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[README] fix readme

Alessandro Pecugi requested to merge ap/fix-readme-paths into kirkstone
  • The docker run command in the README mounts ${PWD} to /home/yoctouser/workdir, but then, in the next section, the project folder is created outside the workdir path, which could lead to accidentally losing the project files when the container is removed.
  • Remind user to sync after using dd to flash image
Edited by Alessandro Pecugi

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