On the command line use:
java -jar path/to/your/jar_file.jar
if you do not have a jar file, than you have to compile first your Java classes:
javac -g Foo.java
if you have just a single file (containing a static void main()) than you can simply run it with:
java path/to/your/compiled_class_file [<command line args>, ...]
Note: Run the command above without .class extension. i.e.
java Foo
if you want to generate a jar file from your compiled .class files run:
jar cf jar-file input-file(s)
However, I would recommend you to use a IDE that compiles, packs and runs your code for you automatically with one click. i.e. IntelliJ or Eclipse