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git annex removed deleted recovery

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https://www.google.com/accounts/o8/id?id=AItOawkW9u-8uqR62QBZjeTNCXsL7Ds55dAMGbA 2015-04-17 21:50:25 +00:00 • committed by admin
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I am trying to follow this guide:
https://git-annex.branchable.com/walkthrough/
I:
* created a repository
* added a remote
* added all the files via `git annex add .`
* commited my changes
* synced my repositories
By the time I tied to actually get the content from repo one into repo two (via `git annex get folder`) I noticed that all of my stuff had been deleted from repo one (and not backed up by git annex anywhere else!).
How can I get my stuff back?
Also, why would any software which is meant for backup (or any sane software in general) delete stuff without me actually typing `rm` or `delete` into the terminal and without giving me a big warning message and a confirmation prompt?