import org.forester.util.ForesterUtil;
-/*
- * Maintains the color schemes and a set of colors for drawing a tree.
- */
public final class TreeColorSet {
public static final String ANNOTATION = "Annotation";
public static final String BRANCH_LENGTH = "Branch Length";
public static final String COLLAPSED = "Collapsed";
public static final String CONFIDENCE = "Confidence";
- public static final String DOMAINS = "Domains";
+ public static final String DOMAIN_LABEL = "Domain Label";
+ public static final String DOMAIN_BASE = "Domain Base";
public static final String DUPLICATION = "Duplication";
public static final String DUPLICATION_OR_SPECATION = "Duplication or Specation";
public static final String MATCHING_NODES_A = "Matching A";
public static final String SPECIATION = "Speciation";
public static final String TAXONOMY = "Taxonomy";
static final String[] COLOR_FIELDS = { BACKGROUND, BACKGROUND_GRADIENT_BOTTOM, SEQUENCE,
- TAXONOMY, CONFIDENCE, BRANCH_LENGTH, BRANCH, NODE_BOX, COLLAPSED, MATCHING_NODES_A, MATCHING_NODES_B,
- MATCHING_NODES_A_AND_B, DUPLICATION, SPECIATION, DUPLICATION_OR_SPECATION, DOMAINS,
- BINARY_DOMAIN_COMBINATIONS, ANNOTATION, OVERVIEW };
+ TAXONOMY, CONFIDENCE, BRANCH_LENGTH, BRANCH, NODE_BOX, COLLAPSED, MATCHING_NODES_A, MATCHING_NODES_B,
+ MATCHING_NODES_A_AND_B, DUPLICATION, SPECIATION, DUPLICATION_OR_SPECATION, DOMAIN_LABEL, DOMAIN_BASE,
+ BINARY_DOMAIN_COMBINATIONS, ANNOTATION, OVERVIEW };
static final String[] SCHEME_NAMES = { "Default", "Black", "Black & White", "Silver", "Green",
- "White & Blue", "Cyan", "Orange", "Blue", "Blue & White", "Neon" };
- // Color schemes:
+ "White & Blue", "Cyan", "Orange", "Blue", "Blue & White", "Neon" };
private int _color_scheme;
- // All the color sets; better be the same # of sets as there are names!
private final Color[][] _color_schemes = { { new Color( 0, 0, 0 ), // background_color
- new Color( 0, 100, 100 ), // background_color_gradient_bottom
- new Color( 230, 230, 230 ), // sequence __ Default (same as Black)
- new Color( 255, 220, 220 ), // taxonomy
- new Color( 56, 176, 255 ), // support
- new Color( 140, 140, 140 ), // branch_length_color
- new Color( 255, 255, 255 ), // branch_color
- new Color( 255, 255, 255 ), // box_color
- new Color( 255, 255, 0 ), // collapesed_fill_color
- new Color( 0, 255, 0 ), // found_color 0
- new Color( 255, 0, 0 ), // found_color 1
- new Color( 255, 255, 0 ), // found_color 1 + 2
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 123, 104, 238 ), // domains_color
- new Color( 65, 105, 255 ), // binary_domain_combinations_color
- new Color( 173, 255, 47 ) // annotation
- , new Color( 130, 130, 130 ) // overview
- }, { new Color( 0, 0, 0 ), // background_color
- new Color( 0, 255, 255 ), // background_color_gradient_bottom
- new Color( 230, 230, 230 ), // sequence __ Black
- new Color( 255, 220, 220 ), // taxonomy
- new Color( 56, 176, 255 ), // support
- new Color( 140, 140, 140 ), // branch_length_color
- new Color( 255, 255, 255 ), // branch_color
- new Color( 255, 255, 255 ), // box_color
- new Color( 255, 255, 0 ), // collapesed_fill_color
- new Color( 0, 255, 0 ), // found_color 0
- new Color( 255, 0, 0 ), // found_color 1
- new Color( 255, 255, 0 ), // found_color 1 + 2
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 123, 104, 238 ), // domains_color
- new Color( 65, 105, 255 ), // binary_domain_combinations_color
- new Color( 173, 255, 47 ) // annotation
- , new Color( 130, 130, 130 ) // ov
- }, { new Color( 255, 255, 255 ), // background_color
- new Color( 0, 255, 255 ), // background_color_gradient_bottom
- new Color( 0, 0, 0 ), // sequence __ Black & White
- new Color( 0, 0, 0 ), // taxonomy
