Directory src/jalview/schemes/

Directory Created:
2004-11-02 10:46
Total Files:
21
Deleted Files:
5
Lines of Code:
4038

[root]/src/jalview/schemes

Lines of Code

src/jalview/schemes/ Lines of Code

Developers

Author Changes Lines of Code Lines per Change
Totals 386 (100.0%) 14954 (100.0%) 38.7
andrew 290 (75.1%) 9901 (66.2%) 34.1
jprocter 87 (22.5%) 3769 (25.2%) 43.3
jimp 7 (1.8%) 1278 (8.5%) 182.5
amwaterhouse 2 (0.5%) 6 (0.0%) 3.0

Most Recent Commits

jprocter 2010-08-04 13:08

reorganised colourscheme enumeration to make it easier to add hardwired schemes.

36 lines of code changed in:

  • src/jalview/schemes: ColourSchemeProperty.java (+36 -19)
jprocter 2010-05-14 12:46

fix for JAL-533

3 lines of code changed in:

  • src/jalview/schemes: ClustalxColourScheme.java (+3 -2)
jprocter 2010-04-30 10:29

jalview 2.5 release banner

424 lines of code changed in:

  • src/jalview/schemes: AnnotationColourGradient.java (+15 -16), Blosum62ColourScheme.java (+12 -13), BuriedColourScheme.java (+14 -15), ClustalxColourScheme.java (+16 -17), ColourSchemeI.java (+12 -13), ColourSchemeProperty.java (+13 -14), Consensus.java (+12 -13), GraduatedColor.java (+127 -71), HelixColourScheme.java (+12 -13), HydrophobicColourScheme.java (+14 -15), NucleotideColourScheme.java (+16 -17), PIDColourScheme.java (+12 -13), ResidueColourScheme.java (+24 -24), ResidueProperties.java (+41 -43), ScoreColourScheme.java (+19 -20), ScoreMatrix.java (changed), StrandColourScheme.java (+14 -15), TaylorColourScheme.java (+12 -13), TurnColourScheme.java (+14 -15), UserColourScheme.java (+12 -13), ZappoColourScheme.java (+13 -14)
jprocter 2010-04-16 15:31

default for colourBylabel is false

1 lines of code changed in:

  • src/jalview/schemes: GraduatedColor.java (+1 -1)
jprocter 2010-04-14 15:38

todo and disable selection sharing between views on same alignment

27 lines of code changed in:

  • src/jalview/schemes: ResidueProperties.java (+27 -8)
jprocter 2010-04-02 15:43

javadoc

4 lines of code changed in:

  • src/jalview/schemes: GraduatedColor.java (+4)
jprocter 2010-04-02 15:42

made threshold type enumaration into set of constants

3 lines of code changed in:

  • src/jalview/schemes: AnnotationColourGradient.java (+3 -3)
jprocter 2009-09-10 09:54

fix null pointer exception when using blosum colourscheme

3 lines of code changed in:

  • src/jalview/schemes: ResidueColourScheme.java (+3 -3)
jprocter 2009-08-21 11:56

asparagine is polar but not charged

1 lines of code changed in:

  • src/jalview/schemes: ResidueProperties.java (+1 -1)
jprocter 2009-07-24 16:13

feature colour by label flag/style

32 lines of code changed in:

  • src/jalview/schemes: GraduatedColor.java (+32 -1)
jprocter 2009-06-08 11:45

apply gpl development license

63 lines of code changed in:

  • src/jalview/schemes: AnnotationColourGradient.java (+2 -2), Blosum62ColourScheme.java (+2 -2), BuriedColourScheme.java (+3 -3), ClustalxColourScheme.java (+2 -2), ColourSchemeI.java (+2 -2), ColourSchemeProperty.java (+3 -3), Consensus.java (+2 -2), GraduatedColor.java (+16 -1), HelixColourScheme.java (+2 -2), HydrophobicColourScheme.java (+3 -3), NucleotideColourScheme.java (+3 -3), PIDColourScheme.java (+2 -2), ResidueColourScheme.java (+3 -3), ResidueProperties.java (+2 -2), ScoreColourScheme.java (+3 -3), ScoreMatrix.java (changed), StrandColourScheme.java (+3 -3), TaylorColourScheme.java (+2 -2), TurnColourScheme.java (+3 -3), UserColourScheme.java (+2 -2), ZappoColourScheme.java (+3 -3)
jprocter 2009-06-01 16:48

added graduated colourscheme support for feature file

43 lines of code changed in:

  • src/jalview/schemes: GraduatedColor.java (+43 -10)
jprocter 2009-03-17 16:58

holds shading and range parameters rendering a feature colour

156 lines of code changed in:

  • src/jalview/schemes: GraduatedColor.java (new 156)
jprocter 2009-03-17 16:50

fixes launchApp bug where user defined colourscheme defined in applet parameter does not get passed to application

39 lines of code changed in:

  • src/jalview/schemes: ColourSchemeProperty.java (+39 -26)
jprocter 2008-11-12 11:11

gracefully translate ambigous nucleotides as 'X'

8 lines of code changed in:

  • src/jalview/schemes: ResidueProperties.java (+8 -2)
jprocter 2008-11-04 09:16

bugfix for transfer of user defined colourscheme from applet to application via jnlp launch

16 lines of code changed in:

  • src/jalview/schemes: ColourSchemeProperty.java (+16 -10)
jprocter 2008-09-04 14:33

merge from 2_4_Release branch

1625 lines of code changed in:

  • src/jalview/schemes: AnnotationColourGradient.java (+227 -230), Blosum62ColourScheme.java (+89 -94), BuriedColourScheme.java (+52 -52), ClustalxColourScheme.java (+96 -80), ColourSchemeI.java (+43 -43), ColourSchemeProperty.java (+7 -7), Consensus.java (+18 -14), HelixColourScheme.java (+35 -36), HydrophobicColourScheme.java (+52 -52), NucleotideColourScheme.java (+88 -87), PIDColourScheme.java (+93 -94), ResidueColourScheme.java (+281 -271), ResidueProperties.java (+261 -316), ScoreColourScheme.java (+126 -121), ScoreMatrix.java (changed), StrandColourScheme.java (+52 -52), TaylorColourScheme.java (+27 -28), TurnColourScheme.java (+52 -52), UserColourScheme.java (+18 -19), ZappoColourScheme.java (+8 -9)
jprocter 2008-08-11 15:55

Ensure 'None' translates into no colour scheme applied

12 lines of code changed in:

  • src/jalview/schemes: ColourSchemeProperty.java (+12 -5)
jprocter 2008-07-18 13:30

User defined colourschemes are automatically generated from colour names or RGB colour triplets

723 lines of code changed in:

  • src/jalview/schemes: ColourSchemeProperty.java (+483 -452), UserColourScheme.java (+240 -239)
jprocter 2008-06-30 10:48

included includeGaps flag in clustalW colour calculation - behaviour for includeGaps=false is not verified to match ClustalX as yet.

411 lines of code changed in:

  • src/jalview/schemes: ClustalxColourScheme.java (+320 -303), Consensus.java (+91 -79)

(113 more)

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