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[jalview.git] / src / jalview / renderer / AnnotationRenderer.java

2018-03-16	gmungoc	Merge branch 'develop' into trialMerge	blob \| commitdiff
2018-03-07	gmungoc	JAL-2629 storage and lifecycle of alignment/group HMM...	blob \| commitdiff \| diff to current
2018-02-22	gmungoc	JAL-2629 tidy unit tests, constants etc	blob \| commitdiff \| diff to current
2018-02-20	gmungoc	Merge branch 'develop' into features/mchmmer	blob \| commitdiff \| diff to current
2018-02-06	kiramt	Merge branch 'develop' into feature/JAL-2759 feature/JAL-2759	blob \| commitdiff \| diff to current
2018-01-15	kiramt	JAL-2759 Rename findColumnPosition and adjustForHiddenC...	blob \| commitdiff \| diff to current
2018-01-10	gmungoc	JAL-1793 update spike branch to latest	blob \| commitdiff \| diff to current
2017-11-10	kiramt	JAL-2827 related fixes for stem and non-canonical annot... bug/JAL-2827	blob \| commitdiff \| diff to current
2017-11-09	kiramt	JAL-2827 Fix notched repaint of helix annotation when...	blob \| commitdiff \| diff to current
2017-10-03	gmungoc	JAL-2738 copy to spikes/mungo	blob \| commitdiff \| diff to current
2017-08-28	tzvanaalten	JAL-2629 add option to set HMM Logo letter height to...	blob \| commitdiff \| diff to current
2017-08-25	TZVanaalten	JAL-2629 add adjustable parameters to hmmbuild	blob \| commitdiff \| diff to current
2017-08-18	TZVanaalten	Merge branch 'develop' into features/hmmer	blob \| commitdiff \| diff to current
2017-08-16	Jim Procter	JAL-2418 source formatting	blob \| commitdiff \| diff to current
2017-08-04	TZVanaalten	JAL-2599 fixed information annotation buttons not working	blob \| commitdiff \| diff to current
2017-08-02	TZVanaalten	JAL-2599 fix for information annotation buttons	blob \| commitdiff \| diff to current
2017-07-27	TZVanaalten	JAL-2629 moved HMM storage location to placeholder...	blob \| commitdiff \| diff to current
2017-07-14	TZVanaalten	add partial button fix to annotation and statistics... features/hmmer_statistics	blob \| commitdiff \| diff to current
2017-07-12	TZVanaalten	test HMM annotaTION	blob \| commitdiff \| diff to current
2017-07-11	TZVanaalten	complete Information Content annotation	blob \| commitdiff \| diff to current
2017-06-09	gmungoc	JAL-2446 merged to spike branch	blob \| commitdiff \| diff to current
2017-04-24	kiramt	JAL-2388 Hidden cols separated from column selection...	blob \| commitdiff \| diff to current
2017-03-16	kiramt	JAL-2388 Applied ViewportRanges to code	blob \| commitdiff \| diff to current
2017-01-31	gmungoc	JAL-2371 rename global/viewportColourScheme to residueS...	blob \| commitdiff \| diff to current
2017-01-27	gmungoc	JAL-2371 CollectionColourScheme renamed ResidueShader...	blob \| commitdiff \| diff to current
2017-01-06	gmungoc	JAL-2371 correct Clustal, Blosum, PID colouring of...	blob \| commitdiff \| diff to current
2017-01-04	gmungoc	JAL-2371 CollectionColourScheme wraps ColourSchemeI	blob \| commitdiff \| diff to current
2016-11-17	gmungoc	JAL-98 ProfilesI container for profiles for columns	blob \| commitdiff \| diff to current
2016-11-02	gmungoc	JAL-98 ProfileI interface for Profile	blob \| commitdiff \| diff to current
2016-11-02	gmungoc	JAL-98 Profile and ResidueCount moved from analysis...	blob \| commitdiff \| diff to current
2016-10-25	Jim Procter	JAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch	blob \| commitdiff \| diff to current
2016-10-06	gmungoc	Merge branch 'develop' into bug/JAL-98consensusMemory	blob \| commitdiff \| diff to current