- new Color( 0, 0, 0 ), // support
- new Color( 0, 0, 0 ), // branch_length_color
- new Color( 0, 0, 0 ), // branch_color
- new Color( 0, 0, 0 ), // box_color
- new Color( 0, 0, 0 ), // collapesed_fill_color
- new Color( 255, 0, 0 ), // found_color 0
- new Color( 0, 255, 0 ), // found_color 1
- new Color( 0, 0, 255 ), // found_color 1 + 2
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 0, 0, 0 ), // domains_color
- new Color( 0, 0, 0 ), // binary_domain_combinations_color
- new Color( 0, 0, 0 ) // annotation
- , new Color( 220, 220, 220 ) // ov
- }, { new Color( 0, 0, 0 ), // background_color
- new Color( 0, 255, 255 ), // background_color_gradient_bottom
- new Color( 220, 220, 220 ), // sequence __ Silver
- new Color( 180, 180, 180 ), // taxonomy
- new Color( 140, 140, 140 ), // support
- new Color( 140, 140, 140 ), // branch_length_color
- new Color( 240, 240, 240 ), // branch_color
- new Color( 140, 140, 140 ), // box_color
- new Color( 140, 140, 140 ), // collapesed_fill_color
- new Color( 255, 0, 0 ), // found_color 0
- new Color( 0, 255, 0 ), // found_color 1
- new Color( 255, 255, 0 ), // found_color 1 + 2
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 180, 180, 180 ), // domains_color
- new Color( 180, 180, 180 ), // binary_domain_combinations_color
- new Color( 140, 140, 140 ) // annotation
- , new Color( 40, 40, 40 ) // ov
- }, { new Color( 0, 10, 0 ), // background_color
- new Color( 0, 255, 255 ), // background_color_gradient_bottom
- new Color( 0, 255, 0 ), // sequence __ the Matrix
- new Color( 30, 200, 30 ), // taxonomy
- new Color( 0, 155, 0 ), // support
- new Color( 0, 100, 0 ), // branch_length_color
- new Color( 0, 155, 0 ), // branch_color
- new Color( 0, 255, 0 ), // box_color
- new Color( 0, 255, 0 ), // collapesed_fill_color
- new Color( 255, 0, 0 ), // found_color 0
- new Color( 0, 255, 0 ), // found_color 1
- new Color( 255, 255, 0 ), // found_color 1 + 2
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 0, 235, 0 ), // domains_color
- new Color( 0, 235, 0 ), // binary_domain_combinations_color
- new Color( 0, 235, 0 ) // annotation
- , new Color( 40, 40, 40 ) // ov
- }, { new Color( 255, 255, 255 ), // background_color
- new Color( 0, 255, 255 ), // background_color_gradient_bottom
- new Color( 0, 0, 0 ), //sequence __ White & Blue
- new Color( 40, 40, 40 ), // taxonomy
- new Color( 0, 125, 0 ), // support
- new Color( 70, 70, 0 ), // branch_length_color
- new Color( 0, 20, 200 ), // branch_color
- new Color( 0, 20, 200 ), // box_color
- new Color( 255, 255, 0 ), // collapesed_fill_color
- new Color( 0, 255, 0 ), // found_color 0
- new Color( 255, 0, 0 ), // found_color 1
- new Color( 0, 0, 255 ), // found_color 0 + 1
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 123, 104, 238 ), // domains_color
- new Color( 65, 105, 225 ), // binary_domain_combinations_color
- new Color( 173, 255, 47 ) // annotation
- , new Color( 220, 220, 220 ) // ov
- }, { new Color( 0, 0, 0 ), // background_color
- new Color( 0, 255, 255 ), // background_color_gradient_bottom
- new Color( 255, 255, 255 ), // sequence __ Cyan
- new Color( 200, 200, 200 ), // taxonomy
- new Color( 255, 255, 255 ), // support
- new Color( 200, 200, 200 ), // branch_length_color
- new Color( 0, 255, 255 ), // branch_color
- new Color( 0, 255, 255 ), // box_color
- new Color( 255, 255, 0 ), // collapesed_fill_color
- new Color( 0, 255, 0 ), // found_color 0
- new Color( 0, 0, 255 ), // found_color 1
- new Color( 0, 255, 255 ), // found_color 0 + 1
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 123, 104, 238 ), // domains_color
- new Color( 65, 105, 225 ), // binary_domain_combinations_color
- new Color( 173, 255, 47 ) // annotation
