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Upgrade transcrypt to latest v2 from upstream and our fallback v1
Apply latest changes and fixes from upstream including: - fix behaviour when init-ing repo with --force to correctly check out secrets files deleted from working copy. We rely on this working as intended, but it was subtly broken by stricter bash script directives applied upstream - add '--upgrade' command to easily upgrade transcrypt scripts and aliases etc stored within the Git repo - remove cached plaintext of secret files from local system on uninstall or flush.
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