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2015-03-18	gmungoc	JAL-1675 Chimera highlight side-chain; timeout added...	commit \| commitdiff \| tree
2015-03-18	gmungoc	Merge hack/JAL-1617 fake DBRef to develop	commit \| commitdiff \| tree
2015-03-18	gmungoc	JAL-845 map 'STOP' codons correctly	commit \| commitdiff \| tree
2015-03-17	gmungoc	JAL-1687 ignore case when determining if sequence matches...	commit \| commitdiff \| tree
2015-03-17	gmungoc	JAL-845 ensure cDNA consensus scales with font size	commit \| commitdiff \| tree
2015-03-17	gmungoc	JAL-845 provide a moveable divider for SplitFrame ...	commit \| commitdiff \| tree
2015-03-16	gmungoc	JAL-845 tweaks and bug fixes for split frame view	commit \| commitdiff \| tree
2015-03-13	gmungoc	JAL-845 refinements + tests for making mappings between...	commit \| commitdiff \| tree
2015-03-13	gmungoc	JAL-1686 @Override and/or TODO added to equals(Object...	commit \| commitdiff \| tree
2015-03-13	gmungoc	JAL-1684 allow X in protein to map to untranslatable...	commit \| commitdiff \| tree
2015-03-13	gmungoc	JAL-1685 fixed	commit \| commitdiff \| tree
2015-03-12	gmungoc	JAL-1544 sequece now sequence	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-1684 better window size parameters; match up sequence...	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-1684 fix bug in AlignmentView constructor	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-1684 include JMOL jar for applet	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-1684 fix jars list, parameters for new example	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-845 start cDNA consensus on 'add alignment' (as...	commit \| commitdiff \| tree
2015-03-11	gmungoc	Merge branch 'develop' of https://source.jalview.org...	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-1685 further tests	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-845 smarter test for 'mappability' when adding...	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-1421 changed Vector to List<String> for protein...	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-1685 tests added for ambiguity codes (including...	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-845 cDNA mapping: select on sequence translation...	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-845 handle no profile without NPE!	commit \| commitdiff \| tree
2015-03-11	gmungoc	JAL-1684 applet example for SplitFrame view of cDNA...	commit \| commitdiff \| tree
2015-03-10	gmungoc	JAL-1680 group consensus speeded up with a different...	commit \| commitdiff \| tree
2015-03-10	gmungoc	JAL-1681 show cDNA consensus on protein alignment ...	commit \| commitdiff \| tree
2015-03-05	gmungoc	Merge branch 'develop' into features/JAL-845splitPaneMergeDe...	commit \| commitdiff \| tree
2015-03-05	gmungoc	JAL-845 minor tidy / tests / javadoc tweaks	commit \| commitdiff \| tree
2015-03-05	gmungoc	JAL-1270 tests added	commit \| commitdiff \| tree
2015-03-04	gmungoc	JAL-845 bug fixes correcting linked editing	commit \| commitdiff \| tree
2015-03-03	gmungoc	JAL-845 refactor / typo fix	commit \| commitdiff \| tree
2015-03-03	gmungoc	JAL-845 implement alignment of protein to match cDNA...	commit \| commitdiff \| tree
2015-03-03	gmungoc	JAL-1452 nucleotide/protein default colour; JAL-845...	commit \| commitdiff \| tree
2015-02-27	gmungoc	JAL-1452 distinct colour preferences for nucleotide...	commit \| commitdiff \| tree
2015-02-27	gmungoc	JAL-845 SplitFrame for "show product" and after aligning...	commit \| commitdiff \| tree
2015-02-25	gmungoc	JAL-1677 commenting use of AlignViewport.gatherViewsHere	commit \| commitdiff \| tree
2015-02-24	gmungoc	JAL-1677 Castor source changes	commit \| commitdiff \| tree
2015-02-24	gmungoc	JAL-845 set top and bottom seq id widths the same	commit \| commitdiff \| tree
2015-02-24	gmungoc	JAL-1677 save/restore SplitFrame to Jalview project	commit \| commitdiff \| tree
2015-02-23	gmungoc	JAL-845 repaint of complementary selection (applet)	commit \| commitdiff \| tree
2015-02-23	gmungoc	JAL-1619 split frame now offered in applet 'input from...	commit \| commitdiff \| tree
2015-02-20	gmungoc	JAL-1673 additional test (and trim of PDB resnum value)	commit \| commitdiff \| tree
2015-02-20	gmungoc	JAL-1675 correct highlighting in Chimera for mouseover...	commit \| commitdiff \| tree
2015-02-20	gmungoc	JAL-1665 create dataset sequences in applet	commit \| commitdiff \| tree
2015-02-20	gmungoc	JAL-1674 update both status bars when mousing over...	commit \| commitdiff \| tree
2015-02-19	gmungoc	JAL-845 applet colour by tree; translate as cDNA; pull...	commit \| commitdiff \| tree
2015-02-13	gmungoc	JAL-845 first rough applet SplitFrame (add parameter...	commit \| commitdiff \| tree
2015-02-12	gmungoc	JAL-1633 set file format on 'translate cDNA'	commit \| commitdiff \| tree
