \| commitdiff \| diff to current
2015-11-21	gmungoc	JAL-653 JAL-1968 FeaturesFile now handles Jalview or...	blob \| commitdiff \| diff to current
2015-10-15	tcofoegbu	JAL-1479 refactored SequenceI interface - changed getDB...	blob \| commitdiff \| diff to current
2015-09-25	gmungoc	JAL-1815 restore split frame geometry correctly includi...	blob \| commitdiff \| diff to current
2015-09-16	gmungoc	JAL-1885 small fix to isVersionStringLaterThan plus...	blob \| commitdiff \| diff to current
2015-09-10	Jim Procter	JAL-1645 source formatting and organise imports	blob \| commitdiff \| diff to current
2015-09-03	gmungoc	JAL-1690 scaleProteinAsCdna new optional attribute...	blob \| commitdiff \| diff to current
2015-08-07	tcofoegbu	JAL-1824 updated caching procedure for pdb entries...	blob \| commitdiff \| diff to current
2015-07-23	Jim Procter	Merge branch 'features/JAL-1759jmolUpdate' into develop	blob \| commitdiff \| diff to current
2015-07-23	Jim Procter	JAL-1759 formatting	blob \| commitdiff \| diff to current
2015-07-23	Jim Procter	JAL-1759 reinstate changes from bdfde6ef989da0702cef90f...	blob \| commitdiff \| diff to current
2015-07-23	Jim Procter	JAL-1759 formatting	blob \| commitdiff \| diff to current
2015-07-08	gmungoc	JAL-1759 merge from develop	blob \| commitdiff \| diff to current
2015-07-07	tcofoegbu	JAL-1769 fixed output to jalview (.jpv) file in headles...	blob \| commitdiff \| diff to current
2015-07-03	gmungoc	JAL-892 1 second delay for correct initial rendering...	blob \| commitdiff \| diff to current
2015-06-30	gmungoc	JAL=1759 fix Jmol state command bug; remove debug output	blob \| commitdiff \| diff to current
2015-06-22	gmungoc	JAL-892 tidy Varna panel names; JAL-1789 simplified...	blob \| commitdiff \| diff to current
2015-06-19	gmungoc	JAL-892 check viewer is linked to alignment panel on...	blob \| commitdiff \| diff to current
2015-06-18	gmungoc	JAL-892 JAL-1779 save/restore Varna viewer to/from...	blob \| commitdiff \| diff to current
2015-06-18	gmungoc	JAL-1781 annotation.sequenceRef now sequence id not... features/JAL-1781annotationXmlIds	blob \| commitdiff \| diff to current
2015-06-17	gmungoc	JAL-1588 restore ChimeraViewFrame geometry as well	blob \| commitdiff \| diff to current
2015-06-10	gmungoc	Merge remote-tracking branch	blob \| commitdiff \| diff to current
2015-06-10	gmungoc	JAL-1764 save Chimera/Jmol state as separate entries...	blob \| commitdiff \| diff to current
2015-04-30	tcofoegbu	JAL-1717 updated the PDBEntry model and updated the...	blob \| commitdiff \| diff to current
2015-04-08	gmungoc	JAL-1691 applet SplitFrame scrolling; pull up of 5...	blob \| commitdiff \| diff to current
2015-04-01	gmungoc	JAL-1264 reinstate Show annotations menu item	blob \| commitdiff \| diff to current
2015-03-30	gmungoc	JAL-1596 refactoring to allow unit tests to start and...	blob \| commitdiff \| diff to current
2015-03-26	gmungoc	Merge develop to Release_2_8_3_Branch	blob \| commitdiff \| diff to current
2015-03-06	Jim Procter	JAL-1683 replace year/version strings with tokens in...	blob \| commitdiff \| diff to current
2015-03-06	Jim Procter	Merge commit 'ab43013b7e357b84b4abade0dba949668dfb2a0e...	blob \| commitdiff \| diff to current
2015-02-19	gmungoc	JAL-1665 refactored Sequence.getSequenceFeatures features/sequenceFeatureRefactor	blob \| commitdiff \| diff to current
2015-01-27	gmungoc	JAL-1588 new class renamed	blob \| commitdiff \| diff to current