2016-10-06	Jim Procter	JAL-2089 Merge branch releases/Release_2_10_Branch...	blob \| commitdiff \| diff to current
2016-10-05	Jim Procter	JAL-2189 source formatting	blob \| commitdiff \| diff to current
2016-10-03	gmungoc	JAL-98 use Profile to store consensus, ResidueCount...	blob \| commitdiff \| diff to current
2016-09-22	gmungoc	JAL-2216 explicitly null AnnotationPanel and Annotation...	blob \| commitdiff \| diff to current
2016-08-29	gmungoc	JAL-1841 robustness fix bug/JAL-1841rnaSecStr	blob \| commitdiff \| diff to current
2016-08-26	gmungoc	Merge branch 'develop' into bug/JAL-1841rnaSecStr	blob \| commitdiff \| diff to current
2016-08-26	gmungoc	JAL-1854 comment switch case fallthrough	blob \| commitdiff \| diff to current
2016-08-12	gmungoc	JAL-1841 bug fixes / code tidy for rna SS rendering...	blob \| commitdiff \| diff to current
2016-04-04	Jim Procter	JAL-2001 drop isSelected(int) in favour of original...	blob \| commitdiff \| diff to current
2016-04-04	Jim Procter	JAL-2001 use fast column selection test	blob \| commitdiff \| diff to current
2016-01-11	gmungoc	JAL-1989 more unit tests and encapsulation for ColumnSe...	blob \| commitdiff \| diff to current
2015-10-16	Jim Procter	JAL-1925 update source version in license Release_2_9_0b2	blob \| commitdiff \| diff to current
2015-10-08	Jim Procter	JAL-1894 update year/version in copyright	blob \| commitdiff \| diff to current
2015-09-10	Jim Procter	JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin...	blob \| commitdiff \| diff to current
2015-09-10	Jim Procter	JAL-1645 source formatting and organise imports	blob \| commitdiff \| diff to current
2015-07-15	gmungoc	JAL-1813 only pair up A-Z with a-z if annotation is RNA	blob \| commitdiff \| diff to current
2015-07-08	gmungoc	JAL-1759 merge from develop	blob \| commitdiff \| diff to current
2015-07-07	tcofoegbu	JAL-1805 test envirionment separation	blob \| commitdiff \| diff to current
2015-03-26	gmungoc	Merge develop to Release_2_8_3_Branch	blob \| commitdiff \| diff to current
2015-03-06	Jim Procter	JAL-1683 replace year/version strings with tokens in...	blob \| commitdiff \| diff to current
2014-12-22	Jim Procter	Merge: 497958b 68dcaa7	blob \| commitdiff \| diff to current
2014-12-15	Jim Procter	JAL-1620 version bump and release notes	blob \| commitdiff \| diff to current
2014-11-23	Jim Procter	employ test and secondary structure character for deter...	blob \| commitdiff \| diff to current
2014-11-23	Jim Procter	JAL-1569 formatting	blob \| commitdiff \| diff to current
2014-07-18	j.procter@dundee...	JAL-1520 switch between Protein and non-canonical RNA...	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1520 fix unicode translation errors.	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1520 fix unicode translation errors.	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1517 source formatting	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1517 fix copyright for 2.8.2	blob \| commitdiff \| diff to current
2014-06-05	Jim Procter	JAL-1517 update copyright to version 2.8.2	blob \| commitdiff \| diff to current
2014-06-05	Jim Procter	Merge branch 'docs/2_8_1_Release' into Release_2_8_2_Branch	blob \| commitdiff \| diff to current
2014-05-22	Jim Procter	JAL-1503 update version in GPL header	blob \| commitdiff \| diff to current
2014-02-18	Jim Procter	Merge branch 'JAL-1445' into develop	blob \| commitdiff \| diff to current
2014-01-29	Jim Procter	JAL-1432 updated copyright notices	blob \| commitdiff \| diff to current
