/**
* Parse a RES dataset from an input stream.
*
* @param name the name of dataset.
* @param stream the input stream of data.
* @throws java.io.FileNotFoundException
*/
public AttributeDataset parse(String name, InputStream stream)
throws IOException, ParseException {
BufferedReader reader = new BufferedReader(new InputStreamReader(stream));
String line = reader.readLine();
if (line == null) {
throw new IOException("Empty data source.");
}
String[] tokens = line.split("\t", -1);
int p = (tokens.length - 2) / 2;
line = reader.readLine();
if (line == null) {
throw new IOException("Premature end of file.");
}
String[] samples = line.split("\t", -1);
if (samples.length != tokens.length - 1) {
throw new IOException("Invalid sample description header.");
}
Attribute[] attributes = new Attribute[p];
for (int i = 0; i < p; i++) {
attributes[i] = new NumericAttribute(tokens[2 * i + 2], samples[2 * i + 1]);
}
line = reader.readLine();
if (line == null) {
throw new IOException("Premature end of file.");
}
int n = Integer.valueOf(line);
if (n <= 0) {
throw new IOException("Invalid number of rows: " + n);
}
AttributeDataset data = new AttributeDataset(name, attributes);
for (int i = 0; i < n; i++) {
line = reader.readLine();
if (line == null) {
throw new IOException("Premature end of file.");
}
tokens = line.split("\t", -1);
if (tokens.length != samples.length + 1) {
throw new IOException(
String.format("Invalid number of elements of line %d: %d", i + 4, tokens.length));
}
double[] x = new double[p];
for (int j = 0; j < p; j++) {
x[j] = Double.valueOf(tokens[2 * j + 2]);
}
Datum<double[]> datum = new Datum<double[]>(x);
datum.name = tokens[1];
datum.description = tokens[0];
data.add(datum);
}
reader.close();
return data;
}
