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We were chowning the host directory, not the one in the chroot. Host gpg >= 2.1.13 puts the gpg-agent socket in /run/user/UID/gnupg, which is bind-mounted into the chroot, but the SDK gpg was ignoring it because /run/user/UID was not owned by UID. This broke tag signing with YubiKeys.
CoreOS SDK scripts
Welcome to the scripts repo, your starting place for most things here in the CoreOS SDK. To get started you can find our documentation on the CoreOS website.
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