doIndex(ifile, typeString, outputDir, indexType, binSize);
} else if (command.equals(CMD_FORMATEXP)) {
validateArgsLength(nonOptionArgs, 3, basic_syntax);
File inputFile = new File(nonOptionArgs[1]);
File outputFile = new File(nonOptionArgs[2]);
(new ExpressionFormatter()).convert(inputFile, outputFile);
} else if (command.equals("wibtowig")) {
validateArgsLength(nonOptionArgs, 4, "Error in syntax. Expected: " + command + " [options] txtfile wibfile wigfile");
File txtFile = new File(nonOptionArgs[1]);
File wibFile = new File(nonOptionArgs[2]);
File wigFile = new File(nonOptionArgs[3]);