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Merge branch 'develop' into bug/JAL-4059_update_swingJS_for_JalviewJS_2_11_2_and_2_11_3
[jalview.git]
/
src
/
jalview
/
structure
/
2016-12-08
gmungoc
Merge branch 'bug/JAL-2358phantomChimera' into spikes...
tree
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commitdiff
2016-12-08
gmungoc
JAL-2358 ensure mappings removed on close Chimera;...
bug/JAL-2358phantomChimera
tree
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commitdiff
2016-11-29
gmungoc
Merge branch 'develop' into features/JAL-2295setChimera...
tree
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commitdiff
2016-11-25
gmungoc
Merge branch 'develop' into trialMerge
tree
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commitdiff
2016-11-23
gmungoc
Merge branch 'develop' into features/JAL-2295setChimera...
tree
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commitdiff
2016-11-22
Jim Procter
Merge branch 'features/JAL-1738_JAL-345_selectionfromhi...
tree
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commitdiff
2016-11-14
gmungoc
JAL-2296 new code and refactoring for 'copy Chimera...
tree
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commitdiff
2016-11-14
gmungoc
JAL-2296 parse Chimera atomspec to AtomSpec
tree
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commitdiff
2016-11-14
gmungoc
JAL-2295 JAL-2296 skeleton 'attributes to features...
tree
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commitdiff
2016-11-08
gmungoc
JAL-2295 method added to return a compact mapped range...
tree
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commitdiff
2016-11-04
tcofoegbu
JAL-2195 JAL-2262 house keeping
tree
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commitdiff
2016-10-28
Jim Procter
JAL-966 JAL-1738 JAL-345 interfaces for SearchResults...
tree
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commitdiff
2016-10-25
Jim Procter
JAL-2089 patch broken merge to master for Release 2...
releases/Release_2_10_0_Branch
tree
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commitdiff
2016-10-24
Jim Procter
Merge branch 'releases/Release_2_10_0_Branch'
tree
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commitdiff
2016-10-17
tcofoegbu
JAL-2262 JAL-2195 Improvement to set PDBId availability...
tree
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commitdiff
2016-10-10
tcofoegbu
JAL-2262 JAL-2195 bug fix for mapping local structure...
tree
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commitdiff
2016-10-06
Jim Procter
JAL-2089 Merge branch releases/Release_2_10_Branch...
tree
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commitdiff
2016-10-05
Jim Procter
JAL-2189 apply license
tree
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commitdiff
2016-10-05
Jim Procter
JAL-2189 source formatting
tree
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commitdiff
2016-09-19
tcofoegbu
merge
tree
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commitdiff
2016-09-16
gmungoc
JAL-2164 removed unused parameters from JmolParser...
tree
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commitdiff
2016-09-13
tcofoegbu
Revert "JAL-2164 JAL-1919 disabled and removed PDB...
tree
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commitdiff
2016-09-13
tcofoegbu
JAL-2164 JAL-1919 disabled and removed PDB file parser...
tree
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commitdiff
2016-09-07
Jim Procter
JAL-1803 transfer mapped chain’s PDBEntry to the *datas...
tree
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commitdiff
2016-08-30
gmungoc
Merge branch 'develop' into features/filetypeEnum
tree
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commitdiff
2016-08-24
Jim Procter
JAL-2106 javadoc for sifts mapping method
tree
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commitdiff
2016-08-24
Jim Procter
JAL-2106 prevent SIFTS mappings for sequences that...
tree
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commitdiff
2016-07-26
Jim Procter
JAL-2157 todo: verify parser/file format enums and...
tree
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commitdiff
2016-07-26
tcofoegbu
JAL-2157 bugfix for issues from enum refactoring
tree
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commitdiff
2016-07-22
tcofoegbu
JAL-2148 Bugfix in structureImportSettings string-to...
tree
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commitdiff
2016-07-21
tcofoegbu
Resolve merge conflict for StructureImportSettings
tree
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commitdiff
2016-07-21
tcofoegbu
JAL-2148 fix to heuristically determine chain terminati...
