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JAL-2416 allow space in score matrix name
[jalview.git] / src / jalview / schemes /
2014-10-30 Jim Procterpatch for JAL-795 - use base secondary structure colour... tree | commitdiff
2014-09-23 darolmarJAL-1355 tree | commitdiff
2014-07-18 j.procter@dundee... JAL-795 take colour from annotation if colour is present tree | commitdiff
2014-06-13 Jim ProcterMerge branch 'Release_2_8_2_Branch' into JAL-1483_featu... tree | commitdiff
2014-06-06 Jim ProcterJAL-1517 source formatting tree | commitdiff
2014-06-06 Jim ProcterJAL-1517 fix copyright for 2.8.2 tree | commitdiff
2014-06-05 Jim ProcterJAL-1517 update copyright to version 2.8.2 tree | commitdiff
2014-06-05 Jim ProcterMerge branch 'docs/2_8_1_Release' into Release_2_8_2_Branch tree | commitdiff
2014-06-04 Jim ProcterJAL-952 fixed unresolved conflict breaking build tree | commitdiff
2014-06-04 Jim ProcterJAL-952 fixed unresolved conflict breaking build tree | commitdiff
2014-06-03 Jim ProcterJAL-1512 comment out for 2.8.1 release tree | commitdiff
2014-06-03 Jim ProcterJAL-1512 fix calculation once again and include score... tree | commitdiff
2014-06-03 Jim ProcterJAL-1473 make it easier to generate HTML documentation... tree | commitdiff
2014-06-02 Jim ProcterJAL-1512 rejig buggy conservation-basesd score matrix... tree | commitdiff
2014-05-22 Jim ProcterJAL-1503 update version in GPL header tree | commitdiff
2014-05-02 Jim ProcterMerge branch 'JAL-1397' into develop tree | commitdiff
2014-05-01 Jim Procterremove todo tree | commitdiff
2014-05-01 Jim ProcterJAL-1092 TODO - allow Jalview/JalviewLite to generate... tree | commitdiff
2014-05-01 Jim ProcterJAL-1492 JAL-1397 make AnnotatedCollectionI context... tree | commitdiff
2014-05-01 Jim ProcterJAL-1492 JAL-1397 JAL-643 JAL-969 factory method to... tree | commitdiff
2014-05-01 Jim ProcterJAL-1492 JAL-1397 JAL-643 JAL-969 modifiable flag on... tree | commitdiff
2014-05-01 Jim Procterjavadoc tree | commitdiff
2014-04-29 Jim ProcterJAL-643 - abstracted colourscheme components to allow... tree | commitdiff
2014-04-27 Jim ProcterMerge branch 'JAL-952_rnahelix' into develop tree | commitdiff
2014-04-27 Jim ProcterJAL-952 JAL-1268 add RNA Helices and T-Coffee to list... tree | commitdiff
2014-04-27 Jim ProcterJAL-952 resolve colour scheme as 'RNA Helices' tree | commitdiff
2014-04-27 Jim ProcterJAL-952 refactor code to select annotation for colourin... tree | commitdiff
2014-04-25 Jim ProcterMerge branch 'JAL-1177_prop_rnasecstr' into develop tree | commitdiff
2014-04-25 Jim Procterfix for JAL-1268 tree | commitdiff
2014-04-21 Jim ProcterMerge branch 'jims_marckhacks' into develop tree | commitdiff
2014-04-21 Jim Procteravoid potential NPE tree | commitdiff
2014-04-21 Jim ProcterJAL-1473 provide Amino acid physicochemical conservatio... tree | commitdiff
2014-04-21 Jim ProcterJAL-1473 refactor score matrices and tree score calcula... tree | commitdiff
2014-04-06 Jim Procterfix for JAL-1464 avoid NPE with per-sequence annotation... tree | commitdiff
2014-02-18 Jim ProcterMerge branch 'JAL-1445' into develop tree | commitdiff
2014-02-03 Jim ProcterMerge branch 'Release_2_8_0b1_Branch' into try_r20b1_merge tree | commitdiff
2014-01-29 Jim ProcterJAL-1432 updated copyright notices tree | commitdiff
2013-10-17 Jim ProcterMerge branch 'JAL-1397' into develop tree | commitdiff
2013-10-17 Jim ProcterJAL-1397 propagate any consensus/conservation coloursch... tree | commitdiff
2013-10-17 Jim ProcterJAL-1397 getters for originalColours flag tree | commitdiff
2013-10-15 Jim ProcterJAL-1159 Merging 2.8.1 patches and Anne Menards work... tree | commitdiff
2013-10-14 Jim ProcterMerge branch 'develop' into dev_from_2_8_1 tree | commitdiff
2013-08-30 Daniel BartonColour be RNA helices bug fixed tree | commitdiff
2013-06-23 Jim ProcterMerge branch 'develop' into develop_m2_8_1_2 tree | commitdiff
2013-06-23 Jim ProcterMerge commit '72c628b' into develop tree | commitdiff
2013-06-21 Jim ProcterJAL-1241 - generate colour for all annotation values... tree | commitdiff
2013-06-18 Jim ProcterMerge branch 'develop' into develop_m2_8_1_2 tree | commitdiff
