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Merge branch 'releases/Release_2_11_4_Branch'
[jalview.git]
/
src
/
jalview
/
gui
/ Jalview2XML.java
2014-06-06
Jim Procter
JAL-1517 fix copyright for 2.8.2
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commitdiff
2014-06-05
Jim Procter
JAL-1517 update copyright to version 2.8.2
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commitdiff
2014-05-22
Jim Procter
JAL-1503 update version in GPL header
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commitdiff
2014-05-12
Jim Procter
JAL-1397 catch other random version strings
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commitdiff
2014-05-12
Jim Procter
patch for regression introduced JAL-1397
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commitdiff
2014-05-02
Jim Procter
JAL-1397 JAL-1066 JAL-1233 refactored annotation colour...
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commitdiff
2014-05-02
Jim Procter
JAL-1369 JAL-1397 version check to support correct...
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commitdiff
2014-05-02
Jim Procter
formatting
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commitdiff
2014-04-25
Jim Procter
JAL-1177 additional saveState calls to write a dataset...
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commitdiff
2014-04-25
Jim Procter
JAL-1177 patches to loader to cope with dataset only...
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commitdiff
2014-04-25
Jim Procter
JAL-1177 new flag to write a dataset only jalview XML...
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commitdiff
2014-04-21
Jim Procter
patch v2 for JAL-1474 add the newly recovered dataset...
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commitdiff
2014-04-21
Jim Procter
patch v1 for JAL-1474 - make sure we actually set the...
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commitdiff
2014-04-21
Jim Procter
JAL-1474 note about buggy 'merge sequence' operation...
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commitdiff
2014-02-03
Jim Procter
Merge branch 'Release_2_8_0b1_Branch' into try_r20b1_merge
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commitdiff
2014-01-29
Jim Procter
JAL-1432 updated copyright notices
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commitdiff
2013-10-17
Jim Procter
JAL-1397 make sure annotation colourscheme is up to...
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commitdiff
2013-10-17
Jim Procter
JAL-1397 store colour by sequence and originalColour...
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commitdiff
2013-09-25
Jim Procter
JAL-1270 nominal jalview version string for projects...
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commitdiff
2012-11-08
jprocter
JAL-1193 ensure the 'loadedComplete' method gets called...
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commitdiff
2012-11-08
jprocter
tidy imports
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commitdiff
2012-10-24
jprocter
JAL-1193 call setLoadingFromArchiveFinished(true) for...
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commitdiff
2012-10-22
jprocter
Jalview 2.8 Source Header
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commitdiff
2012-10-03
jprocter
formatting
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commitdiff
2012-09-06
jprocter
JAL-958 flag indicating if visualization settings for...
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commitdiff
2012-09-06
jprocter
JAL-958 store/recover normalised flag
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commitdiff
2012-09-05
jprocter
JAL-976 fix AACon name typo in source and GUI
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commitdiff
2012-08-29
jprocter
JAL-1153 new runtime property set to first non-null...
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commitdiff
2012-08-28
jprocter
formatting
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commitdiff
2012-08-28
jprocter
JAL-1136 sometimes there are no parameters associated...
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commitdiff
2012-08-28
jprocter
JAL-1148 reinstate sequence references for annotation...
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2012-08-03
jprocter
JAL-1136 Ensure asynchronously calculated autoannotatio...
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2012-08-03
jprocter
JAL-1136 JAL-811 JAL-812 store/recover autocalc alignme...
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commitdiff
2012-08-03
jprocter
JAL-1136 fix logic for recovering AACons params
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commitdiff
2012-08-03
jprocter
JAL-1136 store ws-parameter list as XML element content...
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commitdiff
2012-07-08
jprocter
a209409239 (JAL-976 - add support for storing service...
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commitdiff
2012-07-01
jprocter
JAL-1117 alleviate lock starvation
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2012-06-13
jprocter
JAL-1115 refactor base collection for Alignment from...
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2012-06-13
jprocter
javatidy
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commitdiff
2012-05-30
jprocter
updated schema to store and recover belowAlignment...
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commitdiff
2012-05-30
jprocter
JAL-1114 - refactor methods handling Vectors and Hashta...
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commitdiff
2012-03-01
jprocter
Merge branch 'Release_2_7_Branch' into develop
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commitdiff
2012-02-12
Jim Procter
(JAL-1022) reverted to original strategy of escaping...
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commitdiff
2012-02-12
Jim Procter
(JAL-1050) ensure all filenames passed in to the load...