- , new Color( 0, 120, 120 ) // ov
- }, { new Color( 0, 0, 0 ), // background_color
- new Color( 0, 255, 255 ), // background_color_gradient_bottom
- new Color( 255, 200, 0 ), // sequence __ Clockwork
- new Color( 255, 200, 0 ), // taxonomy
- new Color( 255, 200, 0 ), // support
- new Color( 255, 200, 0 ), // branch_length_color
- new Color( 255, 200, 0 ), // branch_color
- new Color( 255, 200, 0 ), // box_color
- new Color( 255, 255, 255 ), // collapesed_fill_color
- new Color( 255, 255, 0 ), // found_color 0
- new Color( 0, 255, 255 ), // found_color 1
- new Color( 255, 255, 255 ), // found_color 0 + 1
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 150, 150, 150 ), // domains_color
- new Color( 150, 150, 150 ), // binary_domain_combinations_color
- new Color( 150, 150, 150 ) // annotation
- , new Color( 150, 150, 150 ) // ov
- }, { new Color( 0, 0, 100 ), // background_color
- new Color( 0, 255, 255 ), // background_color_gradient_bottom
- new Color( 255, 255, 255 ), // sequence __ Blue
- new Color( 255, 255, 255 ), // taxonomy
- new Color( 255, 0, 0 ), // support
- new Color( 255, 0, 0 ), // branch_length_color
- new Color( 255, 0, 0 ), // branch_color
- new Color( 255, 0, 0 ), // box_color
- new Color( 0, 0, 0 ), // collapesed_fill_color
- new Color( 0, 255, 0 ), // found_color
- new Color( 255, 0, 0 ), // found_color 1
- new Color( 255, 255, 0 ), // found_color 1 + 2
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 255, 255, 255 ), // domains_color
- new Color( 255, 255, 255 ), // binary_domain_combinations_color
- new Color( 255, 255, 255 ) // annotation
- , new Color( 77, 77, 255 ) // ov
- }, { new Color( 0, 0, 0 ), // background_color
- new Color( 0, 255, 255 ), // background_color_gradient_bottom
- new Color( 255, 255, 255 ), // sequence __ blue & white
- new Color( 255, 255, 255 ), // taxonomy
- new Color( 255, 255, 255 ), // support
- new Color( 0, 191, 255 ), // branch_length_color
- new Color( 0, 191, 255 ), // branch_color
- new Color( 0, 191, 255 ), // box_color
- new Color( 255, 255, 255 ), // collapesed_fill_color
- new Color( 255, 0, 0 ), // found_color 0
- new Color( 0, 255, 0 ), // found_color 1
- new Color( 255, 255, 0 ), // found_color 0 + 1
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 255, 255, 255 ), // domains_color
- new Color( 255, 255, 255 ), // binary_domain_combinations_color
- new Color( 255, 255, 255 ) // annotation
- , new Color( 170, 187, 204 ) // ov
- }, { new Color( 0, 0, 0 ), // background_color
- new Color( 255, 255, 0 ), // background_color_gradient_bottom
- new Color( 127, 255, 0 ), // sequence __ Neon
- new Color( 255, 110, 199 ), // taxonomy
- new Color( 234, 173, 234 ), // support
- new Color( 77, 77, 255 ), // branch_length_color
- new Color( 234, 173, 234 ), // branch_color
- new Color( 77, 77, 255 ), // box_color
- new Color( 77, 77, 255 ), // collapsed_fill_color
- new Color( 243, 243, 21 ), // found_color 0
- new Color( 255, 20, 147 ), // found_color 1
- new Color( 255, 255, 255 ), // found_color 1 + 2
- new Color( 255, 0, 0 ), // duplication_box_color
- new Color( 0, 255, 0 ), // speciation_box_color
- new Color( 255, 255, 0 ), // duplication_speciation_color
- new Color( 27, 255, 0 ), // domains_color
- new Color( 27, 255, 0 ), // binary_domain_combinations_color
- new Color( 27, 255, 0 ) // annotation
- , new Color( 77, 77, 255 ) // ov
- } };
+ new Color( 0, 100, 100 ), // background_color_gradient_bottom
+ new Color( 230, 230, 230 ), // sequence __ Default (same as Black)
+ new Color( 180, 180, 180 ), // taxonomy
+ new Color( 180, 180, 180 ), // support
+ new Color( 140, 140, 140 ), // branch_length_color
+ new Color( 255, 255, 255 ), // branch_color
