If you look at the log, 2 things stand out:
You have a large number of “LogLinker:Warning: Can’t find file…” Errors
and
The logs definitey show you are hitting a memory cap. (iOSChunkInstaller is an ODR (On Demand Resource), which will have no impact on the memory footprint. It is a way of reading the chunks created, when generate chunks is enabled.)
The first issue is likely causing the second issue, and the first issue is likely caused when you upgraded from UE4.10 to UE4.12.
To fix this, follow these steps:
In the UE4.12 Version:
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Right-click on the Content Folder and select “Fix up redirectors in folder”
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Run a map check for each level and correct any errors.
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Save all and close the Editor.
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In the Project Folder, delete the Intermediate and Saved folders
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Open the project and try and package again
If it fails, please post the new Output Log