2015-02-12	gmungoc	Merge remote-tracking branch 'origin/merge/JAL-845_JAL...	commit \| commitdiff \| tree
2015-02-11	gmungoc	JAL-845 handling eXpand/Gather split frame views	commit \| commitdiff \| tree
2015-02-11	gmungoc	JAL-1264 button labels (for panel currently not linked...	commit \| commitdiff \| tree
2015-02-10	gmungoc	JAL-1264 unit tests fixed (have to explicit set annotation...	commit \| commitdiff \| tree
2015-02-09	gmungoc	Merge remote-tracking branch 'origin/develop' into	commit \| commitdiff \| tree
2015-02-06	gmungoc	JAL-845 further code/tests/refactoring	commit \| commitdiff \| tree
2015-02-03	gmungoc	comment only	commit \| commitdiff \| tree
2015-02-03	gmungoc	JAL-845 column mapping speed-up	commit \| commitdiff \| tree
2015-02-03	gmungoc	JAL-845 SplitFrame key bindings delegation to AlignFrame...	commit \| commitdiff \| tree
2015-02-03	gmungoc	JAL-845 preparation for awareness of AlignFrame in...	commit \| commitdiff \| tree
2015-02-03	gmungoc	JAL-845 redundant 'map to self' removed from buildSearchResults	commit \| commitdiff \| tree
2015-02-03	gmungoc	Comments added	commit \| commitdiff \| tree
2015-02-03	gmungoc	JAL-845 code/refactoring/tests related to linking DNA...	commit \| commitdiff \| tree
2015-01-30	gmungoc	JAL-845 linked protein/dna 'slave' further PoC functionality	commit \| commitdiff \| tree
2015-01-27	gmungoc	JAL-1588 new class renamed	commit \| commitdiff \| tree
2015-01-26	gmungoc	Merge branch 'features/JAL-1588saveChimeraSession'...	commit \| commitdiff \| tree
2015-01-26	gmungoc	JAL-1588 restoring saved Chimera session(s)	commit \| commitdiff \| tree
2015-01-23	gmungoc	JAL-1588 first working (?) restore of Chimera session...	commit \| commitdiff \| tree
2015-01-23	gmungoc	JAL-1619 javadoc/tidy	commit \| commitdiff \| tree
2015-01-23	gmungoc	JAL-1635 show warning if less than 3 columns selected...	commit \| commitdiff \| tree
2015-01-23	gmungoc	Random DNA generator tarted up	commit \| commitdiff \| tree
2015-01-22	gmungoc	JAL-1619 refactoring / tests to support 'align linked...	commit \| commitdiff \| tree
2015-01-20	gmungoc	JAL-1619 test that reordering cDNA does not change...	commit \| commitdiff \| tree
2015-01-20	gmungoc	JAL-1619 tweaked for better reusability	commit \| commitdiff \| tree
2015-01-19	gmungoc	JAL-1619 refactored cDNA translation; modified codon...	commit \| commitdiff \| tree
2015-01-19	gmungoc	JAL-1636 typed collections now in ResidueProperties	commit \| commitdiff \| tree
2015-01-19	gmungoc	JAL-1636 fix for mouseover of 'X' in translated protein	commit \| commitdiff \| tree
2015-01-18	gmungoc	JAL-1619 refactoring wip	commit \| commitdiff \| tree
2015-01-17	gmungoc	JAL-1619 further refactoring	commit \| commitdiff \| tree
2015-01-16	gmungoc	JAL-1619 refactoring in progress for Dna translation	commit \| commitdiff \| tree
2015-01-14	gmungoc	JAL-1619 AlignedCodonFrame in new alignment should...	commit \| commitdiff \| tree
2015-01-14	gmungoc	JAL-1619 modified repaint after 'Align As' action	commit \| commitdiff \| tree
2015-01-14	gmungoc	JAL-1619 Javadoc	commit \| commitdiff \| tree
2015-01-14	gmungoc	JAL-1629 .jar option removed from Alignment File Save...	commit \| commitdiff \| tree
2015-01-12	gmungoc	JAL-1619 load/align cDNA for protein (wip)	commit \| commitdiff \| tree
2015-01-09	gmungoc	JAL-1588 check Chimera session file still exists	commit \| commitdiff \| tree
2015-01-08	gmungoc	JAL-1588 part work save/restore of Chimera session	commit \| commitdiff \| tree
2015-01-07	gmungoc	JAL-845 TODO comment added	commit \| commitdiff \| tree
2015-01-07	gmungoc	JAL-1551 formatting applied	commit \| commitdiff \| tree
2015-01-07	gmungoc	JAL-1588 refactoring to StructureViewerBase and related	commit \| commitdiff \| tree
2015-01-06	gmungoc	JAL-1588 refactoring prior to 'save Chimera project'	commit \| commitdiff \| tree
2015-01-04	gmungoc	JAL-1619 first draft of 'linked protein and cDNA'	commit \| commitdiff \| tree
2014-12-28	gmungoc	Merge branch 'features/JAL-1596ChimeraREST' into develop	commit \| commitdiff \| tree
2014-12-28	gmungoc	JAL-845 first working linked edit protein -> cDNA	commit \| commitdiff \| tree
2014-12-16	gmungoc	JAL-1328 System.exit() removed as it aborts an entire...	commit \| commitdiff \| tree
2014-12-16	gmungoc	JAL-845 first simple unit tests added	commit \| commitdiff \| tree
2014-12-16	gmungoc	JAL-845 move main method to 'test' class (needs further...	commit \| commitdiff \| tree
2014-12-16	gmungoc	JAL-1618 feature parsing bug (and formatting)	commit \| commitdiff \| tree
2014-12-16	gmungoc	JAL-1619 refactorings: Map, StringBuilder, Override	commit \| commitdiff \| tree
2014-12-16	gmungoc	JAL-845 formatting only (block parentheses)	commit \| commitdiff \| tree
2014-12-16	gmungoc	JAL-1619 don't copy hidden or RNA SS annotations to...	commit \| commitdiff \| tree
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