Is there a consistent code-base that allows me to upload a zip file to both GAE and Tomcat-based servers, extract the contents (plain-text files), and process them?
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Both supports Java, so you can just use Java 🙂
In all seriousness, processing file uploads can be done with Apache Commons FileUpload and extracting them can be done with
java.util.zipAPI.See also the answers on those similar questions which are asked last two days, probably by your classmates/friends: