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Uploading XML Files From Swing Application

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Hi,
Im working on Swing Application in which data ll be stored in XML. And on some user Event i wnt to Sync those files on my server through Authorization.
Many client Applications ll be distributed to the different areas. And thre will be n number of clients updating n number of files to the server.
It is not finalized but may be JRun will be used as an Application Server.
So how should i upload this files to the server. through FTP, Http and how should i go for it.
And yes offcurse before uploading files ineed to check that which files are current (Changed on client side), and only those file s ineed to update on server whch r changed.
Performance is key issue,because this activity wll be mostly for 2-3 mnts in a year , and as somany client apps wll be updtng files contnusly on the server.
And also authentication is importnt.
Previously ihd workd on web applicatin ,which ws havng same functionality, but it ws one file from JSP file. I hd used Orielly s servlet in tht. But now its a Applicatin client and the files will be more.
Thanks
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