| 2017-12-05 |
kjvdheide | JAL-2847 added pfam to DBRef source name lookup
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commit | commitdiff | tree |
| 2017-12-05 |
kjvdheide | JAL-2805 JAL-2847 JAL-281 added file path to Aptx frame...
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commit | commitdiff | tree |
| 2017-12-05 |
kjvdheide | JAL-2838 tree viewer interface expanded to include...
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commit | commitdiff | tree |
| 2017-12-05 |
kjvdheide | Merge remote-tracking branch 'origin/develop' into...
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commit | commitdiff | tree |
| 2017-12-05 |
kjvdheide | JAL-2838 filled in actionPerformed of the tree sort...
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commit | commitdiff | tree |
| 2017-12-05 |
kjvdheide | JAL-2838 Aptx frames now appear in the alignment sorting...
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commit | commitdiff | tree |
| 2017-12-03 |
kjvdheide | JAL-2847 start of cleaning up db loading code
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commit | commitdiff | tree |
| 2017-12-03 |
kjvdheide | JAL-2844 rearranging code
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commit | commitdiff | tree |
| 2017-11-29 |
kjvdheide | JAL-2844 check added for clicks left of root node
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commit | commitdiff | tree |
| 2017-11-29 |
kjvdheide | JAL-2844 entirely X coord based partitioning
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commit | commitdiff | tree |
| 2017-11-29 |
kjvdheide | JAL-2844 somewhat better repainting
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commit | commitdiff | tree |
| 2017-11-29 |
kjvdheide | JAL-2844 temporary kludge to draw a line
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commit | commitdiff | tree |
| 2017-11-29 |
kjvdheide | JAL-2844 added grouping to alignment panel based on...
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commit | commitdiff | tree |
| 2017-11-29 |
kjvdheide | JAL-2844 start on colouring back onto the alignment
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commit | commitdiff | tree |
| 2017-11-29 |
kjvdheide | JAL-2844 added colouring to partition selection
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commit | commitdiff | tree |
| 2017-11-28 |
kjvdheide | JAL-2844 added offset to x coord to make it equal 0...
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commit | commitdiff | tree |
| 2017-11-28 |
kjvdheide | Merge remote-tracking branch 'origin/develop' into...
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commit | commitdiff | tree |
| 2017-11-28 |
kjvdheide | JAL-2844 first go at partitioning, based on actual...
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commit | commitdiff | tree |
| 2017-11-27 |
kjvdheide | JAL-2852 JAL-2853 forester update
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commit | commitdiff | tree |
| 2017-11-27 |
kjvdheide | JAL-2844 added selection threshold (non-adjusted calculation...
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commit | commitdiff | tree |
| 2017-11-27 |
kjvdheide | JAL-2799 re-enabled change listener for Aptx's tabs...
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commit | commitdiff | tree |
| 2017-11-27 |
kjvdheide | JAL-2844 line drawing at mouse click added on top of...
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commit | commitdiff | tree |
| 2017-11-27 |
kjvdheide | JAL-2853 colours now enabled by default in Aptx
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commit | commitdiff | tree |
| 2017-11-26 |
kjvdheide | JAL-2847 first rough attempt at loading in via database ID
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commit | commitdiff | tree |
| 2017-11-24 |
kjvdheide | JAL-2799 rearranged AptxInit code
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commit | commitdiff | tree |
| 2017-11-24 |
kjvdheide | JAL-2799 ALL trees are now loaded in as separate Aptx...
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commit | commitdiff | tree |
| 2017-11-24 |
kjvdheide | JAL-2794 binding now exclusively supports single tab...
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commit | commitdiff | tree |
| 2017-11-24 |
kjvdheide | Merge branch 'kjvdh/features/PhylogenyViewer' of https...
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commit | commitdiff | tree |
| 2017-11-24 |
kjvdheide | JAL-2838 start on sorting
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commit | commitdiff | tree |
| 2017-11-24 |
kjvdheide | JAL-2838 made getAssociatedPanels public
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commit | commitdiff | tree |
| 2017-11-22 |
kjvdheide | JAL-2794 reworked, everything routes via avport.sendselectio...
