By default augtool can only see the following directories
/etc
/boot
Root is set to /.
[root@]# augtool ls /files
etc/ = (none)
boot/ = (none)
root/ = (none)
Can't find nothing about it in errors:
[root@]# augtool print /augeas//error (all messages concerns /etc)
How can I make Augeas see other directories?