+ new Color( 255, 255, 255 ), // box_color
+ new Color( 255, 255, 255 ), // collapesed_fill_color
+ new Color( 0, 255, 0 ), // found_color 0
+ new Color( 255, 0, 0 ), // found_color 1
+ new Color( 255, 255, 0 ), // found_color 1 + 2
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 230, 230, 230 ), // domain_label
+ new Color( 100, 100, 100 ), // domains_base
+ new Color( 65, 105, 255 ), // binary_domain_combinations_color
+ new Color( 173, 255, 47 ) // annotation
+ , new Color( 130, 130, 130 ) // overview
+ }, { new Color( 0, 0, 0 ), // background_color
+ new Color( 0, 255, 255 ), // background_color_gradient_bottom
+ new Color( 230, 230, 230 ), // sequence __ Black
+ new Color( 180, 180, 180 ), // taxonomy
+ new Color( 180, 180, 180 ), // support
+ new Color( 140, 140, 140 ), // branch_length_color
+ new Color( 255, 255, 255 ), // branch_color
+ new Color( 255, 255, 255 ), // box_color
+ new Color( 255, 255, 255 ), // collapesed_fill_color
+ new Color( 0, 255, 0 ), // found_color 0
+ new Color( 255, 0, 0 ), // found_color 1
+ new Color( 255, 255, 0 ), // found_color 1 + 2
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 230, 230, 230 ), // domain_label
+ new Color( 100, 100, 100 ), // domains_base
+ new Color( 65, 105, 255 ), // binary_domain_combinations_color
+ new Color( 173, 255, 47 ) // annotation
+ , new Color( 130, 130, 130 ) // ov
+ }, { new Color( 255, 255, 255 ), // background_color
+ new Color( 0, 255, 255 ), // background_color_gradient_bottom
+ new Color( 0, 0, 0 ), // sequence __ Black & White
+ new Color( 0, 0, 0 ), // taxonomy
+ new Color( 0, 0, 0 ), // support
+ new Color( 0, 0, 0 ), // branch_length_color
+ new Color( 0, 0, 0 ), // branch_color
+ new Color( 0, 0, 0 ), // box_color
+ new Color( 0, 0, 0 ), // collapesed_fill_color
+ new Color( 255, 0, 0 ), // found_color 0
+ new Color( 0, 255, 0 ), // found_color 1
+ new Color( 0, 0, 255 ), // found_color 1 + 2
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 0, 0, 0 ), // domain_label
+ new Color( 100, 100, 100 ), // domains_base
+ new Color( 0, 0, 0 ), // binary_domain_combinations_color
+ new Color( 0, 0, 0 ) // annotation
+ , new Color( 220, 220, 220 ) // ov
+ }, { new Color( 0, 0, 0 ), // background_color
+ new Color( 0, 255, 255 ), // background_color_gradient_bottom
+ new Color( 220, 220, 220 ), // sequence __ Silver
+ new Color( 180, 180, 180 ), // taxonomy
+ new Color( 140, 140, 140 ), // support
+ new Color( 140, 140, 140 ), // branch_length_color
+ new Color( 240, 240, 240 ), // branch_color
+ new Color( 140, 140, 140 ), // box_color
+ new Color( 240, 240, 240 ), // collapesed_fill_color
+ new Color( 255, 0, 0 ), // found_color 0
+ new Color( 0, 255, 0 ), // found_color 1
+ new Color( 255, 255, 0 ), // found_color 1 + 2
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 230, 230, 230 ), // domain_label
+ new Color( 100, 100, 100 ), // domains_base
+ new Color( 180, 180, 180 ), // binary_domain_combinations_color
+ new Color( 140, 140, 140 ) // annotation
+ , new Color( 40, 40, 40 ) // ov
+ }, { new Color( 0, 10, 0 ), // background_color
+ new Color( 0, 255, 255 ), // background_color_gradient_bottom
+ new Color( 0, 255, 0 ), // sequence __ the Matrix
+ new Color( 30, 200, 30 ), // taxonomy
+ new Color( 0, 155, 0 ), // support
+ new Color( 0, 100, 0 ), // branch_length_color
+ new Color( 0, 155, 0 ), // branch_color
+ new Color( 0, 255, 0 ), // box_color
+ new Color( 0, 155, 0 ), // collapesed_fill_color
+ new Color( 255, 0, 0 ), // found_color 0
+ new Color( 0, 255, 0 ), // found_color 1
+ new Color( 255, 255, 0 ), // found_color 1 + 2
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 230, 230, 230 ), // domain_label