2013-06-17 Jim ProcterMerge branch 'JAL-1312_ambiguity_na' into develop tree | commitdiff
2013-06-17 Jim ProcterJAL-1027 fix errors in alternative codon table tree | commitdiff
2013-06-17 Jim ProcterJAL-1027 use alternative codon table in ResidueProperti... tree | commitdiff
2013-06-17 Jim ProcterJAL-529 - IUBMB nucleotide ambiguity codes and programm... tree | commitdiff
2012-12-07 jprocterrevised renderer and annotation model to support differ... tree | commitdiff
2012-12-07 jproctertyping tree | commitdiff
2012-12-07 jprocterremove mentions of non-functional RNAInteraction colour... tree | commitdiff
2012-11-15 jproctersource formatting tree | commitdiff
2012-11-15 jprocterMerge branch 'develop' into menard tree | commitdiff
2012-10-22 jprocterJalview 2.8 Source Header tree | commitdiff
2012-10-03 jprocterformatting tree | commitdiff
2012-09-06 jprocterJAL-1027 JAL-1167 documentation and patched DNA/RNA... tree | commitdiff
2012-09-06 jprocterJAL-1167 method and simple tests for printing score... tree | commitdiff
2012-08-31 jprocterMerge branch 'develop' into menard tree | commitdiff
2012-08-28 jprocterJAL-1066 - per-sequence colouring with sequence associa... tree | commitdiff
2012-08-17 jprocterMerge branch 'develop' into menard tree | commitdiff
2012-08-14 Anne Menardlast version stay many bugs .. tree | commitdiff
2012-08-01 jprocterJAL-1066 patch regression ac33424148b2a4de29b3ca43f9411... tree | commitdiff
2012-07-16 Anne MenardLast version tree | commitdiff
2012-07-16 Anne MenardMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2012-07-10 Anne Menardv2 tree | commitdiff
2012-07-05 Anne MenardAdd support RNAML format tree | commitdiff
2012-06-29 jprocterJAL-1065 JAL-1066 ensure non-residue based schemes... tree | commitdiff
2012-06-29 jprocterJAL-1065 JAL-1066 allow different lookup tables for... tree | commitdiff
2012-06-15 jprocterMerge branch 'JAL-1013_pca_rna_dna' into develop tree | commitdiff
2012-05-30 jprocterJAL-1109 JAL-1065 resolve t-coffee score scheme by... tree | commitdiff
2012-05-30 jprocterJAL-1114 - refactor methods handling Vectors and Hashta... tree | commitdiff
2012-05-23 jproctertodo for JAL-1106 tree | commitdiff
2012-05-23 jprocterJAL-1066,JAL-1068,JAL-961 - use alignment annotation... tree | commitdiff
2012-05-22 jprocterMerge remote-tracking branch 'origin/Tcoffee_JAL-1065... tree | commitdiff
2011-12-08 jprocter(JAL-1013) gap character index for each sequence alphabet tree | commitdiff
2011-12-08 jprocterJAL-1027 fixed up nucleotide subt matrix so it is symme... tree | commitdiff
2011-10-28 jprocter(JAL-889) ensure latest version of RNA pairlist is... tree | commitdiff
2011-10-28 jprocterrefactor to use model API tree | commitdiff
2011-10-28 jprocter(JAL-963) refactor RNA helix helper class to schemes tree | commitdiff
2011-10-10 jprocterupdate author list in license for (JAL-826) tree | commitdiff
2011-10-04 jprocterMerge remote-tracking branch 'remotes/origin/2_5_1_rna_... tree | commitdiff
2011-09-27 jprocterapply version 2.7 copyright tree | commitdiff
2011-07-25 janengelhardtStart merging of Laurens Code tree | commitdiff
2010-09-23 jprocterapply jalview code style tree | commitdiff
2010-09-23 jprocterJalview 2.6 source licence tree | commitdiff
2010-08-04 jprocterreorganised colourscheme enumeration to make it easier... tree | commitdiff
2010-05-14 jprocterfix for JAL-533 tree | commitdiff
2010-04-30 jprocterjalview 2.5 release banner tree | commitdiff
2010-04-16 jprocterdefault for colourBylabel is false tree | commitdiff
2010-04-14 jproctertodo and disable selection sharing between views on... tree | commitdiff
2010-04-02 jprocterjavadoc tree | commitdiff
2010-04-02 jproctermade threshold type enumaration into set of constants tree | commitdiff
2009-09-10 jprocterfix null pointer exception when using blosum colourscheme tree | commitdiff
2009-08-21 jprocterasparagine is polar but not charged tree | commitdiff
2009-07-24 jprocterfeature colour by label flag/style tree | commitdiff
2009-06-08 jprocterapply gpl development license tree | commitdiff
2009-06-01 jprocteradded graduated colourscheme support for feature file tree | commitdiff
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