Set<String> samplesFromFiles = new HashSet<String>();
if (files != null) {
for (File file : files) {
try {
XReadLines reader = new XReadLines(file);
List<String> lines = reader.readLines();
for (String line : lines) {
samplesFromFiles.add(line);
}
} catch (FileNotFoundException e) {
throw new UserException.CouldNotReadInputFile(file, e);