2017-11-17 |
kjvdheide | JAL-2805 reorganized code, tree building goes through... |
tree | commitdiff |
2017-11-17 |
kjvdheide | JAL-2795 removed unneeded distancematrix length/width... |
tree | commitdiff |
2017-11-17 |
kjvdheide | Merge branch 'kjvdh/features/PhylogenyViewer' of |
tree | commitdiff |
2017-11-17 |
kjvdheide | JAL-2805 couple of method name changes |
tree | commitdiff |
2017-11-17 |
kjvdheide | JAL-281 added menu items and listeners to load from... |
tree | commitdiff |
2017-11-17 |
kjvdheide | JAL-281 changed load associated tree GUI item to menu... |
tree | commitdiff |
2017-11-16 |
kjvdheide | JAL-2805 expanded tree and treenode interfaces |
tree | commitdiff |
2017-11-16 |
kjvdheide | JAL-2805 loads of file reorganizing, interfaces expanded |
tree | commitdiff |
2017-11-15 |
kjvdheide | JAL-2805 functional binding on loading associated trees |
tree | commitdiff |
2017-11-14 |
kjvdheide | JAL-2805 viewport is passed along to the tree parser |
tree | commitdiff |
2017-11-14 |
kjvdheide | JAL-2795 added duplication check when calculated nodes... |
tree | commitdiff |
2017-11-14 |
kjvdheide | JAL-2805 added getters for hashmaps filled with associa... |
tree | commitdiff |
2017-11-14 |
kjvdheide | JAL-2805 added static method for logging duplications... |
tree | commitdiff |
2017-11-14 |
kjvdheide | JAL-2805 more sensible interface method params |
tree | commitdiff |
2017-11-14 |
kjvdheide | JAL-2805 finished up interface comments |
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2017-11-14 |
kjvdheide | JAL-2805 re-enabled one2many checks |
tree | commitdiff |
2017-11-14 |
kjvdheide | JAL-2805 interface comments, progress on associating... |
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2017-11-13 |
kjvdheide | JAL-2805 interface comments |
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2017-11-13 |
kjvdheide | JAL-2805 some more name changes |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 more name changes for clarity |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 more interface name changing |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 name changed of interfaces for consistency |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 Jalview sequence binding interface expanded |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 TreeParser now interface based |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 Added tree building interface |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 name change |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 deleted old Aptx class for loading just Newick... |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 more interface work |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2794 removed unused interface |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 undid accidental double (buggy) binding, more... |
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2017-11-13 |
kjvdheide | JAL-2805 warning messages added if Forester detects... |
tree | commitdiff |
2017-11-13 |
kjvdheide | JAL-2805 First try at loading tree through Forester... |
tree | commitdiff |
2017-11-10 |
kjvdheide | JAL-2794 reorganized node select code, added subtree... |
tree | commitdiff |
2017-11-10 |
kjvdheide | JAL-2794 comments comments comments |
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2017-11-10 |
kjvdheide | JAL-2794 most method parameters/class variables made... |
tree | commitdiff |
2017-11-10 |
kjvdheide | JAL-2794 comments, selected node now doesn't have to... |
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2017-11-09 |
kjvdheide | JAL-2794 PaintRefresher support, Aptx node selection... |
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2017-11-09 |
kjvdheide | JAL-2794 interface comment |
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2017-11-09 |
kjvdheide | JAL-2794 Made HashMap with Nodes as keys and sequences... |
tree | commitdiff |
2017-11-08 |
kjvdheide | JAL-2794 Aptx instances get their parent alignment... |
tree | commitdiff |
2017-11-08 |
kjvdheide | JAL-2794 Cleaning up tree conversion, sequences are... |
tree | commitdiff |
2017-11-08 |
kjvdheide | JAL-2795 created static class for forester conversions |
tree | commitdiff |
2017-11-08 |
kjvdheide | JAL-2794 Interface name change (oops) |
tree | commitdiff |
2017-11-08 |
kjvdheide | JAL-2794 made JalviewTreeViewerBinding an interface |
tree | commitdiff |
2017-11-08 |
kjvdheide | JAL-2794 Added getter for AlignmentViewport to TreeBuilder |
tree | commitdiff |
2017-11-06 |
kjvdheide | JAL-2794 simplified/clarified associating leaves to... |
tree | commitdiff |
2017-11-03 |
kjvdheide | JAL-2794 created tree viewer binding class |
tree | commitdiff |
2017-11-03 |
kjvdheide | JAL-2795 bunch of cleanup and comments |
tree | commitdiff |
2017-11-02 |
kjvdheide | JAL-2795 added back test loop for Aptx tree naming... |
tree | commitdiff |
2017-11-02 |
kjvdheide | JAL-2795 Reverted code changes needed to cluster from... |
tree | commitdiff |
2017-11-02 |
kjvdheide | JAL-2795 Forester now NJ-clusters the DistanceMatrix... |
