Merge branch 'forpush/JAL-674_dssp' into develop
[jalview.git] / src /
2014-10-21 Jim ProcterJAL-1551 reinstate missing import
2014-10-21 Jim ProcterJAL-674 initial implementation - only need to extract...
2014-10-21 Jim ProcterJAL-674 JAL-1551 imports dropped during merge
2014-10-21 Jim ProcterJAL-674 remove any spurious PDBEntrys generated by...
2014-10-21 Jim ProcterJAL-674 methods and test for PDB derived annotation...
2014-10-21 Jim ProcterJAL-674 store ID in MCview.PDBfile calcId string, not...
2014-10-21 Jim ProcterJAL-674 don't create multiple secondary structure lines...
2014-10-21 Jim ProcterJAL-674 test for presence of annotation derived from...
2014-10-21 Jim ProcterJAL-1551 formatting
2014-10-21 Jim ProcterJAL-674 patch for duplicate row bug
2014-10-21 Jim ProcterJAL-1551 formatting
2014-10-21 Jim ProcterJAL-674 patch to ensure existing annotation is properly...
2014-10-21 Jim ProcterJAL-1551 source formatting
2014-10-21 Jim ProcterJAL-674 JAL-207 getTers for aligned sequences in datase...
2014-10-21 Jim ProcterJAL-674 refactor method to match and transfer annotatio...
2014-10-21 Jim ProcterJAL-1551 formatting
2014-10-21 Jim ProcterMerge branch 'features/JAL-1264_showHideAnnotations...
2014-10-21 Jim ProcterJAL-1551 crlf changes
2014-10-16 Jim ProcterMerge branch 'feature/JAL-674_dssp' into features/JAL... features/JAL-1264_showHideAnnotations
2014-10-15 Jim ProcterJAL-1551 crlf changes due to checkout with text=auto
2014-10-15 Jim ProcterJAL-1551 crlf changes due to checkout with text=auto
2014-10-15 Jim ProcterJAL-674 always try to extract secondary structure when...
2014-10-15 Jim ProcterJAL-674 support preservation of any annotation created...
2014-10-15 Jim ProcterJAL-674 make transferAnnotation method static
2014-10-15 Jim ProcterJAL-348 JAL-674 JAL-1564 TODO and implementation error...
2014-10-15 Jim ProcterJAL-674 patch logic to test whether old and new sequenc...
2014-10-15 Jim ProcterJAL-674 JAL-1305 JAL-348 new liftOver method and test...
2014-10-10 Jim ProcterJAL-674 disable secondary structure annotation when...
2014-10-10 Jim ProcterJAL-674 typo
2014-10-10 Jim ProcterJAL-674 new constructors to pass flags about annotating...
2014-10-10 Jim ProcterJAL-674 parser flag to control secondary structure...
2014-10-10 Jim ProcterJAL-674 change jalview.io.AlignFile to allow parsing...
2014-10-10 gmungocJAL-1481 wrap tooltip in html
2014-10-10 gmungocJAL-1264 added getAlignmentAnnotations(calcId, label)
2014-10-10 gmungocJAL-1264 reverted (removed added method)
2014-10-09 Jim Procterpatch fixes JAL-1558
2014-10-08 gmungocMerge branch 'Release_2_8_2_Branch' into
2014-10-07 Jim ProcterJAL-1557 partial implementation - need to think about...
2014-10-07 Jim Procterpatch for JAL-1151 - select whole sequence when double...
2014-10-07 Jim ProcterJAL-1421 remove Vector and pass a list
2014-10-07 Jim ProcterJAL-1151 source tidy
2014-10-07 gmungocJAL-1264 wip
2014-10-07 gmungocJAL-1554 handle left-then-right click on sequence id
2014-10-06 Jim ProcterMerge branch 'Release_2_8_2_Branch' into JAL-429_phylip...
2014-10-06 Jim ProcterJAL-1500 JAL-1265 patch to parse PDB database refs...
2014-10-06 Jim ProcterJAL-654 remove any annotation rows for chain specific...
2014-10-06 Jim ProcterJAL-654 JAL-1264 sequence associated annotation is...
2014-10-06 Jim ProcterJAL-1115 TODO remove use of java.util.Vector
2014-10-06 Jim ProcterJAL-654 javadoc createDatasetSequence and transferAnnot...
