You can use cp –parents option to copy the full source file name under DIRECTORY.
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mkdir -p mydir1/mydir11 mydir2 ## creates some files and directories touch mydir1/mydir11/myfile cp mydir1/mydir11/myfile mydir2 ## copies myfile to mydir2 ls mydir2 cp --parents mydir1/mydir11/myfile mydir2 ## copies mydir1/mydir11/myfile to mydir2 ls mydir2 rm -r my* |