Changed commandline arguments and how they are parsed, refactored the code, updated the README, improved output

pom.xml

@@ -25,6 +25,11 @@
       <artifactId>commons-codec</artifactId>
       <version>1.15</version>
     </dependency>
+    <dependency>
+      <groupId>commons-cli</groupId>
+      <artifactId>commons-cli</artifactId>
+      <version>1.5.0</version>
+    </dependency>
   </dependencies>
 
   <build>