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The quota howto helped me out the first time I ever setup quota's. Its pretty straightforward and easy to follow. You shouldn't have any problems and it will probably answer most of your questions. If it doesn't, post back and we'll see what we can't do to help out.
You don't need to dave the file -- it's just a temp file and once you've finished editing it and exit the editor, edquota will know what to do with it.
Actually the files will need to reside on whatever partition's root directory you want quota enabled on, after editing fstab of course to tell it to look for quota files.
Say you have /home on /dev/hda7, you'd place the files directly in /home.
Hope this helps. But yeah, when you invoke the edquota command, do it from the parition or directory you want them placed.
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