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JAL-2325 reword ‘tame tooltip’ JAL-1723 release note
[jalview.git]
/
src
/
jalview
/
2016-08-31
gmungoc
JAL-2077 more javadoc
tree
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commitdiff
2016-08-31
gmungoc
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2016-08-31
Jim Procter
JAL-2157 JAL-2154 simplify CanshowProducts code to...
tree
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commitdiff
2016-08-31
Jim Procter
JAL-2034 fix logic so recalcConservation(true) returns...
tree
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commitdiff
2016-08-31
Jim Procter
JAL-2034 moved ‘isDefinedGroup’ flag to a test method...
tree
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commitdiff
2016-08-31
Jim Procter
JAL-2034 remove todo - answer is yes!
tree
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commitdiff
2016-08-31
gmungoc
JAL-2077 check for isPopupTrigger() in mousePressed...
tree
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commitdiff
2016-08-31
tcofoegbu
JAL-2148 further enhancment to CA HETATM processing
tree
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commitdiff
2016-08-30
Jim Procter
Merge branch 'develop' into merge/develop_bug/JAL-2154p...
merge/develop_bug/JAL-2154projectMappings
tree
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commitdiff
2016-08-30
Jim Procter
JAL-2154 always compare canonicalised DBRefEntry source...
tree
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commitdiff
2016-08-30
Jim Procter
JAL-2154 simplify expression
tree
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commitdiff
2016-08-30
gmungoc
JAL-2183 defensive check for openFrameCount < 0 (should...
tree
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commitdiff
2016-08-30
gmungoc
JAL-2183 simplified database tree actionPerformed,...
tree
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commitdiff
2016-08-30
gmungoc
JAL-2183 revised change (= no change)
tree
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commitdiff
2016-08-30
gmungoc
JAL-2183 formatter added @Override (only)
tree
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commitdiff
2016-08-30
gmungoc
JAL-2183 removed redundant (overriden) add panel to...
tree
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commitdiff
2016-08-30
Jim Procter
Merge branch 'develop' into merge/develop_bug/JAL-2154p...
tree
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commitdiff
2016-08-29
Jim Procter
JAL-2154 don’t synthesise multiple CDS|<Acc> sequences...
tree
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commitdiff
2016-08-29
Jim Procter
JAL-2154 filter out dbrefs that already match primary...
tree
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commitdiff
2016-08-29
Jim Procter
JAL-2154 refactor if (for easier breakpoint) and formatting
tree
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commitdiff
2016-08-29
Jim Procter
JAL-2154 canonical dbsources are lowercased before...
tree
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commitdiff
2016-08-29
Jim Procter
JAL-2154 ENA specific Ensembl canonical db prefixes
tree
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commitdiff
2016-08-29
gmungoc
JAL-1841 robustness fix
bug/JAL-1841rnaSecStr
tree
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commitdiff
2016-08-26
Jim Procter
JAL-2154 patch regression on DbRefFetcher due to PDB...
tree
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commitdiff
2016-08-26
Jim Procter
JAL-2106 fix (last one!) remove the Sequence.sourceDBRe...
bug/JAL-2154projectMappings
tree
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commitdiff
2016-08-26
Jim Procter
JAL-2154 check that xref is a coding xref before adding...
tree
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commitdiff
2016-08-26
Jim Procter
JAL-2154 don’t add any remaining xrefed sequences of...
tree
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commitdiff
2016-08-26
gmungoc
Merge branch 'develop' into bug/JAL-1841rnaSecStr
tree
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commitdiff
2016-08-26
gmungoc
JAL-2049 set Ensembl variant source to ENSEMBL if ...
tree
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commitdiff
2016-08-26
Jim Procter
JAL-2154 drop PDB from Protein db list to remove from...
tree
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commitdiff
2016-08-26
gmungoc
JAL-1854 comment switch case fallthrough
tree
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commitdiff
2016-08-25
Jim Procter
JAL-2106 JAL-2154 cross-refs from Ensembl should verify...
tree
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commitdiff
2016-08-25
Jim Procter
JAL-2106 tighten DBRefEntry primary seq test for PDB
tree
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commitdiff
2016-08-25
Jim Procter
JAL-2154 JAL-2106 transfer primary refs to CDS for...
tree
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commitdiff
2016-08-25
Jim Procter
JAL-2154 copy and paste error
tree
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commitdiff
2016-08-25
gmungoc
JAL-1854 missing case break statements added
tree
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commitdiff
2016-08-25
Jim Procter
Merge branch 'trailm' into trial_fixMakeCDSDBRefPropagation
tree
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commitdiff
2016-08-25
Jim Procter
Merge branch 'refactor/JAL-2106_sourceDbRef_revision...
tree
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commitdiff
2016-08-25
Jim Procter
Merge branch 'develop' into bug/JAL-2154projectMappings
tree
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commitdiff
2016-08-25
Jim Procter
Merge branch 'develop' into refactor/JAL-2106_sourceDbR...
tree
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commitdiff
2016-08-25
gmungoc
JAL-2178 remove duplicate Uniprot db source
tree
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commitdiff
2016-08-24
Jim Procter
JAL-2106 tidy up and comments for DBRefFetcher
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
2016-08-24
Jim Procter
JAL-2106 removed setSourceDBRef, refactor getSourceDBRe...
tree
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commitdiff
2016-08-24
Jim Procter
JAL-2106 stricter check for 1:1 mapping (same numbering...
tree
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commitdiff
2016-08-24
Jim Procter
JAL-2106 rejig test to minimally verify patch that...
tree
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commitdiff
2016-08-24
Jim Procter
JAL-2106 formatting
tree
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commitdiff
2016-08-24
Jim Procter
JAL-2106 DBRefEntry.isPrimary() minimal test & implemen...
