git://source.jalview.org / jalview.git / search
? search:
summary | shortlog | log | commit | commitdiff | tree
first ⋅ prev ⋅ next
JAL-2795 calculated trees are now passed along as Newick strings
2018-01-10 kjvdheideJAL-2795 calculated trees are now passed along as Newick...
commit | commitdiff | tree
2018-01-10 kjvdheideJAL-2795 disabled most tests for now
 commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 file identifying lines are turned to lowercase...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 correct nexus parser is now created
 commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 Creating jalview sequence now requires the...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 added derive sequence when creating jalview...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 getNodeSequences returns a list now instead...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 added check for null node sequences during...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 allow for non-xsd validating phyloxml parsing
 commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 check no longer errors if the sequence is...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 added check for sequences already being present...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 put the sequence setting in if statement ...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 added Aptx factory method reading directly...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 added nexus specific parser settings
 commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 broke off the phylogenetic file formats into...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 parser is now File based (instead of FileParse...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 Parse returns a TreeI array again
 commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 node sequence is now immediately filled in...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 added forester --> jalview sequence converter
 commit | commitdiff | tree
2018-01-09 kjvdheideJAL-2805 added getter in trees for retrieving all node...
commit | commitdiff | tree
2018-01-09 kjvdheideJAL-1953 moved DataConversions to Forester package
 commit | commitdiff | tree
2018-01-08 kjvdheideJAL-2844 changed threshold from double to float
 commit | commitdiff | tree
2018-01-08 kjvdheideJAL-2844 start on moving tree partitioning code into...
commit | commitdiff | tree
2018-01-06 kjvdheideJAL-2877 added forester as jar once again
 commit | commitdiff | tree
2018-01-06 kjvdheideJAL-281 first line also checked for PhyloXML identification
 commit | commitdiff | tree
2018-01-06 kjvdheideJAL-2871 aptx Configuration now created through input...
commit | commitdiff | tree
2018-01-05 kjvdheideJAL-281 ForesterParser now extends from AlignFile
 commit | commitdiff | tree
2018-01-04 kjvdheideJAL-1953 Moved config to resources folder
 commit | commitdiff | tree
2018-01-04 kjvdheideJAL-281 ForesterParser factory methods added
 commit | commitdiff | tree
2018-01-02 kjvdheideJAL-1953 start work on storing nodes in a map per tree...
commit | commitdiff | tree
2017-12-21 kjvdheideJAL-281 added file identify criteria for PhyloXML and...
commit | commitdiff | tree
2017-12-20 kjvdheideJAL-2874 made the actionlistener slightly clearer
 commit | commitdiff | tree
2017-12-20 kjvdheideJAL-2838 JAL-2872 added sorting from the Aptx frame...
commit | commitdiff | tree
2017-12-20 kjvdheideJAL-281 moved utility methods to .io package
 commit | commitdiff | tree
2017-12-20 kjvdheideJAL-281 split up TreeParser into separate format parsers
 commit | commitdiff | tree
2017-12-19 kjvdheideJAL-281 created Nexus and PhyloXML parser classes
 commit | commitdiff | tree
2017-12-19 kjvdheideJAL-281 cleared out useless tree parser class
 commit | commitdiff | tree
2017-12-19 kjvdheideJAL-281 added phyloxml and nexus to jalview fileformats
 commit | commitdiff | tree
2017-12-18 kjvdheideJAL-1953 moved now-generic methods outside of Aptx...
commit | commitdiff | tree
2017-12-18 kjvdheideJAL-1953 -External from all interfaces names
 commit | commitdiff | tree
2017-12-18 kjvdheideJAL-1953 attempt at changing Aptx's font to Jalview's
 commit | commitdiff | tree
2017-12-18 kjvdheideJAL-2844 cladogram no longer vertically aligned (was...
commit | commitdiff | tree
2017-12-18 kjvdheideMerge branch 'kjvdh/features/PhylogenyViewer' of
 commit | commitdiff | tree
2017-12-18 kjvdheideJAL-2844 made null tree nodes return null wrappers...
commit | commitdiff | tree
2017-12-18 kjvdheideMerge branch 'kjvdh/features/PhylogenyViewer' into
 commit | commitdiff | tree
2017-12-18 kjvdheideJAL-1953 redundant tree interface instantiation removed
 commit | commitdiff | tree
2017-12-15 kjvdheideJAL-2852 EPS saving code ported from TreePanel to Aptx.
 commit | commitdiff | tree
2017-12-15 kjvdheideJAL-1953 added Y coordinate getter method
 commit | commitdiff | tree
2017-12-15 kjvdheideJAL-2852 merged the EPS button adding from main branch...
commit | commitdiff | tree
2017-12-15 kjvdheideJAL-1953 node comparing now includes checking node...
commit | commitdiff | tree
2017-12-15 kjvdheideJAL-1953 removed deprecated interfaces
 commit | commitdiff | tree
2017-12-15 kjvdheideJAL-2852 added EPS export button to File menu
 commit | commitdiff | tree
2017-12-14 kjvdheideJAL-1953 more progress on interfaces, jalview binding...