tree
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commitdiff
2016-07-21
Jim Procter
Merge branch 'apifix/JAL-1926_JAL-2106' into develop
tree
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commitdiff
2016-07-20
Jim Procter
JAL-1926 JAL-2106 fix name for flag controlling additio...
tree
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commitdiff
2016-07-20
Jim Procter
JAL-1926 JAL-2106 don’t use PDB database constant as...
tree
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commitdiff
2016-07-20
Jim Procter
JAL-1926 JAL-2106 use enum for ‘DEFAULT_STRUCTURE_FORMA...
tree
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commitdiff
2016-07-19
tcofoegbu
JAL-1919 set default structure file format to mmCIF...
tree
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commitdiff
2016-07-11
gmungoc
file format enum wip changes
tree
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commitdiff
2016-07-08
tcofoegbu
JAL-1919 Fixed failing tests, enabled HETATM processing...
tree
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commitdiff
2016-06-30
tcofoegbu
JAL-1919 updated PDBSequenceFetcherTest and JMol parser...
tree
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commitdiff
2016-06-28
tcofoegbu
JAL-1479 improved SiftsClient test coverage and impleme...
tree
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commitdiff
2016-06-15
tcofoegbu
JAL-2002 disabled 'Best Uniport Coverage' filter. JAL...
tree
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commitdiff
2016-06-10
tcofoegbu
JAL-1479 updated SIFTS FTP download URL, added improvem...
tree
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commitdiff
2016-06-08
tcofoegbu
JAL-1479 JAL- Fix to eradicate duplicate mapping output...
tree
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commitdiff
2016-03-30
tcofoegbu
JAL-2038 bug fix for NPE while setting progress message...
tree
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commitdiff
2016-03-24
gmungoc
JAL-2032 structure follow mouseover in a copy of a...
tree
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commitdiff
2016-03-22
tcofoegbu
JAL-1919 code improvement to make PDB sequence fetcher...
tree
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commitdiff
2016-03-21
tcofoegbu
JAL-1919 refactor moved StructureViewerSettings
tree
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commitdiff
2016-03-21
tcofoegbu
develop merge
tree
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commitdiff
2016-02-25
tcofoegbu
JAL-1919 initial support for mmCIF using JMol API....
tree
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commitdiff
2016-02-20
gmungoc
Merge branch 'develop' into features/JAL-653_JAL-1766_h...
tree
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commitdiff
2016-02-19
tcofoegbu
JAL-2009 Codes to enable storing inserted residues...
tree
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commitdiff
2016-02-12
gmungoc
JAL-2010 simple prototype of 'Highlight Selection'...
tree
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commitdiff
2016-02-01
gmungoc
Merge branch 'develop' into features/JAL-653_JAL-1766_h...
tree
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commitdiff
2016-01-29
tcofoegbu
JAL-1979 refactor out duplicated similar block of code...
tree
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commitdiff
2016-01-28
gmungoc
Merge branch 'develop' into JAL-1705_trialMerge
tree
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commitdiff
2016-01-26
tcofoegbu
JAL-1999 JAL-1479 implemented configurable fail-safe...
tree
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commitdiff
2016-01-11
tcofoegbu
JAL-1990 added a progress indicator for Structure Choos...
tree
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commitdiff
2015-12-22
gmungoc
JAL-653 hold AlignedCodonFrame collections as list...
tree
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commitdiff
2015-11-17
tcofoegbu
JAL-1479 Refactored Sifts configuration preference...
tree
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commitdiff
2015-11-16
tcofoegbu
JAL-1967 JAL-1479 refactored sequence<->structure mappi...
tree
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commitdiff
2015-11-13
tcofoegbu
JAL-1479 added transfer of residue annotation for SIFTS...
tree
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commitdiff
2015-11-11
tcofoegbu
JAL-1957 JAL-1479 Further optimisation of SIFTs Client...
features/JAL-1479_SIFTS-mapping
tree
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commitdiff
2015-11-05
tcofoegbu
JAL-1479 SiftClient house keeping
tree
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commitdiff
2015-10-28
tcofoegbu
JAL-1479 added support for SIFTs mapping output viewing...
