When to flush a BufferedWriter

In a Java program (Java 1.5), I have a BufferedWriter that wraps a Filewriter, and I call write() many many times... The resulting file is pretty big...

Among the lines of this file, some of them are incomplete...

Do I need to call flush each time I write something (but I suspect it would be inefficient) or use another method of BufferedWriter or use another class...?

(Since I've a zillion lines to write, I do want to have something quite efficient.) What would be the ideal "flushing" moment? (when I reach the capacity of the BufferedWriter)...

Init:

try {
  analysisOutput = new BufferedWriter(new FileWriter(
      "analysisResults", true));
  analysisOutput.newLine();
  analysisOutput.write("Processing File " + fileName + "\n");
} 
catch (FileNotFoundException ex) {
  ex.printStackTrace();
} 
catch (IOException ex) {
  ex.printStackTrace();
}

Writing:

private void printAfterInfo(String toBeMoved,HashMap<String, Boolean> afterMap, Location location)
  throws IOException {
    if(afterMap != null) {
      for (Map.Entry<String, Boolean> map : afterMap.entrySet()) {
        if (toBeMoved == "Condition") {
          if (1 <= DEBUG)
            System.out.println("###" + toBeMoved + " " + location + " "
                + conditionalDefs.get(conditionalDefs.size() - 1)
                + " After " + map.getKey() + " "
                + map.getValue() + "\n");

          analysisOutput.write("###" + toBeMoved + " " + location + " "
              + conditionalDefs.get(conditionalDefs.size() - 1)
              + " After " + map.getKey() + " " + map.getValue()
              + "\n");
        } else {
          if (1 <= DEBUG)
            System.out.println("###" + toBeMoved + " " + location + " "
                + map.getKey() + " After " 
                + map.getValue() + "\n");
          if (conditionalDefs.size() > 0)
            analysisOutput.write("###" + toBeMoved + " " + location + " "
                + conditionalDefs.get(conditionalDefs.size() - 1) + " "
                + map.getKey() + " After " + map.getValue()
                + "\n");
          else
            analysisOutput.write("###" + toBeMoved + " " + location + " " + map.getKey() + " After " + map.getValue() + "\n");


        }
      }
    }

I've just figured out that the lines which are incomplete are those just before "Processing file"... so it occurs when I'm switching from one file that I analyze to another...

Closing:

dispatch(unit);

try {
  if (analysisOutput != null) {
    printFileInfo();
    analysisOutput.close();
  }
} 
catch (IOException ex) {
  ex.printStackTrace();
}

Sometimes the information printed out by printFileInfo does not appear in the results file...