Shell script to append folder names to the sub-folders and move them

Question

I have several folders inside a directory called freesurfer like:

freesurfer/sub-001/mri
freesurfer/sub-001/label
freesurfer/sub-001/surf
freesurfer/sub-001/stats
freesurfer/sub-002/mri
freesurfer/sub-002/label
freesurfer/sub-002/surf
freesurfer/sub-002/stats

I would like to rename only 'stats' folder and move it to a different location:

freesurfer/sub-001/mri
freesurfer/sub-001/label
freesurfer/sub-001/surf
freesurfer/sub-001/sub-001_stats
freesurfer/sub-002/mri
freesurfer/sub-002/label
freesurfer/sub-002/surf
freesurfer/sub-002/sub-002_stats

I have managed to write the following code:

while read dir ; do 
    new_dir=$(rev <<< "$dir" | sed 's~/~_~' | rev); 
    echo "mv $dir $new_dir"; 
done < <(find . -type d -name 'stats')

The above code seems to be working fine when I run it with 'echo' before 'mv' command and appends the folder name in front of 'stats' directory but when I take the 'echo' off, it gives an error saying: "No such file or directory". What am I doing wrong?

Answer 1

Your code to create new_dir isn't correct. It's creating freesurfer/sub-002_stats instead of freesurfer/sub-002/sub-002_stats. But this doesn't explain the error you're getting, since it will just rename the file incorrectly (moving all of them into the parent directory).

Try:

while read dir ; do 
    new_dir=$(dirname "$dir")/$(basename $(dirname "$dir"))_stats
    mv "$dir" "$new_dir"
done < <(find . -type d -name 'stats')