commit | commitdiff | tree
2017-12-12 kjvdheideJAL-2874 filtering alignment now also works when just...
commit | commitdiff | tree
2017-12-12 kjvdheideJAL-2874 added filtering when a subtree is selected
 commit | commitdiff | tree
2017-12-12 kjvdheideMerge branch 'kjvdh/features/PhylogenyViewer' of https...
commit | commitdiff | tree
2017-12-12 kjvdheideJAL-2877 disabled Jalview's own viewer for testing
 commit | commitdiff | tree
2017-12-11 kjvdheideJAL-2872 hide sort button in Aptx unless it's actually...
commit | commitdiff | tree
2017-12-11 kjvdheideJAL-2877 disabled Jalview's default tree viewer when...
commit | commitdiff | tree
2017-12-11 kjvdheideJAL-1953 fixed interface misnaming
 commit | commitdiff | tree
2017-12-11 kjvdheideJAL-1953 start on making everything interface based
 commit | commitdiff | tree
2017-12-08 kjvdheideJAL-1953 renaming of concrete implementation as well
 commit | commitdiff | tree
2017-12-08 kjvdheideJAL-2844 reallow clicks to the left of the root (groups...
commit | commitdiff | tree
2017-12-07 kjvdheideJAL-2866 and .jar removed again
 commit | commitdiff | tree
2017-12-07 kjvdheideJAL-2866 forester .jar added to lib
 commit | commitdiff | tree
2017-12-07 kjvdheideJAL-2872 Redundant Aptx GUI menu items hidden, sorting...
commit | commitdiff | tree
2017-12-06 kjvdheideJAL-2794 disabled branch colors on selection for now
 commit | commitdiff | tree
2017-12-06 kjvdheideJAL-2871 Added check whether configuration has been...
commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2838 Sorting from the alignment view menu now functional
 commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2847 Rearranging and cleaning up of database query...
commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2794 associate leaves now iterates through ALL...
commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2847 various error popups for db querying now have...
commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2847 Strings for the various tree databases added
 commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2847 if pfam id is detected in first sequence its...
commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2847 added pfam to DBRef source name lookup
 commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2805 JAL-2847 JAL-281 added file path to Aptx frame...
commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2838 tree viewer interface expanded to include...
commit | commitdiff | tree
2017-12-05 kjvdheideMerge remote-tracking branch 'origin/develop' into...
commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2838 filled in actionPerformed of the tree sort...
commit | commitdiff | tree
2017-12-05 kjvdheideJAL-2838 Aptx frames now appear in the alignment sorting...
commit | commitdiff | tree
2017-12-03 kjvdheideJAL-2847 start of cleaning up db loading code
 commit | commitdiff | tree
2017-12-03 kjvdheideJAL-2844 rearranging code
 commit | commitdiff | tree
2017-11-29 kjvdheideJAL-2844 check added for clicks left of root node
 commit | commitdiff | tree
2017-11-29 kjvdheideJAL-2844 entirely X coord based partitioning
 commit | commitdiff | tree
2017-11-29 kjvdheideJAL-2844 somewhat better repainting
 commit | commitdiff | tree
2017-11-29 kjvdheideJAL-2844 temporary kludge to draw a line
 commit | commitdiff | tree
2017-11-29 kjvdheideJAL-2844 added grouping to alignment panel based on...
commit | commitdiff | tree
2017-11-29 kjvdheideJAL-2844 start on colouring back onto the alignment
 commit | commitdiff | tree
2017-11-29 kjvdheideJAL-2844 added colouring to partition selection
 commit | commitdiff | tree
2017-11-28 kjvdheideJAL-2844 added offset to x coord to make it equal 0...
commit | commitdiff | tree
2017-11-28 kjvdheideMerge remote-tracking branch 'origin/develop' into...
commit | commitdiff | tree
2017-11-28 kjvdheideJAL-2844 first go at partitioning, based on actual...
commit | commitdiff | tree
2017-11-27 kjvdheideJAL-2852 JAL-2853 forester update
 commit | commitdiff | tree
2017-11-27 kjvdheideJAL-2844 added selection threshold (non-adjusted calculation...
commit | commitdiff | tree
2017-11-27 kjvdheideJAL-2799 re-enabled change listener for Aptx's tabs...
commit | commitdiff | tree
2017-11-27 kjvdheideJAL-2844 line drawing at mouse click added on top of...
commit | commitdiff | tree
2017-11-27 kjvdheideJAL-2853 colours now enabled by default in Aptx
 commit | commitdiff | tree
2017-11-26 kjvdheideJAL-2847 first rough attempt at loading in via database ID
 commit | commitdiff | tree
2017-11-24 kjvdheideJAL-2799 rearranged AptxInit code
 commit | commitdiff | tree
2017-11-24 kjvdheideJAL-2799 ALL trees are now loaded in as separate Aptx...
commit | commitdiff | tree
next