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commit | commitdiff | tree |
| 2017-11-22 |
kjvdheide | JAL-2794 removed several redundancies in the binding...
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commit | commitdiff | tree |
| 2017-11-22 |
kjvdheide | JAL-281 fixed misplaced quote in example text
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commit | commitdiff | tree |
| 2017-11-22 |
kjvdheide | JAL-2844 mouse press code rearranged to prepare for...
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commit | commitdiff | tree |
| 2017-11-22 |
kjvdheide | JAL-2847 small things, filled in actionperformeds
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commit | commitdiff | tree |
| 2017-11-22 |
kjvdheide | JAL-2799 fixed selections not carrying over to tabs...
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commit | commitdiff | tree |
| 2017-11-21 |
kjvdheide | JAL-2847 added database menu items and listeners
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commit | commitdiff | tree |
| 2017-11-21 |
kjvdheide | Merge remote-tracking branch 'origin/releases/Release_2_10_3...
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commit | commitdiff | tree |
| 2017-11-21 |
kjvdheide | JAL-281 added string label for loading from database
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commit | commitdiff | tree |
| 2017-11-20 |
kjvdheide | Merge remote-tracking branch 'origin/releases/Release_2_10_3...
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commit | commitdiff | tree |
| 2017-11-20 |
kjvdheide | JAL-2799 JAL-2805 JAL-281 multiple trees can now be...
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commit | commitdiff | tree |
| 2017-11-20 |
kjvdheide | JAL-281 added history box to tree url input window
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commit | commitdiff | tree |
| 2017-11-20 |
kjvdheide | JAL-281 option pane with error handling for selecting...
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commit | commitdiff | tree |
| 2017-11-17 |
kjvdheide | JAL-2805 code refactor (actionPerformed cleaned up...
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commit | commitdiff | tree |
| 2017-11-17 |
kjvdheide | JAL-2805 reorganized code, tree building goes through...
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commit | commitdiff | tree |
| 2017-11-17 |
kjvdheide | JAL-2795 removed unneeded distancematrix length/width...
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commit | commitdiff | tree |
| 2017-11-17 |
kjvdheide | JAL-2844 changed Aptx config to make all cladogram...
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commit | commitdiff | tree |
| 2017-11-17 |
kjvdheide | Merge branch 'kjvdh/features/PhylogenyViewer' of
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commit | commitdiff | tree |
| 2017-11-17 |
kjvdheide | JAL-2805 couple of method name changes
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commit | commitdiff | tree |
| 2017-11-17 |
kjvdheide | JAL-281 added menu items and listeners to load from...
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commit | commitdiff | tree |
| 2017-11-17 |
kjvdheide | JAL-281 changed load associated tree GUI item to menu...
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commit | commitdiff | tree |
| 2017-11-16 |
kjvdheide | JAL-2805 expanded tree and treenode interfaces
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commit | commitdiff | tree |
| 2017-11-16 |
kjvdheide | JAL-2805 loads of file reorganizing, interfaces expanded
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commit | commitdiff | tree |
| 2017-11-15 |
kjvdheide | JAL-2805 functional binding on loading associated trees
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commit | commitdiff | tree |
| 2017-11-14 |
kjvdheide | JAL-2805 viewport is passed along to the tree parser
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commit | commitdiff | tree |
| 2017-11-14 |
kjvdheide | JAL-2795 added duplication check when calculated nodes...
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commit | commitdiff | tree |
| 2017-11-14 |
kjvdheide | JAL-2805 added getters for hashmaps filled with associated...
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commit | commitdiff | tree |
| 2017-11-14 |
kjvdheide | JAL-2805 added static method for logging duplications...
