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"batch file", you mean .bat file / .sh file ?. You can create that file and run it by double clicking (Opening it with default editor/ system editor). I havent tried .sh but should be okay.
Somewhere else, as long it is in local or accessible network place you can click on properties(After you put the jar file in build path) and look for source attachment.
After the source location is attached to jar file. Open the class file from jar. You will see source displayed. You can put breakpoint on it just like other regular java source files.
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