System.err.println(file);
}
ModelType motif = loadMotif(file);
File result_filename = new File(results_dir, motif.getName() + ".thr");
PvalueBsearchList bsearchList = calculator().bsearch_list_for_pwm(motif);
bsearchList.save_to_file(result_filename);
}
}
public String documentString() {
return "Command-line format:\n" +