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commit | commitdiff | tree |
| 2017-11-14 |
kjvdheide | JAL-2805 more sensible interface method params
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commit | commitdiff | tree |
| 2017-11-14 |
kjvdheide | JAL-2805 finished up interface comments
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commit | commitdiff | tree |
| 2017-11-14 |
kjvdheide | JAL-2805 re-enabled one2many checks
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commit | commitdiff | tree |
| 2017-11-14 |
kjvdheide | JAL-2805 interface comments, progress on associating...
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 interface comments
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 some more name changes
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 more name changes for clarity
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 more interface name changing
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 name changed of interfaces for consistency
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 Jalview sequence binding interface expanded
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 TreeParser now interface based
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 Added tree building interface
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 name change
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 deleted old Aptx class for loading just Newick...
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 more interface work
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2794 removed unused interface
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 undid accidental double (buggy) binding, more...
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 warning messages added if Forester detects...
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commit | commitdiff | tree |
| 2017-11-13 |
kjvdheide | JAL-2805 First try at loading tree through Forester...
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commit | commitdiff | tree |
| 2017-11-10 |
kjvdheide | JAL-2794 reorganized node select code, added subtree...
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commit | commitdiff | tree |
| 2017-11-10 |
kjvdheide | JAL-2794 comments comments comments
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commit | commitdiff | tree |
| 2017-11-10 |
kjvdheide | JAL-2794 most method parameters/class variables made...
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commit | commitdiff | tree |
| 2017-11-10 |
kjvdheide | JAL-2794 comments, selected node now doesn't have to...
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commit | commitdiff | tree |
| 2017-11-09 |
kjvdheide | JAL-2794 PaintRefresher support, Aptx node selection...
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commit | commitdiff | tree |
| 2017-11-09 |
kjvdheide | JAL-2794 interface comment
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commit | commitdiff | tree |
| 2017-11-09 |
kjvdheide | JAL-2794 Made HashMap with Nodes as keys and sequences...
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commit | commitdiff | tree |
| 2017-11-08 |
kjvdheide | JAL-2794 Aptx instances get their parent alignment...
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commit | commitdiff | tree |
| 2017-11-08 |
kjvdheide | JAL-2794 Cleaning up tree conversion, sequences are...
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commit | commitdiff | tree |
| 2017-11-08 |
kjvdheide | JAL-2794 getters and setters for finding nodes in forester...
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commit | commitdiff | tree |
| 2017-11-08 |
kjvdheide | JAL-2795 created static class for forester conversions
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commit | commitdiff | tree |
| 2017-11-08 |
kjvdheide | JAL-2794 Interface name change (oops)
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commit | commitdiff | tree |
| 2017-11-08 |
kjvdheide | JAL-2794 made JalviewTreeViewerBinding an interface
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commit | commitdiff | tree |
| 2017-11-08 |
kjvdheide | JAL-2794 Added getter for AlignmentViewport to TreeBuilder
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commit | commitdiff | tree |
| 2017-11-06 |
kjvdheide | JAL-2794 simplified/clarified associating leaves to...
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commit | commitdiff | tree |
| 2017-11-03 |
kjvdheide | JAL-2794 created tree viewer binding class
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commit | commitdiff | tree |
| 2017-11-03 |
kjvdheide | JAL-2795 bunch of cleanup and comments
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commit | commitdiff | tree |
| 2017-11-02 |
kjvdheide | JAL-2795 added back test loop for Aptx tree naming...
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commit | commitdiff | tree |
| 2017-11-02 |
kjvdheide | JAL-2795 Reverted code changes needed to cluster from...
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commit | commitdiff | tree |
| 2017-11-02 |
kjvdheide | JAL-2795 Forester now NJ-clusters the DistanceMatrix...
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commit | commitdiff | tree |
| 2017-11-02 |
kjvdheide | JAL-2795 moved matrix conversion to the ForesterMatrix...
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commit | commitdiff | tree |
| 2017-11-01 |
kjvdheide | JAL-2795 Sequence[] references now as SequenceI[] ...
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commit | commitdiff | tree |
| 2017-11-01 |
kjvdheide | JAL-2795 removed sequences[] class variable, more comments
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commit | commitdiff | tree |
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