*/\r
package jalview.schemes;\r
\r
-public class ColourSchemeProperty {\r
+import java.awt.*;\r
+/**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @author $author$\r
+ * @version $Revision$\r
+ */\r
+public class ColourSchemeProperty\r
+{\r
+ /** DOCUMENT ME!! */\r
public static final int CLUSTAL = 0;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int BLOSUM = 1;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int PID = 2;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int ZAPPO = 3;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int HYDROPHOBIC = 4;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int HELIX = 5;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int STRAND = 6;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int TURN = 7;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int BURIED = 8;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int NUCLEOTIDE = 9;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int USER_DEFINED = 10;\r
+\r
+ /** DOCUMENT ME!! */\r
public static final int NONE = 11;\r
\r
- public static int getColourIndexFromName(String name) {\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param name DOCUMENT ME!\r
+ *\r
+ * @return DOCUMENT ME!\r
+ */\r
+ public static int getColourIndexFromName(String name)\r
+ {\r
int ret = 11;\r
\r
- if (name.equalsIgnoreCase("Clustal")) {\r
+ if (name.equalsIgnoreCase("Clustal"))\r
+ {\r
ret = CLUSTAL;\r
- } else if (name.equalsIgnoreCase("Blosum62")) {\r
+ }\r
+ else if (name.equalsIgnoreCase("Blosum62"))\r
+ {\r
ret = BLOSUM;\r
- } else if (name.equalsIgnoreCase("% Identity")) {\r
+ }\r
+ else if (name.equalsIgnoreCase("% Identity"))\r
+ {\r
ret = PID;\r
- } else if (name.equalsIgnoreCase("Zappo")) {\r
+ }\r
+ else if (name.equalsIgnoreCase("Zappo"))\r
+ {\r
ret = ZAPPO;\r
- } else if (name.equalsIgnoreCase("Hydrophobic")) {\r
+ }\r
+ else if (name.equalsIgnoreCase("Hydrophobic"))\r
+ {\r
ret = HYDROPHOBIC;\r
- } else if (name.equalsIgnoreCase("Helix Propensity")) {\r
+ }\r
+ else if (name.equalsIgnoreCase("Helix Propensity"))\r
+ {\r
ret = HELIX;\r
- } else if (name.equalsIgnoreCase("Strand Propensity")) {\r
+ }\r
+ else if (name.equalsIgnoreCase("Strand Propensity"))\r
+ {\r
ret = STRAND;\r
- } else if (name.equalsIgnoreCase("Turn Propensity")) {\r
+ }\r
+ else if (name.equalsIgnoreCase("Turn Propensity"))\r
+ {\r
ret = TURN;\r
- } else if (name.equalsIgnoreCase("Buried Index")) {\r
+ }\r
+ else if (name.equalsIgnoreCase("Buried Index"))\r
+ {\r
ret = BURIED;\r
- } else if (name.equalsIgnoreCase("Nucleotide")) {\r
+ }\r
+ else if (name.equalsIgnoreCase("Nucleotide"))\r
+ {\r
ret = NUCLEOTIDE;\r
- } else if (name.equalsIgnoreCase("User Defined")) {\r
+ }\r
+ else if (name.equalsIgnoreCase("User Defined"))\r
+ {\r
ret = USER_DEFINED;\r
}\r
\r
return ret;\r
}\r
\r
- public static String getColourName(ColourSchemeI cs) {\r
- if (cs instanceof ConservationColourScheme) {\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param cs DOCUMENT ME!\r
+ *\r
+ * @return DOCUMENT ME!\r
+ */\r
+ public static String getColourName(ColourSchemeI cs)\r
+ {\r
+ if (cs instanceof ConservationColourScheme)\r
+ {\r
cs = ((ConservationColourScheme) cs).cs;\r
}\r
\r
int index = 11;\r
\r
- if (cs instanceof ClustalxColourScheme) {\r
+ if (cs instanceof ClustalxColourScheme)\r
+ {\r
index = CLUSTAL;\r
- } else if (cs instanceof Blosum62ColourScheme) {\r
+ }\r
+ else if (cs instanceof Blosum62ColourScheme)\r
+ {\r
index = BLOSUM;\r
- } else if (cs instanceof PIDColourScheme) {\r
+ }\r
+ else if (cs instanceof PIDColourScheme)\r
+ {\r
index = PID;\r
- } else if (cs instanceof ZappoColourScheme) {\r
+ }\r
+ else if (cs instanceof ZappoColourScheme)\r
