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jalview.git
2018-02-02 kjvdheideJAL-2826 added isCollapsed boolean to tree nodes commit | commitdiff | tree | snapshot
2018-01-30 kjvdheideJAL-1953 added configuration font setters commit | commitdiff | tree | snapshot
2018-01-29 kjvdheideJAL-1953 some more comments, moved JalviewBinding commit | commitdiff | tree | snapshot
2018-01-28 kjvdheideJAL-1953 more javadoc comments commit | commitdiff | tree | snapshot
2018-01-26 kjvdheideJAL-1953 first pass of adding javadoc, some methods... commit | commitdiff | tree | snapshot
2018-01-26 kjvdheideJAL-2856 added refreshing of Aptx view when tree frame... commit | commitdiff | tree | snapshot
2018-01-26 kjvdheideJAL-2798 label name changed commit | commitdiff | tree | snapshot
2018-01-25 kjvdheideJAL-2844 allow clicks outside of the tree range again... commit | commitdiff | tree | snapshot
2018-01-25 kjvdheideJAL-2844 updated forester.jar for drawing partitioning... commit | commitdiff | tree | snapshot
2018-01-25 kjvdheideMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2018-01-25 kjvdheideJAL-2844 branch colour setter improved commit | commitdiff | tree | snapshot
2018-01-24 kjvdheideJAL-2866 remove forester's submodule folder commit | commitdiff | tree | snapshot
2018-01-24 kjvdheideJAL-2866 remove forester from .gitmodules commit | commitdiff | tree | snapshot
2018-01-24 kjvdheideJAL-2872 added setters for GUI sizes commit | commitdiff | tree | snapshot
2018-01-24 kjvdheideJAL-2798 added != null check for Aptx trees commit | commitdiff | tree | snapshot
2018-01-24 Jim ProcterJAL-2858 update release date and rejig what's new message commit | commitdiff | tree | snapshot
2018-01-23 Jim ProcterJAL-2858 fix what's new commit | commitdiff | tree | snapshot
2018-01-23 Jim ProcterJAL-2858 update latest release notes link in TOC commit | commitdiff | tree | snapshot
2018-01-23 Jim ProcterJAL-2859 release notes commit | commitdiff | tree | snapshot
2018-01-23 Jim ProcterJAL-2858 update release notes commit | commitdiff | tree | snapshot
2018-01-22 Jim ProcterJAL-2858 release notes for 2.10.3b1 (including revision... commit | commitdiff | tree | snapshot
2018-01-22 Jim ProcterJAL-2858 bump version number for 2.10.3b1 commit | commitdiff | tree | snapshot
2018-01-22 kjvdheideRevert "JAL-2890 added CIPRES client .jar" commit | commitdiff | tree | snapshot
2018-01-22 kjvdheideRevert "JAL-2890 proper .jar this time and copied cipre... commit | commitdiff | tree | snapshot
2018-01-22 kjvdheideRevert "JAL-2890 added CIPRES' javadoc .jar to Jalview... commit | commitdiff | tree | snapshot
2018-01-19 kjvdheideJAL-2805 small redundant method call fix commit | commitdiff | tree | snapshot
2018-01-19 kjvdheideJAL-2890 added CIPRES' javadoc .jar to Jalview lib commit | commitdiff | tree | snapshot
2018-01-19 kjvdheideJAL-2890 proper .jar this time and copied cipres' examp... commit | commitdiff | tree | snapshot
2018-01-19 kjvdheideJAL-2890 added CIPRES client .jar commit | commitdiff | tree | snapshot
2018-01-18 gmungocJAL-2810 JAL-2886 i18n commit | commitdiff | tree | snapshot
2018-01-18 gmungocJAL-2679 update query id to actual case of retrieved... commit | commitdiff | tree | snapshot
2018-01-18 kjvdheideJAL-2805 disabled Nexus file identification(as its... commit | commitdiff | tree | snapshot
2018-01-17 kjvdheideJAL-1951 added comment to NexusFile clarifying Forester... commit | commitdiff | tree | snapshot
2018-01-17 kjvdheideJAL-2794 tree viewer frame now has its binding object... commit | commitdiff | tree | snapshot
2018-01-17 kjvdheideJAL-2798 now added to active views when associated... commit | commitdiff | tree | snapshot
2018-01-17 kjvdheideJAL-281 added initialising trees to FileLoader if filef... commit | commitdiff | tree | snapshot
2018-01-17 kjvdheideJAL-281 added isTreeFile() boolean commit | commitdiff | tree | snapshot
2018-01-17 gmungocJAL-2679 case-insensitive comparison of query and retri... commit | commitdiff | tree | snapshot
2018-01-16 kjvdheideJAL-2798 rough saving/loading a single Aptx view functi... commit | commitdiff | tree | snapshot
2018-01-16 kjvdheideJAL-2798 comments commit | commitdiff | tree | snapshot
2018-01-16 kjvdheideJAL-2798 tree frame is now added to active views when... commit | commitdiff | tree | snapshot
2018-01-16 kjvdheideJAL-2798 added methods for getting/adding external... commit | commitdiff | tree | snapshot
2018-01-16 gmungocJAL-2679 use object_type=Transcript for lookup of Paren... commit | commitdiff | tree | snapshot
2018-01-16 kjvdheideJAL-2798 added method to tree for writing to jalview... commit | commitdiff | tree | snapshot
2018-01-12 kjvdheideJAL-2805 check actually works now commit | commitdiff | tree | snapshot
2018-01-12 kjvdheideMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2018-01-12 kjvdheideJAL-2798 Aptx is now saved to the project commit | commitdiff | tree | snapshot
2018-01-12 kjvdheideJAL-2805 removed unused Aptx instance creation code commit | commitdiff | tree | snapshot
2018-01-12 kjvdheideJAL-2805 added getter and setter for jalview associatio... commit | commitdiff | tree | snapshot
2018-01-12 kiramtJAL-2886 trivial unit test fix commit | commitdiff | tree | snapshot