2013-10-15	Jim Procter	JAL-1159 Merging 2.8.1 patches and Anne Menards work...	blob \| commitdiff \| diff to current
2013-07-12	Jim Procter	Merge branch 'JAL-1347' into develop	blob \| commitdiff \| diff to current
2013-07-12	Jim Procter	JAL-1347 RNA Structure consensus follows the alignment...	blob \| commitdiff \| diff to current
2013-07-12	Jim Procter	JAL-1347 flow control for display of profile data is...	blob \| commitdiff \| diff to current
2013-07-11	Jim Procter	Merge branch 'JAL-1347' into develop	blob \| commitdiff \| diff to current
2013-07-11	Jim Procter	JAL-1347 identify and set rendering settings for consen...	blob \| commitdiff \| diff to current
2013-07-11	Jim Procter	JAL-1347 refactor logic for setting display flags for...	blob \| commitdiff \| diff to current
2013-06-07	Jim Procter	Merge branch 'develop' into develop_m2_8_1_2	blob \| commitdiff \| diff to current
2013-06-07	Jim Procter	Merge branch 'JAL-1161_optimisingAnnotationPanel' into...	blob \| commitdiff \| diff to current
2013-05-24	Jim Procter	JAL-1291 TODO: revised graphGroup model so grouped...	blob \| commitdiff \| diff to current
2013-05-24	Jim Procter	JAL-1291 conditional output of rendering debugging...	blob \| commitdiff \| diff to current
2013-05-24	Jim Procter	JAL-1161 conditional parameters for controlling clipping	blob \| commitdiff \| diff to current
2013-05-24	Jim Procter	JAL-1292 avoid exception by using bitset of arbitrary...	blob \| commitdiff \| diff to current
2013-02-13	Jim Procter	Merge branch 'jims_annotate3d_update' into menard_final...	blob \| commitdiff \| diff to current
2013-01-18	jprocter	Merge branch 'JAL-1254-hotfix' into develop	blob \| commitdiff \| diff to current
2013-01-18	jprocter	JAL-1254 patch for NPE in annotation renderer when...	blob \| commitdiff \| diff to current
2012-12-07	jprocter	revised renderer and annotation model to support differ...	blob \| commitdiff \| diff to current
2012-11-15	jprocter	source formatting	blob \| commitdiff \| diff to current
2012-11-15	jprocter	Merge branch 'develop' into menard	blob \| commitdiff \| diff to current
2012-10-22	jprocter	Jalview 2.8 Source Header	blob \| commitdiff \| diff to current
2012-10-03	jprocter	formatting	blob \| commitdiff \| diff to current
2012-08-31	jprocter	Merge branch 'develop' into menard	blob \| commitdiff \| diff to current
2012-08-28	jprocter	formatting	blob \| commitdiff \| diff to current
2012-08-14	Anne Menard	last version stay many bugs ..	blob \| commitdiff \| diff to current
2012-07-10	Anne Menard	v2	blob \| commitdiff \| diff to current
2012-07-05	Anne Menard	Add support RNAML format	blob \| commitdiff \| diff to current
2012-06-14	jprocter	JAL-968 javadoc and return flag indicating if any of...	blob \| commitdiff \| diff to current
2012-06-12	jprocter	JAL-1115 - use local reference for annotation row	blob \| commitdiff \| diff to current
2012-06-07	jprocter	javatidy	blob \| commitdiff \| diff to current
2012-06-07	jprocter	JAL-967, JAL-1114, JAL-1115 - modified render and calcu...	blob \| commitdiff \| diff to current
2012-05-23	jprocter	JAL-958 - ensure logo is rendered even if consensus...	blob \| commitdiff \| diff to current
2012-05-22	jprocter	JAL-1065,JAL-1066 - propagated 863467bf6c59c0bc5368c8f3...	blob \| commitdiff \| diff to current
2012-05-16	jprocter	fixed JAL-1086: pass column index so colourscheme profi...	blob \| commitdiff \| diff to current
2012-05-16	jprocter	JAL-958 - don't try to draw all zero profiles	blob \| commitdiff \| diff to current
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