2015-01-26	gmungoc	Merge branch 'features/JAL-1588saveChimeraSession'...	blob \| commitdiff \| diff to current
2015-01-26	gmungoc	JAL-1588 restoring saved Chimera session(s)	blob \| commitdiff \| diff to current
2015-01-23	gmungoc	JAL-1588 first working (?) restore of Chimera session...	blob \| commitdiff \| diff to current
2015-01-23	Jim Procter	JAL-1551 JAL-962 formatting and code change ripples...	blob \| commitdiff \| diff to current
2015-01-23	Jim Procter	JAL-1628 drop getShowAnnotation accessor in favour...	blob \| commitdiff \| diff to current
2015-01-09	gmungoc	JAL-1588 check Chimera session file still exists	blob \| commitdiff \| diff to current
2015-01-08	gmungoc	JAL-1588 part work save/restore of Chimera session	blob \| commitdiff \| diff to current
2015-01-07	gmungoc	JAL-1588 refactoring to StructureViewerBase and related	blob \| commitdiff \| diff to current
2015-01-06	gmungoc	JAL-1588 refactoring prior to 'save Chimera project'	blob \| commitdiff \| diff to current
2014-12-22	Jim Procter	Merge: 497958b 68dcaa7	blob \| commitdiff \| diff to current
2014-12-15	Jim Procter	JAL-1620 version bump and release notes	blob \| commitdiff \| diff to current
2014-12-09	gmungoc	JAL-1616 loading of datasets from XML patched	blob \| commitdiff \| diff to current
2014-12-09	gmungoc	JAL-1616 loading of datasets from XML patched Release_2_8_2_Branch	blob \| commitdiff \| diff to current
2014-12-05	Charles Ofoegbu	JAL-1605 merge commit	blob \| commitdiff \| diff to current
2014-12-05	Charles Ofoegbu	Change the Html export to utilize svg	blob \| commitdiff \| diff to current
2014-11-27	Jim Procter	Merge branch 'patchJAL-674_offset' into develop	blob \| commitdiff \| diff to current
2014-11-27	Jim Procter	JAL-1177 JAL-905 cannot recover sequences from dataset...	blob \| commitdiff \| diff to current
2014-11-27	Jim Procter	JAL-674 avoid writing \0 for chain code	blob \| commitdiff \| diff to current
2014-11-14	Charles Ofoegbu	House keeping	blob \| commitdiff \| diff to current
2014-11-14	Jim Procter	Merge branch 'develop' into JAL-1483_featureBasedTreeCalc	blob \| commitdiff \| diff to current
2014-11-03	Jim Procter	JAL-1578 JAL-674 store/restore alignment annotation...	blob \| commitdiff \| diff to current
2014-10-30	Jim Procter	JAL-674 register PDB IDs when ever they are resolved...	blob \| commitdiff \| diff to current
2014-10-30	Jim Procter	JAL-1551 format and tidy	blob \| commitdiff \| diff to current
2014-09-23	darolmar	JAL-1355	blob \| commitdiff \| diff to current
2014-08-08	j.procter@dundee...	JAL-1482 feature renderer and manipulation code refacto...	blob \| commitdiff \| diff to current
2014-08-08	j.procter@dundee...	JAL-1483 move show sequence feature and sequence featur...	blob \| commitdiff \| diff to current
2014-07-02	Jim Procter	JAL-1333 JAL-1527 refactors to create core structure...	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1517 source formatting	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1517 fix copyright for 2.8.2	blob \| commitdiff \| diff to current
2014-06-05	Jim Procter	JAL-1517 update copyright to version 2.8.2	blob \| commitdiff \| diff to current
2014-05-22	Jim Procter	JAL-1503 update version in GPL header	blob \| commitdiff \| diff to current
2014-05-12	Jim Procter	JAL-1397 catch other random version strings	blob \| commitdiff \| diff to current
2014-05-12	Jim Procter	patch for regression introduced JAL-1397	blob \| commitdiff \| diff to current
