Has anyone had a problem with memory cards switching the file from EOS to EKS?

My camera memory cards have suddenly switched from an EOS file to an EKS file and are no longer readable.  I don't know if the problem is my computer, my card reader, my memory cards, or my camera.  It doesn't seem probable that two cards would become corrupted or go bad at the same time.  I have two large capacity cards and two new high capacity cards that I haven't tried yet, but I'm afraid to try to use any of my other cards until I know what is going on with these two.   The camera I'm using a 5D Mark II.  Can anyone please help!   This is a serious problem for me! 
Thank you to everyone for your help and assistance!
Best regards,
Windsails

Lightroom should recognize your camera (assume it's LR3 or later) automatically without pointing it to the DCIM directory. The files you are referring to is system file I think and not the photos; thus OS cannot read the file.
Do you have a card reader? For some reason, if you connect your camera into Lightroom directly, sometimes LR doesn't show the preview of your images. Instead you'll get ? next to a gray box. If you don't have a card reader, just plug your camera in, ignore the ? and the gray box (this is LR problem, not your camera), then import them anyway. You should see your test shot once it's done importing.
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