Iterates over the contents of blogs.dir and copies them to wp-content/sites.

copy-files.sh

#! /bin/bash
 
shopt -s dotglob
shopt -s nullglob
array=(*/)
echo "Copying ${#array[@]} directories"
for dir in "${array[@]}"; do
  # if /uploads/sites doesn't exist, you should create it
  cp -r $dir/files ../uploads/sites/$dir
echo "Copied ${dir}"
done