tree | commitdiff |
2017-11-02 |
kjvdheide | JAL-2795 moved matrix conversion to the ForesterMatrix... |
tree | commitdiff |
2017-11-01 |
kjvdheide | JAL-2795 Sequence[] references now as SequenceI[] ... |
tree | commitdiff |
2017-11-01 |
kjvdheide | JAL-2795 removed sequences[] class variable, more comments |
tree | commitdiff |
2017-10-30 |
kjvdheide | JAL-2795 added error catching for invalid identifier |
tree | commitdiff |
2017-10-30 |
kjvdheide | JAL-2795 changed getting index of identifier to Stream... |
tree | commitdiff |
2017-10-30 |
kjvdheide | JAL-2795 rebuilt MatrixConverter to be purely static |
tree | commitdiff |
2017-10-30 |
kjvdheide | JAL-2795 finalized method arguments; commited forester... |
tree | commitdiff |
2017-10-30 |
kjvdheide | JAL-2795 removed unneeded for loop (woops) and initiali... |
tree | commitdiff |
2017-10-30 |
kjvdheide | JAL-2795 implemented getting/setting identifiers |
tree | commitdiff |
2017-10-30 |
kjvdheide | JAL-2795 added comments links from ForesterMatrix to... |
tree | commitdiff |
2017-10-30 |
kjvdheide | JAL-2795 removed now unneeded values variable in Forest... |
tree | commitdiff |
2017-10-30 |
kjvdheide | JAL-2795 add get for all matrix values to MatrixI ... |
tree | commitdiff |
2017-10-30 |
kjvdheide | JAL-2795 foresterMatrix now stores distance values... |
tree | commitdiff |
2017-10-29 |
kjvdheide | JAL-2795 more matrix implementations |
tree | commitdiff |
2017-10-28 |
kjvdheide | JAL-2795 moved ForesterMatrix to ext.forester |
tree | commitdiff |
2017-10-28 |
kjvdheide | JAL-2795 Added get and set values to the converted... |
tree | commitdiff |
2017-10-27 |
kjvdheide | JAL-2795 start of Jalview's Matrix conversion |
tree | commitdiff |
2017-10-27 |
kjvdheide | Merge branch 'develop' of https://source.jalview.org... |
tree | commitdiff |
2017-10-27 |
gmungoc | JAL-2526 updated javadoc |
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2017-10-26 |
kjvdheide | Start of matrix converter |
tree | commitdiff |
2017-10-26 |
kjvdheide | Added proper title to aptx trees |
tree | commitdiff |
2017-10-26 |
kjvdheide | Made FreeUpMemoryTest compatible with modified Calculat... |
tree | commitdiff |
2017-10-26 |
kjvdheide | Merge branch 'develop' of https://source.jalview.org... |
tree | commitdiff |
2017-10-26 |
Jim Procter | JAL-2488 patch causes of NPE during testStoreAndRecover... |
tree | commitdiff |
2017-10-26 |
kjvdheide | Added getters for scoremodel & scoreparams in TreeBuilder |
tree | commitdiff |
2017-10-26 |
Jim Procter | Merge branch 'feature/JAL-2488finalize' into develop |
tree | commitdiff |
2017-10-26 |
kjvdheide | TreeBuilder now stores the used ScoreModel and ScoreParams |
tree | commitdiff |
2017-10-26 |
kjvdheide | small name fixes in TreeBuilder |
tree | commitdiff |
2017-10-26 |
kjvdheide | Added TreeBuilder as parameter to the converter constructor |
tree | commitdiff |
2017-10-26 |
kjvdheide | Name changed of aptx treebuilder to treeconverter |
tree | commitdiff |
2017-10-26 |
kjvdheide | added getSeqData to TreeBuilder |
tree | commitdiff |
2017-10-26 |
Jim Procter | JAL-2793 cancelling font changed dialog didn't call... |
tree | commitdiff |
2017-10-26 |
kjvdheide | Added full names to the tree algorithm enum |
tree | commitdiff |
2017-10-26 |
kjvdheide | added abbreviations |
tree | commitdiff |
2017-10-26 |
kjvdheide | added enum for the different tree algorithms |
tree | commitdiff |
2017-10-26 |
kjvdheide | Couple more thread names |
tree | commitdiff |
2017-10-26 |
kjvdheide | named most Jalview threads |
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2017-10-26 |
Jim Procter | Merge branch 'bug/JAL-2776toggleGroupColour' into develop |
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2017-10-26 |
Jim Procter | Merge branch 'features/JAL-2685pairwiseSeqLimits' into... |
tree | commitdiff |
2017-10-26 |
kjvdheide | removed accidental added enters, commented out broken... |
tree | commitdiff |
2017-10-25 |
kjvdheide | finished up tests for trees made from jalview data |
tree | commitdiff |
2017-10-25 |
kjvdheide | Merge branch 'develop' of https://source.jalview.org... |
tree | commitdiff |
2017-10-25 |
Jim Procter | Merge branch 'bug/JAL-2617mappedStopCodon' into develop |
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2017-10-25 |
Jim Procter | Merge branch 'bug/JAL-2667mouseWheelWrapped' into develop |
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2017-10-25 |
Jim Procter | Merge branch 'bug/JAL-2727closeAllFreeMemory' into... |
tree | commitdiff |
2017-10-25 |
kjvdheide | Merge branch 'develop' of https://source.jalview.org... |
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2017-10-25 |
Jim Procter | Merge branch 'bugs/JAL-2779_osx_dialogsequencingbroke... |
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2017-10-25 |
Jim Procter | JAL-2779 remove empty block and if statement |
tree | commitdiff |
2017-10-25 |
Jim Procter | Merge branch 'bug/JAL-2392_deadlockonpdbdisplay' into... |
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