Iphone and itunes questions

When my iphone 4 is connected to my mac book and i try to change some of the settings such as manually manage music for my iphone, when i click the box then hit apply a warning comes up saying are you sure you want to delete 22 apps from my iphone. I only want to change the fact the my iphone automatically syncs with my library every time I plug my phone in. Any ideas?

Well first go to Preferences in iTunes menus and in there is where you turn off auto sync. Manually manage is something else.
Then also choose Transfer Purchased content from File menu to ensure every app on the phone is transfered to iTunes.

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