2014-05-02	Jim Procter	JAL-1397 JAL-1066 JAL-1233 refactored annotation colour...	blob \| commitdiff \| diff to current
2014-05-02	Jim Procter	JAL-1369 JAL-1397 version check to support correct...	blob \| commitdiff \| diff to current
2014-05-02	Jim Procter	formatting	blob \| commitdiff \| diff to current
2014-04-25	Jim Procter	JAL-1177 additional saveState calls to write a dataset...	blob \| commitdiff \| diff to current
2014-04-25	Jim Procter	JAL-1177 patches to loader to cope with dataset only...	blob \| commitdiff \| diff to current
2014-04-25	Jim Procter	JAL-1177 new flag to write a dataset only jalview XML...	blob \| commitdiff \| diff to current
2014-04-21	Jim Procter	patch v2 for JAL-1474 add the newly recovered dataset...	blob \| commitdiff \| diff to current
2014-04-21	Jim Procter	patch v1 for JAL-1474 - make sure we actually set the...	blob \| commitdiff \| diff to current
2014-04-21	Jim Procter	JAL-1474 note about buggy 'merge sequence' operation...	blob \| commitdiff \| diff to current
2014-02-03	Jim Procter	Merge branch 'Release_2_8_0b1_Branch' into try_r20b1_merge	blob \| commitdiff \| diff to current
2014-01-29	Jim Procter	JAL-1432 updated copyright notices	blob \| commitdiff \| diff to current
2013-10-17	Jim Procter	JAL-1397 make sure annotation colourscheme is up to...	blob \| commitdiff \| diff to current
2013-10-17	Jim Procter	JAL-1397 store colour by sequence and originalColour...	blob \| commitdiff \| diff to current
2013-09-25	Jim Procter	JAL-1270 nominal jalview version string for projects...	blob \| commitdiff \| diff to current
2012-11-08	jprocter	JAL-1193 ensure the 'loadedComplete' method gets called...	blob \| commitdiff \| diff to current
2012-11-08	jprocter	tidy imports	blob \| commitdiff \| diff to current
2012-10-24	jprocter	JAL-1193 call setLoadingFromArchiveFinished(true) for...	blob \| commitdiff \| diff to current
2012-10-22	jprocter	Jalview 2.8 Source Header	blob \| commitdiff \| diff to current
2012-10-03	jprocter	formatting	blob \| commitdiff \| diff to current
2012-09-06	jprocter	JAL-958 flag indicating if visualization settings for...	blob \| commitdiff \| diff to current
2012-09-06	jprocter	JAL-958 store/recover normalised flag	blob \| commitdiff \| diff to current
2012-09-05	jprocter	JAL-976 fix AACon name typo in source and GUI	blob \| commitdiff \| diff to current
2012-08-29	jprocter	JAL-1153 new runtime property set to first non-null...	blob \| commitdiff \| diff to current
2012-08-28	jprocter	formatting	blob \| commitdiff \| diff to current
2012-08-28	jprocter	JAL-1136 sometimes there are no parameters associated...	blob \| commitdiff \| diff to current
2012-08-28	jprocter	JAL-1148 reinstate sequence references for annotation...	blob \| commitdiff \| diff to current
2012-08-03	jprocter	JAL-1136 Ensure asynchronously calculated autoannotatio...	blob \| commitdiff \| diff to current
2012-08-03	jprocter	JAL-1136 JAL-811 JAL-812 store/recover autocalc alignme...	blob \| commitdiff \| diff to current
2012-08-03	jprocter	JAL-1136 fix logic for recovering AACons params	blob \| commitdiff \| diff to current
2012-08-03	jprocter	JAL-1136 store ws-parameter list as XML element content...	blob \| commitdiff \| diff to current
2012-07-08	jprocter	a209409239 (JAL-976 - add support for storing service...	blob \| commitdiff \| diff to current
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