rework manifest renaming

Issue #526, correctly handles apks where a renamed package is required, by comparing the package name present
in AndroidManifest.xml and resources.arsc. If different, we take the package name present
in resources.arsc (original) and replace it in the <manifest> tag of AndroidManifest.xml. The previous value in
AndroidManifest.xml (renamed) becomes the value to be passed to aapt on rebuild via --rename-manifest-package

Both these values along with the package id of the original are stored in apktool.yml, for use during the
rebuild