-/*
- StringBuffer out = new StringBuffer();
-
- out.append("START PRED\n");
- for (int i = 0; i < s[0].sequence.length(); i++)
- {
- out.append(s[0].sequence.substring(i, i + 1) + " ");
- out.append(s[1].sequence.substring(i, i + 1) + " ");
- out.append(s[1].score[0].elementAt(i) + " ");
- out.append(s[1].score[1].elementAt(i) + " ");
- out.append(s[1].score[2].elementAt(i) + " ");
- out.append(s[1].score[3].elementAt(i) + " ");
-
- out.append("\n");
- }
- out.append("END PRED\n");
- return out.toString();
- }
-
- public static void main(String[] args)
- {
- try
- {
- BLCFile blc = new BLCFile(args[0], "File");
- DrawableSequence[] s = new DrawableSequence[blc.seqs.size()];
- for (int i = 0; i < blc.seqs.size(); i++)
- {
- s[i] = new DrawableSequence( (Sequence) blc.seqs.elementAt(i));
- }
- String out = BLCFile.print(s);
-
- AlignFrame af = new AlignFrame(null, s);
- af.resize(700, 500);
- af.show();
- System.out.println(out);
- }
- catch (java.io.IOException e)
- {
- System.out.println("Exception " + e);
- }
- }
-
- }
+/*\r
+ StringBuffer out = new StringBuffer();\r
+\r
+ out.append("START PRED\n");\r
+ for (int i = 0; i < s[0].sequence.length(); i++)\r
+ {\r
+ out.append(s[0].sequence.substring(i, i + 1) + " ");\r
+ out.append(s[1].sequence.substring(i, i + 1) + " ");\r
+ out.append(s[1].score[0].elementAt(i) + " ");\r
+ out.append(s[1].score[1].elementAt(i) + " ");\r
+ out.append(s[1].score[2].elementAt(i) + " ");\r
+ out.append(s[1].score[3].elementAt(i) + " ");\r
+\r
+ out.append("\n");\r
+ }\r
+ out.append("END PRED\n");\r
+ return out.toString();\r
+ }\r
+\r
+ public static void main(String[] args)\r
+ {\r
+ try\r
+ {\r
+ BLCFile blc = new BLCFile(args[0], "File");\r
+ DrawableSequence[] s = new DrawableSequence[blc.seqs.size()];\r
+ for (int i = 0; i < blc.seqs.size(); i++)\r
+ {\r
+ s[i] = new DrawableSequence( (Sequence) blc.seqs.elementAt(i));\r
+ }\r
+ String out = BLCFile.print(s);\r
+\r
+ AlignFrame af = new AlignFrame(null, s);\r
+ af.resize(700, 500);\r
+ af.show();\r
+ System.out.println(out);\r
+ }\r
+ catch (java.io.IOException e)\r
+ {\r
+ System.out.println("Exception " + e);\r
+ }\r
+ }\r
+\r
+ }\r