Update directory submodule to latest master

The primary reason for this bump is to fix the warning from ghc-pkg check:

Warning: include-dirs: /data/home/ubuntu/.ghcup/ghc/9.6.2/lib/ghc-9.6.2/lib/../lib/aarch64-linux-ghc-9.6.2/directory-1.3.8.1/include doesn't exist or isn't a directory

This also requires adding the file-io package as a boot library (which is discussed in #25145 (closed))

Fixes #23594 (closed) #25145 (closed)