+ {\r
index = ZAPPO;\r
- } else if (cs instanceof HydrophobicColourScheme) {\r
+ }\r
+ else if (cs instanceof HydrophobicColourScheme)\r
+ {\r
index = HYDROPHOBIC;\r
- } else if (cs instanceof HelixColourScheme) {\r
+ }\r
+ else if (cs instanceof HelixColourScheme)\r
+ {\r
index = HELIX;\r
- } else if (cs instanceof StrandColourScheme) {\r
+ }\r
+ else if (cs instanceof StrandColourScheme)\r
+ {\r
index = STRAND;\r
- } else if (cs instanceof TurnColourScheme) {\r
+ }\r
+ else if (cs instanceof TurnColourScheme)\r
+ {\r
index = TURN;\r
- } else if (cs instanceof BuriedColourScheme) {\r
+ }\r
+ else if (cs instanceof BuriedColourScheme)\r
+ {\r
index = BURIED;\r
- } else if (cs instanceof NucleotideColourScheme) {\r
+ }\r
+ else if (cs instanceof NucleotideColourScheme)\r
+ {\r
index = NUCLEOTIDE;\r
- } else if (cs instanceof UserColourScheme) {\r
+ }\r
+ else if (cs instanceof UserColourScheme)\r
+ {\r
index = USER_DEFINED;\r
}\r
\r
return getColourName(index);\r
}\r
\r
- public static String getColourName(int index) {\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param index DOCUMENT ME!\r
+ *\r
+ * @return DOCUMENT ME!\r
+ */\r
+ public static String getColourName(int index)\r
+ {\r
String ret = null;\r
\r
- switch (index) {\r
+ switch (index)\r
+ {\r
case CLUSTAL:\r
ret = "Clustal";\r
\r
return ret;\r
}\r
\r
- public static ColourSchemeI getColour(jalview.datamodel.AlignmentI al, String name)\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param al DOCUMENT ME!\r
+ * @param name DOCUMENT ME!\r
+ *\r
+ * @return DOCUMENT ME!\r
+ */\r
+ public static ColourSchemeI getColour(jalview.datamodel.AlignmentI al,\r
+ String name)\r
{\r
- return getColour(al.getSequences(), al.getWidth(), name);\r
+ return getColour(al.getSequences(), al.getWidth(), name);\r
}\r
\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param seqs DOCUMENT ME!\r
+ * @param width DOCUMENT ME!\r
+ * @param name DOCUMENT ME!\r
+ *\r
+ * @return DOCUMENT ME!\r
+ */\r
public static ColourSchemeI getColour(java.util.Vector seqs, int width,\r
- String name) {\r
+ String name)\r
+ {\r
return getColour(seqs, width, getColourIndexFromName(name));\r
}\r
\r
+ /**\r
+ * DOCUMENT ME!\r
+ *\r
+ * @param seqs DOCUMENT ME!\r
+ * @param width DOCUMENT ME!\r
+ * @param index DOCUMENT ME!\r
+ *\r
+ * @return DOCUMENT ME!\r
+ */\r
public static ColourSchemeI getColour(java.util.Vector seqs, int width,\r
- int index) {\r
+ int index)\r
+ {\r
ColourSchemeI cs = null;\r
\r
- switch (index) {\r
+ switch (index)\r
+ {\r
case CLUSTAL:\r
cs = new ClustalxColourScheme(seqs, width);\r
\r
break;\r
\r
case USER_DEFINED:\r
- cs = new UserColourScheme(null);\r
+ cs = new UserColourScheme(new Color[0]);\r
\r
break;\r
\r
\r
return cs;\r
}\r
+\r
+ public static Color getAWTColorFromName(String name)\r
+ {\r
+ Color col = null;\r
+ name = name.toLowerCase();\r
+ if(name.equals("black"))\r
+ col = Color.black;\r
+ else if(name.equals("blue"))\r
+ col = Color.blue;\r
+ else if(name.equals("cyan"))\r
+ col = Color.cyan;\r
+ else if(name.equals("darkGray"))\r
+ col = Color.darkGray;\r
+ else if(name.equals("gray"))\r
+ col = Color.gray;\r
+ else if(name.equals("green"))\r
+ col = Color.green;\r
+ else if(name.equals("lightGray"))\r
+ col = Color.lightGray;\r
+ else if(name.equals("magenta"))\r
+ col = Color.magenta;\r
+ else if(name.equals("orange"))\r
+ col = Color.orange;\r
+ else if(name.equals("pink"))\r
+ col = Color.pink;\r
+ else if(name.equals("red"))\r
+ col = Color.red;\r
+ else if(name.equals("white"))\r
+ col = Color.white;\r
+ else if(name.equals("yellow"))\r
+ col = Color.yellow;\r
+\r
+ return col;\r
+ }\r
}\r
git://source.jalview.org / jalview.git / blobdiff