I have an app version 1.0 which is on Appstore, now I want to update this app and also want to integrate push notifications to this app. Now my question is since the provision profile, that signed with last version ,has not been configured for push notifications, now If I configure the push notification ,will push notifications will be available on updating the app.
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You need to recreate the profile, redownload it and resign the new version with this in.
You can verify it is enabled by creating an ADHOC profile and doing some live testing (which you should be doing anyway!)