{ "b", "Not A (G or C or T)" },
{ "h", "Not G (A or C or T)" },
{ "d", "Not C (A or G or T)" },
- { "v", "Not T (A or G or C" },
+ { "v", "Not T (A or G or C)" },
{ "n", "Unknown" } };
// "gap" index
maxNucleotideIndex = namesArray.length;
Color.white, // Gap
};
+ // this colour scheme devised by sduce
public static final Color[] nucleotideAmbiguity = {
Color.decode("#f0fff0"), // a
- Color.decode("#f0fff0"), // g
Color.decode("#f0fff0"), // c
+ Color.decode("#f0fff0"), // g
Color.decode("#f0fff0"), // t
Color.decode("#f0fff0"), // u
Color.decode("#ffffff"), // i
- Color.decode("#ffffff"), // x
+ Color.decode("#4f6f6f"), // x
Color.decode("#CD5C5C"), // r
Color.decode("#008000"), // y
- Color.decode("#2f4f4f"), // n
Color.decode("#4682B4"), // w
Color.decode("#FF8C00"), // s
Color.decode("#9ACD32"), // m
Color.decode("#808080"), // h
Color.decode("#483D8B"), // d
Color.decode("#b8860b"), // v
+ Color.decode("#2f4f4f"), // n
Color.white, // Gap
};
public static void main(String[] args)
{
Hashtable<String, Vector<String>> aaProps = new Hashtable<>();
- System.out.println("my %aa = {");
+ jalview.bin.Console.outPrintln("my %aa = {");
// invert property hashes
for (String pname : propHash.keySet())
{
System.out.print("'" + props.nextElement() + "'");
if (props.hasMoreElements())
{
- System.out.println(", ");
+ jalview.bin.Console.outPrintln(", ");
}
}
- System.out.println("]" + (res.hasMoreElements() ? "," : ""));
+ jalview.bin.Console
+ .outPrintln("]" + (res.hasMoreElements() ? "," : ""));
}
- System.out.println("};");
+ jalview.bin.Console.outPrintln("};");
}
// to here