Help!!!!    Will Time Machine Erase Everything on my portable hard drive?

This is my first time using Time Machine. I purchased a 500 gb portable hard drive (Western Digital) which is mac compatible. When I got it, it I loaded all of my files from my pc onto the hard drive. I have transferred some of the files (mostly pictures and documents) to my MacBook hard drive. When I connected my portable hard drive and opened up Time Machine, I located the Western Digital drive fine but it said it needed to be reformatted and that it will erase all of the files on the hard drive. I think there are some files on it that are necessary to run the hard drive so I'm nervous about deleting them. Can I delete them and still have the hard drive run properly? Should I just transfer all of the remaining files to my laptop and then use the Time Machine program? I want to be able to periodically back up all of my files on the portable hard drive.

TM only works with drives formatted for Mac machines. Your drive does not qualify, since your PC can see it. This is why you are being asked to reformat it.
You can partition it and use part for your FAT32 Windows files and the rest as HFS+ for TM, but, IMO, you would be better with a separate FAT32 drive for your Windows files and have one drive dedicated, not necessarily to just TM, but to HFS+.
My TM drive has a Tiger bootable clone on it in a separate partition, but it's all HFS+

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