2018-01-11 gmungocJAL-2754 renamed proguard.jar to include version number commit | commitdiff | tree | snapshot
2018-01-11 gmungocJAL-2754 5.3.3 update of proguard.jar commit | commitdiff | tree | snapshot
2018-01-11 gmungocJAL-2754 update to specify Java 1.8(+) commit | commitdiff | tree | snapshot
2018-01-11 kiramtMerge remote-tracking branch 'origin/task/JAL-2662... commit | commitdiff | tree | snapshot
2018-01-11 kiramtJAL-2662 Updated README task/JAL-2662 commit | commitdiff | tree | snapshot
2018-01-11 kjvdheideJAL-2884 old Newick trees are now loaded in as Aptx... commit | commitdiff | tree | snapshot
2018-01-11 kjvdheideJAL-2795 simplified instance creation from calculation commit | commitdiff | tree | snapshot
2018-01-11 kjvdheideJAL-2798 alignmentviewport's current external tree... commit | commitdiff | tree | snapshot
2018-01-10 kjvdheideJAL-1953 named various threads commit | commitdiff | tree | snapshot
2018-01-10 kjvdheideJAL-2795 calculated trees are now passed along as Newic... commit | commitdiff | tree | snapshot
2018-01-10 kjvdheideJAL-2795 disabled most tests for now commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 file identifying lines are turned to lowercase... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 correct nexus parser is now created commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 Creating jalview sequence now requires the... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 added derive sequence when creating jalview... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 getNodeSequences returns a list now instead... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 added check for null node sequences during... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 allow for non-xsd validating phyloxml parsing commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 check no longer errors if the sequence is... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 added check for sequences already being presen... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 put the sequence setting in if statement ... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 added Aptx factory method reading directly... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 added nexus specific parser settings commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 broke off the phylogenetic file formats into... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 parser is now File based (instead of FileParse... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 Parse returns a TreeI array again commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 node sequence is now immediately filled in... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 added forester --> jalview sequence converter commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-2805 added getter in trees for retrieving all node... commit | commitdiff | tree | snapshot
2018-01-09 kjvdheideJAL-1953 moved DataConversions to Forester package commit | commitdiff | tree | snapshot
2018-01-08 kjvdheideJAL-2844 changed threshold from double to float commit | commitdiff | tree | snapshot
2018-01-08 kjvdheideJAL-2844 start on moving tree partitioning code into... commit | commitdiff | tree | snapshot
2018-01-06 kjvdheideJAL-2877 added forester as jar once again commit | commitdiff | tree | snapshot
2018-01-06 kjvdheideJAL-281 first line also checked for PhyloXML identification commit | commitdiff | tree | snapshot
2018-01-06 kjvdheideJAL-2871 aptx Configuration now created through input... commit | commitdiff | tree | snapshot
2018-01-05 kjvdheideJAL-281 ForesterParser now extends from AlignFile commit | commitdiff | tree | snapshot
2018-01-04 kjvdheideJAL-1953 Moved config to resources folder commit | commitdiff | tree | snapshot
2018-01-04 kjvdheideJAL-281 ForesterParser factory methods added commit | commitdiff | tree | snapshot
2018-01-02 kjvdheideJAL-1953 start work on storing nodes in a map per tree... commit | commitdiff | tree | snapshot
2017-12-21 kjvdheideJAL-281 added file identify criteria for PhyloXML and... commit | commitdiff | tree | snapshot
2017-12-20 kjvdheideJAL-2874 made the actionlistener slightly clearer commit | commitdiff | tree | snapshot
2017-12-20 kjvdheideJAL-2838 JAL-2872 added sorting from the Aptx frame... commit | commitdiff | tree | snapshot
2017-12-20 kjvdheideJAL-281 moved utility methods to .io package commit | commitdiff | tree | snapshot
2017-12-20 kjvdheideJAL-281 split up TreeParser into separate format parsers commit | commitdiff | tree | snapshot
2017-12-19 kjvdheideJAL-281 created Nexus and PhyloXML parser classes commit | commitdiff | tree | snapshot
2017-12-19 kjvdheideJAL-281 cleared out useless tree parser class commit | commitdiff | tree | snapshot
2017-12-19 kjvdheideJAL-281 added phyloxml and nexus to jalview fileformats commit | commitdiff | tree | snapshot
2017-12-18 kjvdheideJAL-1953 moved now-generic methods outside of Aptx... commit | commitdiff | tree | snapshot
2017-12-18 kjvdheideJAL-1953 -External from all interfaces names commit | commitdiff | tree | snapshot
2017-12-18 kjvdheideJAL-1953 attempt at changing Aptx's font to Jalview's commit | commitdiff | tree | snapshot
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