+ new Color( 100, 100, 100 ), // domains_base
+ new Color( 0, 235, 0 ), // binary_domain_combinations_color
+ new Color( 0, 235, 0 ) // annotation
+ , new Color( 40, 40, 40 ) // ov
+ }, { new Color( 255, 255, 255 ), // background_color
+ new Color( 0, 255, 255 ), // background_color_gradient_bottom
+ new Color( 0, 0, 0 ), //sequence __ White & Blue
+ new Color( 40, 40, 40 ), // taxonomy
+ new Color( 0, 125, 0 ), // support
+ new Color( 70, 70, 0 ), // branch_length_color
+ new Color( 0, 20, 200 ), // branch_color
+ new Color( 0, 20, 200 ), // box_color
+ new Color( 0, 20, 200 ), // collapesed_fill_color
+ new Color( 0, 255, 0 ), // found_color 0
+ new Color( 255, 0, 0 ), // found_color 1
+ new Color( 0, 0, 255 ), // found_color 0 + 1
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 0, 0, 0 ), // domain_label
+ new Color( 50, 50, 50 ), // domains_base
+ new Color( 65, 105, 225 ), // binary_domain_combinations_color
+ new Color( 173, 255, 47 ) // annotation
+ , new Color( 220, 220, 220 ) // ov
+ }, { new Color( 0, 0, 0 ), // background_color
+ new Color( 0, 255, 255 ), // background_color_gradient_bottom
+ new Color( 255, 255, 255 ), // sequence __ Cyan
+ new Color( 200, 200, 200 ), // taxonomy
+ new Color( 255, 255, 255 ), // support
+ new Color( 200, 200, 200 ), // branch_length_color
+ new Color( 0, 255, 255 ), // branch_color
+ new Color( 0, 255, 255 ), // box_color
+ new Color( 0, 255, 255 ), // collapesed_fill_color
+ new Color( 0, 255, 0 ), // found_color 0
+ new Color( 0, 0, 255 ), // found_color 1
+ new Color( 0, 255, 255 ), // found_color 0 + 1
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 230, 230, 230 ), // domain_label
+ new Color( 100, 100, 100 ), // domains_base
+ new Color( 65, 105, 225 ), // binary_domain_combinations_color
+ new Color( 173, 255, 47 ) // annotation
+ , new Color( 0, 120, 120 ) // ov
+ }, { new Color( 0, 0, 0 ), // background_color
+ new Color( 0, 255, 255 ), // background_color_gradient_bottom
+ new Color( 255, 200, 0 ), // sequence __ Clockwork
+ new Color( 255, 200, 0 ), // taxonomy
+ new Color( 255, 200, 0 ), // support
+ new Color( 255, 200, 0 ), // branch_length_color
+ new Color( 255, 200, 0 ), // branch_color
+ new Color( 255, 200, 0 ), // box_color
+ new Color( 255, 200, 0 ), // collapesed_fill_color
+ new Color( 255, 255, 0 ), // found_color 0
+ new Color( 0, 255, 255 ), // found_color 1
+ new Color( 255, 255, 255 ), // found_color 0 + 1
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 255, 200, 0 ), // domain_label
+ new Color( 255, 200, 0 ), // domains_base
+ new Color( 150, 150, 150 ), // binary_domain_combinations_color
+ new Color( 150, 150, 150 ) // annotation
+ , new Color( 150, 150, 150 ) // ov
+ }, { new Color( 0, 0, 100 ), // background_color
+ new Color( 0, 255, 255 ), // background_color_gradient_bottom
+ new Color( 255, 255, 255 ), // sequence __ Blue
+ new Color( 255, 255, 255 ), // taxonomy
+ new Color( 255, 0, 0 ), // support
+ new Color( 255, 0, 0 ), // branch_length_color
+ new Color( 255, 0, 0 ), // branch_color
+ new Color( 255, 0, 0 ), // box_color
+ new Color( 255, 0, 0 ), // collapesed_fill_color
+ new Color( 0, 255, 0 ), // found_color
+ new Color( 255, 0, 0 ), // found_color 1
+ new Color( 255, 255, 0 ), // found_color 1 + 2
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 255, 255, 255 ), // domain_label
+ new Color( 100, 100, 100 ), // domains_base
+ new Color( 255, 255, 255 ), // binary_domain_combinations_color
+ new Color( 255, 255, 255 ) // annotation
+ , new Color( 77, 77, 255 ) // ov
+ }, { new Color( 0, 0, 0 ), // background_color
+ new Color( 0, 255, 255 ), // background_color_gradient_bottom