2014-10-06 Jim ProcterJAL-654_dssp formatting and javadoc
2014-10-03 Charles OfoegbuIntegration of David Corsars Phylip File support
2014-10-03 Jim ProcterJAL-1355 removed all top level html tags from message...
2014-10-03 gmungocJAL-1264 javadoc update
2014-10-03 gmungocJAL-1264 show/hide annotations; JAL-1481 Find tooltip
2014-10-03 gmungocJAL-1506 delete all warning; JAL-1264 show/hide annotations
2014-10-03 gmungocJAL-1264 refactored show/hide annotation types includin...
2014-10-03 gmungocJAL-1481 search expression validation
2014-10-03 gmungocJAL-1506 correct exit on close align frame
2014-10-03 gmungocJAL-914 don't open help window twice
2014-10-03 Jim ProcterMerge branch 'Release_2_8_2_Branch' into Release_2_8_2_...
2014-09-27 darolmarJAL-1355
2014-09-26 darolmarJAL-1355
2014-09-25 gmungocJAL-1264 tidy up use of MouseListener for showHideAnnot...
2014-09-25 gmungocJAL-1264 alternative (popup menu) way to show/hide...
2014-09-24 gmungocJAL-1264 further refactoring of panel + unit tests
2014-09-23 darolmarJAL-1355
2014-09-23 gmungocJAL-1264 first cut of panel for annotation show/hide...
2014-09-19 darolmarJAL-1355
2014-09-19 darolmarJAL-1355
2014-09-18 gmungocMerge branch 'JAL-1360_Branch' into Release_2_8_2_Branch
2014-09-18 gmungocJAL-1360 Javadoc, Vector replaced with ArrayList, code...
2014-09-18 gmungocJAL-1360 Javadoc/JUnit
2014-09-18 gmungocJAL-1360 refactored utility method to ColorUtils class
2014-09-17 gmungocCorrect colour for text when colour set
2014-09-17 gmungocJAL-1360 refactored for consistent lighter/darker for
2014-09-17 gmungocJAL-1360 workaround for user defined colours display...
2014-09-12 j.procter@dundee... JAL-1486 JAL-1543 pushed alignment viewport->view-...
2014-09-12 j.procter@dundee... formatting and organise imports
2014-09-12 j.procter@dundee... JAL-1486 fix: pass selected region to jalview.io via...
2014-09-12 j.procter@dundee... JAL-1199 add stockholm output to list of AppletFormatAd...
2014-09-12 j.procter@dundee... JAL-1486 JAL-535 refactor code for trimming alignment...
2014-09-12 j.procter@dundee... JAL-535 tidy interface definition and documentation
2014-07-22 j.procter@dundee... JAL-1333 fix imports
2014-07-22 j.procter@dundee... JAL-1333 JAL-1533 todo to get Chimera superposing prope...
2014-07-22 j.procter@dundee... JAL-1333 more superposition debugging and deadlock...
2014-07-18 j.procter@dundee... JAL-1333 allow reuse of existing chimera for new or...
2014-07-18 j.procter@dundee... JAL-1333 more refinements - deadlocks still possible...
2014-07-18 j.procter@dundee... JAL-674 futzing with bugs
2014-07-18 j.procter@dundee... JAL-795 take colour from annotation if colour is present
2014-07-18 j.procter@dundee... ensure the dataset is instantiated before materialising...
2014-07-18 j.procter@dundee... JAL-1379 new look JPred results
2014-07-18 j.procter@dundee... JAL-1520 switch between Protein and non-canonical RNA...
2014-07-08 j.procter@dundee... JAL-1333 allow reuse of existing viewers (of a specifie...
2014-07-08 j.procter@dundee... JAL-1333 more efficient color statement
2014-07-04 j.procter@dundee... JAL-1333 more abstraction and refactoring and working...
2014-07-03 j.procter@dundee... Merge branch 'Release_2_8_2_Branch' into features/JAL...
2014-07-03 j.procter@dundee... Merge branch 'hotfix/JAL-1530' into develop
2014-07-03 j.procter@dundee... Merge branch 'hotfix/JAL-1530' into Release_2_8_2_Branch
2014-07-03 Jim Procterfixes JAL-1530
2014-07-02 Jim Procterrevalidate appears to have gone away ?? (java 1.7 upgra...
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