JAL-1177 patches to loader to cope with dataset only jalview xml documents
[jalview.git] / src / jalview / gui / Jalview2XML.java
2014-04-25 Jim ProcterJAL-1177 patches to loader to cope with dataset only...
2014-04-25 Jim ProcterJAL-1177 new flag to write a dataset only jalview XML...
2014-04-21 Jim Procterpatch v2 for JAL-1474 add the newly recovered dataset...
2014-04-21 Jim Procterpatch v1 for JAL-1474 - make sure we actually set the...
2014-04-21 Jim ProcterJAL-1474 note about buggy 'merge sequence' operation...
2014-02-03 Jim ProcterMerge branch 'Release_2_8_0b1_Branch' into try_r20b1_merge
2014-01-29 Jim ProcterJAL-1432 updated copyright notices
2013-10-17 Jim ProcterJAL-1397 make sure annotation colourscheme is up to...
2013-10-17 Jim ProcterJAL-1397 store colour by sequence and originalColour...
2013-09-25 Jim ProcterJAL-1270 nominal jalview version string for projects...
2012-11-08 jprocterJAL-1193 ensure the 'loadedComplete' method gets called...
2012-11-08 jproctertidy imports
2012-10-24 jprocterJAL-1193 call setLoadingFromArchiveFinished(true) for...
2012-10-22 jprocterJalview 2.8 Source Header
2012-10-03 jprocterformatting
2012-09-06 jprocterJAL-958 flag indicating if visualization settings for...
2012-09-06 jprocterJAL-958 store/recover normalised flag
2012-09-05 jprocterJAL-976 fix AACon name typo in source and GUI
2012-08-29 jprocterJAL-1153 new runtime property set to first non-null...
2012-08-28 jprocterformatting
2012-08-28 jprocterJAL-1136 sometimes there are no parameters associated...
2012-08-28 jprocterJAL-1148 reinstate sequence references for annotation...
2012-08-03 jprocterJAL-1136 Ensure asynchronously calculated autoannotatio...
2012-08-03 jprocterJAL-1136 JAL-811 JAL-812 store/recover autocalc alignme...
2012-08-03 jprocterJAL-1136 fix logic for recovering AACons params
2012-08-03 jprocterJAL-1136 store ws-parameter list as XML element content...
2012-07-08 jproctera209409239 (JAL-976 - add support for storing service...
2012-07-01 jprocterJAL-1117 alleviate lock starvation
2012-06-13 jprocterJAL-1115 refactor base collection for Alignment from...
2012-06-13 jprocterjavatidy
2012-05-30 jprocterupdated schema to store and recover belowAlignment...
2012-05-30 jprocterJAL-1114 - refactor methods handling Vectors and Hashta...
2012-03-01 jprocterMerge branch 'Release_2_7_Branch' into develop
2012-02-12 Jim Procter(JAL-1022) reverted to original strategy of escaping...
2012-02-12 Jim Procter(JAL-1050) ensure all filenames passed in to the load...
2012-02-12 Jim Procter(JAL-1025 JAL-1022) File based equivalence used to...
2012-02-12 Jim Procter(JAL-1049) only store state reference for sequence...
2011-10-27 jprocter(JAL-969) refactored alignmentViewport base class to...
2011-10-10 jprocterupdate author list in license for (JAL-826)
2011-09-27 jprocterapply version 2.7 copyright
2011-09-16 jprocterJAL-747 - made warning message friendlier and more...
2011-09-14 jprocterpatch for NPE (not clear if NPE is evidence of deeper...
2011-08-15 jprocterJAL-747 - warning dialog if Jalview can't resolve filen...
2011-05-17 jprocterrefactor to allow distinct StructureSelectionManager...
2011-04-25 jprocterJAL-824 - patch to schema to allow jmol colouring state...
2011-04-22 jproctercomments re JAL-823 legacy issue
2011-04-21 jproctersave and recover graph height, visibility and row posit...
2011-02-18 jprocterbugfixing for JAL-778
2010-09-23 jprocterapply jalview code style
2010-09-23 jprocterJalview 2.6 source licence
2010-09-22 jproctertrap out of memory errors specifically associated with...
2010-09-08 jprocterJAL-634
2010-08-27 jprocterrevised sequence/structure binding so one structure...
2010-08-20 jprocteravoid race condition by setting sequence logo flag...
2010-08-18 jprocterthread safe construction of Jmol instance and hack...
2010-06-29 jprocterjmol 12 patch - ensure we replace the correct filename...
2010-06-11 jprocterpatched for JAL-531 - only display full symbol distribu...
2010-06-06 jprocterpatch for JAL-542
2010-06-03 jprocterpatch re JAL-554
2010-06-01 jprocterpatches for # JAL-254 and JAL-548
2010-04-30 jprocterjalview 2.5 release banner
2010-04-14 jprocterprofile visualizations are now logos
2010-04-05 jprocterExtend XML model for graduated feature colours, group...
2009-10-14 jprocterquick fix for nullpointer in column selection when...
2009-10-13 jproctersafer OOM handling when importing from XML
2009-06-12 jprocterrecover pdb from jalview-xml in vamsas doc
2009-06-08 jprocterdebug messages and graceful recovery when structure...
2009-03-31 jprocterprototype for store/restore of feature colour gradient...
2009-02-06 jproctershowUnconserved view and group setting
2008-12-15 jprocterwarning for failed parsing of newick strings
2008-11-12 jprocterselection sending and receiving, autoscrolling to highl...
2008-09-04 jproctermerge from 2_4_Release branch
2008-08-19 jprocterbeginning of fix for embl/cds/highlighting IO in https...
2008-05-12 jprocterfixed Jalview project archive bug where alignment view...
2008-02-22 jproctersequenceId is a string, not an integer - allows generat...
2008-01-29 jprocterflag to indicate if errors are raised as warning dialog...
2007-11-28 jprocterbugfix
2007-11-12 jprocterbugfix for occasional race condition causing exception...
2007-08-30 jprocter*really* make sure database references are stored and...
2007-08-30 jprocterensure codon mappings and database references are merge...
2007-08-30 jprocterstore dataset references, sequence dataset ids, and...
2007-05-10 amwaterhousevisibility setting
2007-05-10 amwaterhouseVisible state of annotation
2007-05-07 amwaterhouseUse id hash to add pdb mappings back to alignment
2007-05-04 amwaterhouseCheck bounds of loaded comp
2007-05-04 amwaterhouseRename AppJMol to AppJmol - also AppJmol works with...
2007-05-01 amwaterhouseCan specify PDB chain to map sequence to - only used...
2007-05-01 amwaterhouseSave seqset properties
2007-04-26 jprocteruse hasScore method to test presence of score in annota...
2007-04-26 amwaterhousecheck for null ss character
2007-04-25 jprocterAlignmentAnnotation: added annotation score attribute...
2007-04-17 jprocterpdb files are global to all alignments with new mapping...
2007-04-02 jprocterfeature group state and type order preference storage...
2007-03-26 amwaterhouseAdd seq mapping for multiple seq 2 pdbs
2007-03-22 amwaterhouseSaves structures
2007-02-12 amwaterhouseHashtable for previously loaded pdb files
2007-02-07 amwaterhouseFormatting
2007-01-31 amwaterhouseConsensus, conservation, quality labels may have changed
2007-01-30 amwaterhouseCheck seqs in group exist in this alignment
2007-01-25 amwaterhouseAnnotations move when full alignment edited
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