+ new Color( 255, 255, 255 ), // sequence __ blue & white
+ new Color( 255, 255, 255 ), // taxonomy
+ new Color( 255, 255, 255 ), // support
+ new Color( 0, 191, 255 ), // branch_length_color
+ new Color( 0, 191, 255 ), // branch_color
+ new Color( 0, 191, 255 ), // box_color
+ new Color( 0, 191, 255 ), // collapesed_fill_color
+ new Color( 255, 0, 0 ), // found_color 0
+ new Color( 0, 255, 0 ), // found_color 1
+ new Color( 255, 255, 0 ), // found_color 0 + 1
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 255, 255, 255 ), // domain_label
+ new Color( 150, 150, 150 ), // domains_base
+ new Color( 255, 255, 255 ), // binary_domain_combinations_color
+ new Color( 255, 255, 255 ) // annotation
+ , new Color( 170, 187, 204 ) // ov
+ }, { new Color( 0, 0, 0 ), // background_color
+ new Color( 255, 255, 0 ), // background_color_gradient_bottom
+ new Color( 127, 255, 0 ), // sequence __ Neon
+ new Color( 255, 110, 199 ), // taxonomy
+ new Color( 234, 173, 234 ), // support
+ new Color( 77, 77, 255 ), // branch_length_color
+ new Color( 234, 173, 234 ), // branch_color
+ new Color( 77, 77, 255 ), // box_color
+ new Color( 234, 173, 234 ), // collapsed_fill_color
+ new Color( 243, 243, 21 ), // found_color 0
+ new Color( 255, 20, 147 ), // found_color 1
+ new Color( 255, 255, 255 ), // found_color 1 + 2
+ new Color( 255, 0, 0 ), // duplication_box_color
+ new Color( 0, 255, 0 ), // speciation_box_color
+ new Color( 255, 255, 0 ), // duplication_speciation_color
+ new Color( 127, 255, 0 ), // domain_label
+ new Color( 234, 173, 234 ), // domains_base
+ new Color( 27, 255, 0 ), // binary_domain_combinations_color
+ new Color( 27, 255, 0 ) // annotation
+ , new Color( 77, 77, 255 ) // ov
+ } };
private Color annotation_color;
private Color background_color;
private Color background_color_gradient_bottom;
private Color branch_color;
private Color branch_length_color;
private Color collapse_fill_color;
- private Color domains_color;
+ private Color domain_label_color;
+ private Color domain_base_color;
private Color dup_box_color;
private Color duplication_or_specation_color;
private Color found_color_0;
// Hidden constructor.
}
+ public Color getDomainBaseColor() {
+ return domain_base_color;
+ }
+
+ public Color getDomainLabelColor() {
+ return domain_label_color;
+ }
+
+ private void setColorForDefault( final int i, final Color color ) {
+ _color_schemes[ 0 ][ i ] = color;
+ }
+
void cycleColorScheme() {
if ( getCurrentColorScheme() >= ( _color_schemes.length - 1 ) ) {
setColorSchema( 0 );
return SCHEME_NAMES[ getCurrentColorScheme() ];
}
- Color getDomainsColor() {
- return domains_color;
- }
-
Color getDuplicationBoxColor() {
return dup_box_color;
}
dup_box_color = _color_schemes[ scheme ][ 12 ];
spec_box_color = _color_schemes[ scheme ][ 13 ];
duplication_or_specation_color = _color_schemes[ scheme ][ 14 ];
- domains_color = _color_schemes[ scheme ][ 15 ];
- binary_domain_combinations_color = _color_schemes[ scheme ][ 16 ];
- annotation_color = _color_schemes[ scheme ][ 17 ];
- ov_color = _color_schemes[ scheme ][ 18 ];
+ domain_label_color = _color_schemes[ scheme ][ 15 ];
+ domain_base_color = _color_schemes[ scheme ][ 16 ];
+ binary_domain_combinations_color = _color_schemes[ scheme ][ 17 ];
+ annotation_color = _color_schemes[ scheme ][ 18 ];
+ ov_color = _color_schemes[ scheme ][ 19 ];
}
void setCurrentColorScheme( final int color_scheme ) {
_color_scheme = color_scheme;
}
- private void setColorForDefault( final int i, final Color color ) {
- _color_schemes[ 0 ][ i ] = color;
- }
-
static TreeColorSet createInstance() {
final TreeColorSet tcs = new TreeColorSet();
tcs.setColorSchema( 0 );
git://source.jalview.org / jalview.git / blobdiff