tree
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commitdiff
2016-08-24
Jim Procter
JAL-2106 convenience method to find all dbsource names...
tree
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commitdiff
2016-08-24
gmungoc
JAL-1355 correct 'thereshold' to 'threshold' in message...
tree
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commitdiff
2016-08-24
gmungoc
JAL-1424 removed unused and duplicated message keys
tree
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commitdiff
2016-08-24
gmungoc
JAL-1424 tidy / recode MessageManager calls to support...
tree
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commitdiff
2016-08-24
gmungoc
JAL-1854 removed pointless method override
tree
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commitdiff
2016-08-24
gmungoc
JAL-1424 removed two redundant (overwritten) setText...
tree
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commitdiff
2016-08-24
gmungoc
JAL-1424 corrected Message bundle lookup key
tree
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commitdiff
2016-08-24
gmungoc
JAL-1424 undo i18n of exception message
tree
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commitdiff
2016-08-24
gmungoc
JAL-1854 declare immutable class as final
tree
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commitdiff
2016-08-24
gmungoc
JAL-1424 recode calls to MessageManager to allow code...
tree
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commitdiff
2016-08-24
gmungoc
JAL-2151 port fix to applet
tree
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commitdiff
2016-08-23
Jim Procter
JAL-2154 propagate from contig to CDS after constructin...
tree
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commitdiff
2016-08-23
Jim Procter
JAL-2154 should only add mappings between dataset sequences
tree
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commitdiff
2016-08-23
Jim Procter
JAL-2154 - only copy DBRef from contig to new CDS seque...
tree
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commitdiff
2016-08-23
Jim Procter
Merge branch 'develop' into bug/JAL-2154projectMappings
tree
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commitdiff
2016-08-23
gmungoc
JAL-2176 unused field / methods removed
tree
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commitdiff
2016-08-23
gmungoc
JAL-2174 markColumns() refactored inside ColumnSelection
tree
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commitdiff
2016-08-22
gmungoc
JAL-1448 corrected for backwards compatibility for...
tree
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commitdiff
2016-08-22
gmungoc
JAL-2175 code tidying
tree
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commitdiff
2016-08-22
gmungoc
JAL-2175 code/test fixes/tidy for PFAM/MSF/JSON roundtrip
tree
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commitdiff
2016-08-22
Jim Procter
JAL-2154 verify recovered xref sequence not already...
tree
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commitdiff
2016-08-22
Jim Procter
JAL-2154 regression warning - should never recover...
tree
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commitdiff
2016-08-22
Jim Procter
JAL-2154 always check dataset sequence for sequence...
tree
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commitdiff
2016-08-22
gmungoc
JAL-2011 adjust method to fix failing unit test
tree
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commitdiff
2016-08-19
gmungoc
JAL-2174 bug fixes + refactoring to allow + unit tests
tree
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commitdiff
2016-08-19
Jim Procter
JAL-2154 - possible patch .. but leads to new stringify...
tree
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commitdiff
2016-08-19
Jim Procter
JAL-2154 reorder the dataset sequences according to...
tree
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commitdiff
2016-08-19
Jim Procter
JAL-2154 belt-and-braces patch:
tree
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commitdiff
2016-08-19
Jim Procter
JAL-2154 verify mapping’s sequenceI ref has been resolv...
tree
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commitdiff
2016-08-19
Jim Procter
JAL-2154 refactor setSequenceAt to replaceSequenceAt...
tree
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commitdiff
2016-08-18
gmungoc
Merge branch 'develop' into bug/JAL-1841rnaSecStr
tree
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commitdiff
2016-08-18
gmungoc
JAL-2077 using Platform method to check for Ctrl-down
tree
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commitdiff
2016-08-18
gmungoc
JAL-1445 status message '...not containing...' for...
tree
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commitdiff
2016-08-18
gmungoc
JAL-1693 show warning dialog if unable to make CDS...
tree
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commitdiff
2016-08-18
gmungoc
JAL-1855 fail gracefully if XML has no <sequence> element
tree
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commitdiff
2016-08-18
gmungoc
JAL-2077 handling Cmd-click in scale panel for Mac...
tree
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commitdiff
2016-08-18
gmungoc
JAL-2001 return copy of selection in getSelected()
tree
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commitdiff
2016-08-17
gmungoc
JAL-2146 status message now with formatted residue...
tree
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commitdiff
2016-08-17
gmungoc
JAL-2173 don't remove annotation from hidden columns
tree
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commitdiff
2016-08-17
gmungoc
JAL-2172 reverted to not sorting column selection
tree
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commitdiff
2016-08-17
gmungoc
JAL-2105 rest versions updated to 4.6, change log link...
tree
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commitdiff
2016-08-17
gmungoc
JAL-2172 handle case where column selection is not...
tree
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commitdiff
2016-08-16
Jim Procter
JAL-2154 make sure any new sequences via DBRefEntry...
tree
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commitdiff
2016-08-16
Jim Procter
JAL-2154 always resolve dataset sequences when creating...
tree
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commitdiff
2016-08-16
gmungoc
JAL-2171 matching bracket default character for rna...
tree
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commitdiff
2016-08-16
gmungoc
Merge branch 'develop' into bug/JAL-1841rnaSecStr
tree
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commitdiff
2016-08-15
tcofoegbu
JAL-1128 fix for truncated bottom boarder pixels in...
tree
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commitdiff
2016-08-15
tcofoegbu
JAL-1128 fix for truncated bottom boarder pixels in...
tree
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commitdiff
2016-08-15
tcofoegbu
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2016-08-15
tcofoegbu
JAL-1919 Added improvement to ensure consistence of...
tree
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commitdiff
2016-08-13
Jim Procter
JAL-2154 refactor CrossRef UI code to its own class
tree
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commitdiff
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