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Merge branch 'develop' into bug/JAL-2314
[jalview.git]
/
src
/
jalview
/
gui
/
Jalview2XML.java
2017-03-30
gmungoc
Merge branch 'develop' into bug/JAL-2346annotationChoice
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2017-03-16
kiramt
JAL-2388 Applied ViewportRanges to code
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2017-02-27
kiramt
JAL-2388 Make startRes,startSeq,endRes,endSeq private...
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2017-02-14
gmungoc
Merge branch 'develop' into bug/JAL-2346annotationChoice
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2017-01-31
gmungoc
JAL-2371 rename global/viewportColourScheme to residueS...
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2017-01-27
gmungoc
JAL-2371 CollectionColourScheme renamed ResidueShader...
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2017-01-20
gmungoc
Merge branch 'features/JAL-2360colourSchemeApplicabilit...
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2017-01-20
gmungoc
Merge branch 'develop' into features/JAL-2360colourSche...
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diff to current
2017-01-20
gmungoc
JAL-2383 restore group conservation slider setting...
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2017-01-20
gmungoc
Merge branch 'develop' into features/JAL-2360colourSche...
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2017-01-19
gmungoc
JAL-2383 restore PID colour threshold from project...
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2017-01-04
gmungoc
JAL-2371 CollectionColourScheme wraps ColourSchemeI
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2016-12-16
gmungoc
JAL-2360 getColour() renamed to getColourScheme(),...
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diff to current
2016-12-16
gmungoc
JAL-2360 refactoring for JalviewColourScheme enum,
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2016-12-01
gmungoc
JAL-2346 save annotation id instead of label with annot...
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2016-11-28
gmungoc
Merge branch 'develop' into trialMerge
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diff to current
2016-11-25
gmungoc
Merge branch 'develop' into trialMerge
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2016-11-24
tcofoegbu
JAL-2326 updated references of JOptionPane to JvOptionPane
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2016-11-02
gmungoc
JAL-98 JAL-1854 encapsulate 'magic number' threshold...
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2016-10-25
Jim Procter
JAL-2089 patch broken merge to master for Release 2...
releases/Release_2_10_0_Branch
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2016-10-24
Jim Procter
Merge branch 'releases/Release_2_10_0_Branch'
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2016-10-14
gmungoc
Merge branch 'releases/Release_2_10_Branch' into task...
task/JAL-2196pdbeProperties
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diff to current
2016-10-11
gmungoc
JAL-2241 check for null jprovider when processing New...
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2016-10-06
gmungoc
Merge branch 'develop' into task/JAL-2196pdbeProperties
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2016-10-06
Jim Procter
JAL-2089 Merge branch releases/Release_2_10_Branch...
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diff to current
2016-10-05
Jim Procter
JAL-2036 rebuild menus for each panel before adding...
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diff to current
2016-10-05
Jim Procter
JAL-2189 source formatting
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2016-10-05
gmungoc
Merge branch 'develop' into task/JAL-2196pdbeProperties
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2016-09-22
gmungoc
JAL-1421 typed ResidueProperties.propHash; JAL-2176...
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2016-09-13
gmungoc
JAL-2196 refactor PDBEntry.getProperty,setProperty...
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diff to current
2016-09-13
tcofoegbu
JAL-2195 bug fix to enable restoring jmol session save...
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diff to current
2016-09-04
Jim Procter
JAL-1919 preserve filename on restore of project so...
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diff to current
2016-09-04
Jim Procter
JAL-1803 recover type field faithfully for mmCIF/PDB...
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diff to current
2016-09-04
Jim Procter
JAL-1803 restore property array for a sequence’s associ...
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2016-08-30
gmungoc
Merge branch 'develop' into features/filetypeEnum
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2016-08-19
Jim Procter
JAL-2154 - possible patch .. but leads to new stringify...
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diff to current
2016-08-19
Jim Procter
JAL-2154 reorder the dataset sequences according to...
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diff to current
2016-08-19
Jim Procter
JAL-2154 belt-and-braces patch:
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diff to current
2016-08-19
Jim Procter
JAL-2154 verify mapping’s sequenceI ref has been resolv...
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2016-08-01
Jim Procter
Merge branch 'bug/JAL-2154projectMappings' into develop
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2016-08-01
Jim Procter
JAL-1772 make sure we actually return reference to...
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2016-07-29
Jim Procter
JAL-2154 disable visual delay only after completed...
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diff to current
2016-07-29
Jim Procter
JAL-2154 register any new dataset codon frames only...
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diff to current
2016-07-29
Jim Procter
JAL-2154 only include mappings in dbref/alcodon in...
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2016-07-27
Jim Procter
JAL-2154 toString for forward references
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2016-07-27
Jim Procter
JAL-2163 set title for the alignframe from restored...
patch/JAL-2156_JAL-2163_saveSplitFrameFromSaveAs_restoreTitles
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2016-07-27
Jim Procter
JAL-2156 resolve and add complementary views for saveAl...
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diff to current
2016-07-27
Jim Procter
JAL-2156 refactor saveState & saveAlignment to common...
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commitdiff
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diff to current
2016-07-24
Jim Procter
JAL-2154 formatting
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diff to current
2016-07-24
Jim Procter
JAL-2154 keep track of incomplete sequences and report...