tree
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commitdiff
2015-10-28
tcofoegbu
JAL-1887 JAL-1479 bugfix for incorrect start/end for...
tree
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commitdiff
2015-10-22
tcofoegbu
JAL-1479 added basic support for SIFTs mapping - more...
tree
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commitdiff
2015-10-16
Jim Procter
JAL-1925 update source version in license
Release_2_9_0b2
tree
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commitdiff
2015-10-15
tcofoegbu
JAL-1479 refactored SequenceI interface - changed getDB...
tree
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commitdiff
2015-10-14
tcofoegbu
JAL-1926 added supporting model changes to enable savin...
tree
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commitdiff
2015-10-08
Jim Procter
JAL-1894 update year/version in copyright
tree
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commitdiff
2015-09-16
gmungoc
JAL-1859 debug logging removed
tree
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commitdiff
2015-09-16
gmungoc
JAL-1859 temporary debug output
tree
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commitdiff
2015-09-10
Jim Procter
JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin...
tree
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commitdiff
2015-09-10
Jim Procter
JAL-1645 licencing for new files in src
tree
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commitdiff
2015-09-10
Jim Procter
JAL-1645 source formatting and organise imports
tree
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commitdiff
2015-08-27
gmungoc
JAL-1830 refactored so no jalview.gui references from...
tree
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commitdiff
2015-08-26
gmungoc
JAL-1830 dropped reference counts for mappings, instead...
tree
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commitdiff
2015-08-17
gmungoc
JAL-1829 JAL-1830 refactoring for correct mapping ...
tree
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commitdiff
2015-06-22
gmungoc
JAL-892 tidy Varna panel names; JAL-1789 simplified...
tree
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commitdiff
2015-06-05
gmungoc
JAL-1752 structure highlight scoped to only its mapped...
tree
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commitdiff
2015-06-05
gmungoc
JAL-1622 code tidy only, no functional change
tree
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commitdiff
2015-06-04
gmungoc
JAL-1750 View Mapping scoped to that viewer's mappings...
tree
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commitdiff
2015-05-06
gmungoc
JAL-1725 broadcast empty selection (to clear selection)
features/JAL-1725chimeraListener
tree
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commitdiff
2015-05-05
gmungoc
JAL-1725 first version of Jetty server / chimera select...
tree
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commitdiff
2015-03-26
gmungoc
Merge develop to Release_2_8_3_Branch
tree
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commitdiff
2015-03-06
Jim Procter
JAL-1683 replace year/version strings with tokens in...
tree
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commitdiff
2014-12-22
Jim Procter
Merge: 497958b 68dcaa7
tree
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commitdiff
2014-12-15
Jim Procter
JAL-1620 version bump and release notes
tree
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commitdiff
2014-11-27
Jim Procter
JAL-674 unused variable
tree
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commitdiff
2014-11-18
Jim Procter
JAL-674 make temperature factor, local secondary struct...
tree
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commitdiff
2014-11-17
gmungoc
JAL-1528 bug fixes and adjustments to Chimera interface
tree
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commitdiff
2014-11-13
gmungoc
merge
tree
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commitdiff
2014-11-12
gmungoc
JAL-1528 bug fixes and adjustments to Chimera interface
tree
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commitdiff
2014-11-12
Jim Procter
JAL-974 fix class contamination for jalviewLite build
tree
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commitdiff
2014-11-12
Jim Procter
JAL-674 use the getMapping/transfer to transfer annotat...
tree
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commitdiff
2014-11-12
Jim Procter
JAL-674 note about broken .transfer method (expect...
tree
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commitdiff
2014-11-12
Jim Procter
JAL-674 javadoc
tree
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commitdiff
2014-10-31
Jim Procter
JAL-674 JAL-961 pass row reference to handler to check...
tree
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commitdiff
2014-10-30
Jim Procter
JAL-674 propagate annotation onto mapped sequence and...
tree
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commitdiff
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