1. Categorize the sequence data programmatically:

// convert URI to string
 final String data = IOUtils.toString(new URL(url),"utf-8");
 // Get sequences from the raw data
 final String[] sequences = data.split("
");
 final List<Pair<String,Integer>> contentAndLabels = new ArrayList<>();
 int lineCount = 0;
 for(String sequence : sequences) {
 // Record each time step in new line
 sequence = sequence.replaceAll(" +","
");
 // Labels: first 100 examples (lines) are label 0, second 100 examples are label 1, and so on
 contentAndLabels.add(new Pair<>(sequence, lineCount++ / 100));
 }

2. Store the features/labels in their corresponding directories by following the numbered format:

for(Pair<String,Integer> sequencePair : contentAndLabels) {
 if(trainCount<450) {
 featureFile = new File(trainfeatureDir+trainCount+".csv");
 labelFile = new File(trainlabelDir+trainCount+".csv");
 trainCount++;
 } else {
 featureFile = new File(testfeatureDir+testCount+".csv");
 labelFile = new File(testlabelDir+testCount+".csv");
 testCount++;
 }
 }

3. Use FileUtils to write the data into files:

FileUtils.writeStringToFile(featureFile,sequencePair.getFirst(),"utf-8");
FileUtils.writeStringToFile(labelFile,sequencePair.getSecond().toString(),"utf-8");