/** Writes the data provenance into xml formatted file */
public void writeXML() throws IOException {
FileWriter fw;
if (file.exists() == true) {
file.delete();
file = new File(fileDir + File.separator + fileName);
}
try {
fw = new FileWriter(file);
bw = new BufferedWriter(fw);
Vector<XMLAttributes> atVector = new Vector<XMLAttributes>();
bw.write(XML_HEADER);
bw.newLine();
bw.write(DATA_PROVENANCE);
bw.newLine();
openTag("provenance", true);
int numEntries = pHolder.size();
ProvenanceEntry entry;
for (int i = 0; i < numEntries; i++) {
entry = pHolder.elementAt(i);
openTag("processStep", true);
atVector.add(new XMLAttributes("version", entry.getMipavVersion()));
this.closedTag("program", entry.getProgramName(), atVector);
atVector.add(new XMLAttributes("inputs", entry.getProgramInputs()));
closedTag("programArguments", entry.getAction(), atVector);
closedTag("timeStamp", entry.getTimeStamp());
closedTag("user", entry.getUser());
closedTag("hostName", entry.getHostName());
closedTag("architecture", entry.getArchitecture());
atVector.add(new XMLAttributes("version", entry.getPlatformVersion()));
closedTag("platform", entry.getPlatform(), atVector);
atVector.add(new XMLAttributes("version", entry.getJavaVersion()));
closedTag("compiler", "java", atVector);
openTag("processStep", false);
}
openTag("provenance", false);
bw.close();
} catch (Exception e) {
System.err.println("CAUGHT EXCEPTION WITHIN writeXML() of FileDataProvenance");
e.printStackTrace();
}
}
private void tidyUnicode(String filename) {
FileInputStream in = null;
FileOutputStream out = null;
InputStreamReader reader = null;
OutputStreamWriter writer = null;
File f0 = new File(filename + "0");
File f1 = new File(filename);
f1.renameTo(f0);
try {
in = new FileInputStream(f0);
reader = new InputStreamReader(in);
out = new FileOutputStream(f1);
writer = new OutputStreamWriter(out);
UTF8Tidy u = new UTF8Tidy(reader, writer);
u.execute();
} catch (Exception e) {
{
} // System.out.println("e: " + e ); }
} finally {
try {
reader.close();
writer.close();
} catch (Exception ex) {
ex.printStackTrace();
}
f0.delete();
}
}
