git://source.jalview.org
/
jalview.git
/ shortlog
commit
grep
author
committer
pickaxe
?
search:
re
summary
| shortlog |
log
|
commit
|
commitdiff
|
tree
first ⋅ prev ⋅
next
jalview.git
2017-11-16
kjvdheide
JAL-2805 loads of file reorganizing, interfaces expanded
commit
|
commitdiff
|
tree
|
snapshot
2017-11-15
kjvdheide
JAL-2805 functional binding on loading associated trees
commit
|
commitdiff
|
tree
|
snapshot
2017-11-14
kjvdheide
JAL-2805 viewport is passed along to the tree parser
commit
|
commitdiff
|
tree
|
snapshot
2017-11-14
kjvdheide
JAL-2795 added duplication check when calculated nodes...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-14
kjvdheide
JAL-2805 added getters for hashmaps filled with associa...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-14
kjvdheide
JAL-2805 added static method for logging duplications...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-14
kjvdheide
JAL-2805 more sensible interface method params
commit
|
commitdiff
|
tree
|
snapshot
2017-11-14
kjvdheide
JAL-2805 finished up interface comments
commit
|
commitdiff
|
tree
|
snapshot
2017-11-14
kjvdheide
JAL-2805 re-enabled one2many checks
commit
|
commitdiff
|
tree
|
snapshot
2017-11-14
kjvdheide
JAL-2805 interface comments, progress on associating...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 interface comments
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 some more name changes
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 more name changes for clarity
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 more interface name changing
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 name changed of interfaces for consistency
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 Jalview sequence binding interface expanded
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 TreeParser now interface based
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 Added tree building interface
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 name change
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 deleted old Aptx class for loading just Newick...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 more interface work
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2794 removed unused interface
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 undid accidental double (buggy) binding, more...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 warning messages added if Forester detects...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-13
kjvdheide
JAL-2805 First try at loading tree through Forester...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-10
kjvdheide
JAL-2794 reorganized node select code, added subtree...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-10
kjvdheide
JAL-2794 comments comments comments
commit
|
commitdiff
|
tree
|
snapshot
2017-11-10
kjvdheide
JAL-2794 most method parameters/class variables made...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-10
kjvdheide
JAL-2794 comments, selected node now doesn't have to...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-09
kjvdheide
JAL-2794 PaintRefresher support, Aptx node selection...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-09
kjvdheide
JAL-2794 interface comment
commit
|
commitdiff
|
tree
|
snapshot
2017-11-09
kjvdheide
JAL-2794 Made HashMap with Nodes as keys and sequences...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-08
kjvdheide
JAL-2794 Aptx instances get their parent alignment...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-08
kjvdheide
JAL-2794 Cleaning up tree conversion, sequences are...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-08
kjvdheide
JAL-2794 getters and setters for finding nodes in fores...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-08
kjvdheide
JAL-2795 created static class for forester conversions
commit
|
commitdiff
|
tree
|
snapshot
2017-11-08
kjvdheide
JAL-2794 Interface name change (oops)
commit
|
commitdiff
|
tree
|
snapshot
2017-11-08
kjvdheide
JAL-2794 made JalviewTreeViewerBinding an interface
commit
|
commitdiff
|
tree
|
snapshot
2017-11-08
kjvdheide
JAL-2794 Added getter for AlignmentViewport to TreeBuilder
commit
|
commitdiff
|
tree
|
snapshot
2017-11-06
kjvdheide
JAL-2794 simplified/clarified associating leaves to...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-03
kjvdheide
JAL-2794 created tree viewer binding class
commit
|
commitdiff
|
tree
|
snapshot
2017-11-03
kjvdheide
JAL-2795 bunch of cleanup and comments
commit
|
commitdiff
|
tree
|
snapshot
2017-11-02
kjvdheide
JAL-2795 added back test loop for Aptx tree naming...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-02
kjvdheide
JAL-2795 Reverted code changes needed to cluster from...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-02
kjvdheide
JAL-2795 Forester now NJ-clusters the DistanceMatrix...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-02
kjvdheide
JAL-2795 moved matrix conversion to the ForesterMatrix...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-01
kjvdheide
JAL-2795 Sequence[] references now as SequenceI[] ...
commit
|
commitdiff
|
tree
|
snapshot
2017-11-01
kjvdheide
JAL-2795 removed sequences[] class variable, more comments
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 neater error message
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 added error catching for invalid identifier
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 changed getting index of identifier to Stream...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 rebuilt MatrixConverter to be purely static
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 finalized method arguments; commited forester...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 removed unneeded for loop (woops) and initiali...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 implemented getting/setting identifiers
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 added comments links from ForesterMatrix to...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 removed now unneeded values variable in Forest...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 add get for all matrix values to MatrixI ...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-30
kjvdheide
JAL-2795 foresterMatrix now stores distance values...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-29
kjvdheide
JAL-2795 more matrix implementations
commit
|
commitdiff
|
tree
|
snapshot
2017-10-28
kjvdheide
JAL-2795 moved ForesterMatrix to ext.forester
commit
|
commitdiff
|
tree
|
snapshot
2017-10-28
kjvdheide
JAL-2795 Added get and set values to the converted...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-27
kjvdheide
JAL-2795 start of Jalview's Matrix conversion
commit
|
commitdiff
|
tree
|
snapshot
2017-10-27
kjvdheide
Merge branch 'develop' of https://source.jalview.org...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-27
gmungoc
JAL-2526 updated javadoc
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
Start of matrix converter
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
Added proper title to aptx trees
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
test name change
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
Made FreeUpMemoryTest compatible with modified Calculat...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
Merge branch 'develop' of https://source.jalview.org...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
JAL-2698 update version and cut release branch
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
JAL-2546 release notes
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
JAL-2488 patch causes of NPE during testStoreAndRecover...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
Added getters for scoremodel & scoreparams in TreeBuilder
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
Merge branch 'feature/JAL-2488finalize' into develop
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
TreeBuilder now stores the used ScoreModel and ScoreParams
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
JAL-2036 2.10.3 release notes
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
small name fixes in TreeBuilder
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
Added TreeBuilder as parameter to the converter constructor
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
Name changed of aptx treebuilder to treeconverter
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
added getSeqData to TreeBuilder
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
JAL-2793 cancelling font changed dialog didn't call...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
Added full names to the tree algorithm enum
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
added abbreviations
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
added enum for the different tree algorithms
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
Couple more thread names
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
named most Jalview threads
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
JAL-2548 release notes
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
Merge branch 'bug/JAL-2776toggleGroupColour' into develop
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
JAL-2684 JAL-2685 release notes
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
JAL-2685 tidy up html doc
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
Merge branch 'features/JAL-2685pairwiseSeqLimits' into...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
Jim Procter
JAL-2392 test asserts for progressbar creation on the...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-26
kjvdheide
removed accidental added enters, commented out broken...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-25
kjvdheide
finished up tests for trees made from jalview data
commit
|
commitdiff
|
tree
|
snapshot
2017-10-25
kjvdheide
Merge branch 'develop' of https://source.jalview.org...
commit
|
commitdiff
|
tree
|
snapshot
2017-10-25
kjvdheide
Implemented distance tests
commit
|
commitdiff
|
tree
|
snapshot
2017-10-25
kjvdheide
Implemented tree title test for tree made from Jalview
commit
|
commitdiff
|
tree
|
snapshot
2017-10-25
kjvdheide
Added tree title test
commit
|
commitdiff
|
tree
|
snapshot
2017-10-25
kjvdheide
Removed redundant annotations
commit
|
commitdiff
|
tree
|
snapshot
next