Incompatibility with Relion 2? - deleting directory contents

Issue #5 resolved
Matt I created an issue

I had a user run a post processing job in a directory that was previously processed in Relion 2. Now the entire contents of the directories that contained the inputs to this job are gone. The Refine3D/job0xx directory that contained the halfmap and the MaskCreate/jobxxx directory that contained the mask are both completely empty.

Any idea as to what might have happened?

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