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Seems like MAC creates this hidden folder automatically. I was also having this issue.
I’ve used the following command on terminal:
zip -d filename.zip __MACOSX/\*
found here:
Mac zip compress without __MACOSX folder?
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I had a same problem. I try to do remove the __MACOSX/ in zip file. but there were other problem came up.
AWS doc suggest that Creating a source bundle from command line:
zip -d filename.zip __MACOSX/\*
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