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commitdiff
2012-02-12
Jim Procter
(JAL-1025 JAL-1022) File based equivalence used to...
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commitdiff
2012-02-12
Jim Procter
(JAL-1049) only store state reference for sequence...
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commitdiff
2011-10-27
jprocter
(JAL-969) refactored alignmentViewport base class to...
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2011-10-10
jprocter
update author list in license for (JAL-826)
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commitdiff
2011-09-27
jprocter
apply version 2.7 copyright
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commitdiff
2011-09-16
jprocter
JAL-747 - made warning message friendlier and more...
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commitdiff
2011-09-14
jprocter
patch for NPE (not clear if NPE is evidence of deeper...
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commitdiff
2011-08-15
jprocter
JAL-747 - warning dialog if Jalview can't resolve filen...
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2011-05-17
jprocter
refactor to allow distinct StructureSelectionManager...
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2011-04-25
jprocter
JAL-824 - patch to schema to allow jmol colouring state...
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2011-04-22
jprocter
comments re JAL-823 legacy issue
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commitdiff
2011-04-21
jprocter
save and recover graph height, visibility and row posit...
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2011-02-18
jprocter
bugfixing for JAL-778
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2010-09-23
jprocter
apply jalview code style
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2010-09-23
jprocter
Jalview 2.6 source licence
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2010-09-22
jprocter
trap out of memory errors specifically associated with...
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2010-09-08
jprocter
JAL-634
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2010-08-27
jprocter
revised sequence/structure binding so one structure...
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2010-08-20
jprocter
avoid race condition by setting sequence logo flag...
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2010-08-18
jprocter
thread safe construction of Jmol instance and hack...
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2010-06-29
jprocter
jmol 12 patch - ensure we replace the correct filename...
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2010-06-11
jprocter
patched for JAL-531 - only display full symbol distribu...
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2010-06-06
jprocter
patch for JAL-542
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2010-06-03
jprocter
patch re JAL-554
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2010-06-01
jprocter
patches for # JAL-254 and JAL-548
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2010-04-30
jprocter
jalview 2.5 release banner
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commitdiff
2010-04-14
jprocter
profile visualizations are now logos
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commitdiff
2010-04-05
jprocter
Extend XML model for graduated feature colours, group...
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2009-10-14
jprocter
quick fix for nullpointer in column selection when...
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2009-10-13
jprocter
safer OOM handling when importing from XML
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commitdiff
2009-06-12
jprocter
recover pdb from jalview-xml in vamsas doc
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commitdiff
2009-06-08
jprocter
debug messages and graceful recovery when structure...
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2009-03-31
jprocter
prototype for store/restore of feature colour gradient...
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2009-02-06
jprocter
showUnconserved view and group setting
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2008-12-15
jprocter
warning for failed parsing of newick strings
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2008-11-12
jprocter
selection sending and receiving, autoscrolling to highl...
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2008-09-04
jprocter
merge from 2_4_Release branch
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commitdiff
2008-08-19
jprocter
beginning of fix for embl/cds/highlighting IO in https...
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commitdiff
2008-05-12
jprocter
fixed Jalview project archive bug where alignment view...
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commitdiff
2008-02-22
jprocter
sequenceId is a string, not an integer - allows generat...
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commitdiff
2008-01-29
jprocter
flag to indicate if errors are raised as warning dialog...
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2007-11-28
jprocter
bugfix
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2007-11-12
jprocter
bugfix for occasional race condition causing exception...
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2007-08-30
jprocter
*really* make sure database references are stored and...
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2007-08-30
jprocter
ensure codon mappings and database references are merge...
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2007-08-30
jprocter
store dataset references, sequence dataset ids, and...
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2007-05-10
amwaterhouse
visibility setting
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2007-05-10
amwaterhouse
Visible state of annotation
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2007-05-07
amwaterhouse
Use id hash to add pdb mappings back to alignment
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2007-05-04
amwaterhouse
Check bounds of loaded comp
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2007-05-04
amwaterhouse
Rename AppJMol to AppJmol - also AppJmol works with...
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2007-05-01
amwaterhouse
Can specify PDB chain to map sequence to - only used...
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2007-05-01
amwaterhouse
Save seqset properties
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2007-04-26
jprocter
use hasScore method to test presence of score in annota...
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2007-04-26
amwaterhouse
check for null ss character
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2007-04-25
jprocter
AlignmentAnnotation: added annotation score attribute...
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