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diff to current
2016-07-24
Jim Procter
JAL-2154 systematic pattern for defining/resolving...
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diff to current
2016-07-23
Jim Procter
JAL-2154 patch the hack (Jalview2XML tests pass)
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2016-07-20
gmungoc
JAL-2154 poke JSeq start/end into Vamsas sequence
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diff to current
2016-07-20
gmungoc
JAL-2023 avoid writing / loading empty mappings
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2016-07-11
gmungoc
file format enum wip changes
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2016-06-29
gmungoc
Merge branch 'develop' into features/JAL-2110_crossRefD...
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diff to current
2016-06-29
gmungoc
JAL-1369 fix bug reloading a project with group sequenc...
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diff to current
2016-06-27
gmungoc
tidied loop with generic iteration / loop variable
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2016-06-21
Jim Procter
Merge branch 'features/JAL-2110_crossRefDuplications...
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2016-06-21
Jim Procter
Merge branch 'features/JAL-1956_featureStyles' into...
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diff to current
2016-06-21
Jim Procter
JAL-1369 mark reference sequence & view state and resto...
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2016-06-21
Jim Procter
JAL-1369 project XML efficiency TODO
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diff to current
2016-06-21
Jim Procter
JAL-1369 dead code TODO?
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diff to current
2016-06-21
Jim Procter
JAL-1369 ensure *real* alignment’s metadata written...
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diff to current
2016-06-19
Jim Procter
JAL-2110 JAL-2131 JAL-1765 remove reference to jalview...
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diff to current
2016-05-13
gmungoc
JAL-2105 capture Ensembl data version, check REST versi...
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diff to current
2016-05-10
gmungoc
Merge branch 'develop' into features/JAL-1956_featureStyles
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2016-05-09
gmungoc
JAL-2018 export graduated feature colours correctly
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diff to current
2016-03-07
gmungoc
JAL-2023 CDS sequences added to / share alignment dataset
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diff to current
2016-02-24
gmungoc
JAL-2015 JAL-1956 rollout of FeatureColourI in place of
JAL-1956_featureStyles
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2016-01-28
gmungoc
Merge branch 'develop' into JAL-1705_trialMerge
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diff to current
2015-12-22
gmungoc
JAL-653 hold AlignedCodonFrame collections as list...
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2015-11-21
gmungoc
JAL-653 JAL-1968 FeaturesFile now handles Jalview or...
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diff to current
2015-10-16
Jim Procter
JAL-1925 update source version in license
Release_2_9_0b2
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diff to current
2015-10-15
tcofoegbu
JAL-1479 refactored SequenceI interface - changed getDB...
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diff to current
2015-10-08
Jim Procter
JAL-1894 update year/version in copyright
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diff to current
2015-10-05
Jim Procter
Merge branch 'develop' into Release_2_9_0b1_Branch
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diff to current
2015-09-25
gmungoc
JAL-1815 restore split frame geometry correctly includi...
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diff to current
2015-09-22
Jim Procter
Merge branch 'develop' into Release_2_9_0b1_Branch
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diff to current
2015-09-16
gmungoc
JAL-1885 small fix to isVersionStringLaterThan plus...
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diff to current
2015-09-10
Jim Procter
JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin...
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diff to current
2015-09-10
Jim Procter
JAL-1645 source formatting and organise imports
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diff to current
2015-09-03
gmungoc
JAL-1690 scaleProteinAsCdna new optional attribute...
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diff to current
2015-08-07
tcofoegbu
JAL-1824 updated caching procedure for pdb entries...
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2015-07-23
Jim Procter
Merge branch 'features/JAL-1759jmolUpdate' into develop
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diff to current
2015-07-23
Jim Procter
JAL-1759 formatting
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diff to current
2015-07-23
Jim Procter
JAL-1759 reinstate changes from bdfde6ef989da0702cef90f...
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commitdiff
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diff to current
2015-07-23
Jim Procter
JAL-1759 formatting
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diff to current
2015-07-08
gmungoc
JAL-1759 merge from develop
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commitdiff
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diff to current
2015-07-07
tcofoegbu
JAL-1769 fixed output to jalview (.jpv) file in headles...
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diff to current
2015-07-03
gmungoc
JAL-892 1 second delay for correct initial rendering...
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diff to current
2015-06-30
gmungoc
JAL=1759 fix Jmol state command bug; remove debug output
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diff to current
2015-06-22
gmungoc
JAL-892 tidy Varna panel names; JAL-1789 simplified...
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diff to current
2015-06-19
gmungoc
JAL-892 check viewer is linked to alignment panel on...
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diff to current
2015-06-18
gmungoc
JAL-892 JAL-1779 save/restore Varna viewer to/from...
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diff to current
2015-06-18
gmungoc
JAL-1781 annotation.sequenceRef now sequence id not...
features/JAL-1781annotationXmlIds
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diff to current
2015-06-17
gmungoc
JAL-1588 restore ChimeraViewFrame geometry as well
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diff to current
2015-06-10
gmungoc
Merge remote-tracking branch
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diff to current
2015-06-10
gmungoc
JAL-1764 save Chimera/Jmol state as separate entries...
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diff to current
2015-04-30
tcofoegbu
JAL-1717 updated the PDBEntry model and updated the...
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