Hello,
Is it normal that Relion 2.1 makes some-sort of double directory of files when you extract the particle coordinates?
For example the images are in directory: /gpfs/rocket/home/relion/micrographs/
The extracted files (.mrcs and extract.star) are put in directory: /gpfs/rocket/home/relion/Extract/job009//gpfs/rocket/home/relion/micrographs/
Now if I want to do gctf local ctf refinement then gctf does not find the extract.star files as it looks them from micrograph directory /gpfs/rocket/home/relion/micrographs/
It works when I copy the extract.star files into the micrograph directory then gctf finds the files.
So, is the Relion extracting behavior normal, I would imagine that normal would be that the "extracted" files would be located in micrograph directory?
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