In order to expose Codex via an MCP server, I realized that we should be
taking `cwd` as a parameter rather than assuming
`std::env::current_dir()` as the `cwd`. Specifically, the user may want
to start a session in a directory other than the one where the MCP
server has been started.
This PR makes `cwd: PathBuf` a required field of `Session` and threads
it all the way through, though I think there is still an issue with not
honoring `workdir` for `apply_patch`, which is something we also had to
fix in the TypeScript version: https://github.com/openai/codex/pull/556.
This also adds `-C`/`--cd` to change the cwd via the command line.
To test, I ran:
```
cargo run --bin codex -- exec -C /tmp 'show the output of ls'
```
and verified it showed the contents of my `/tmp` folder instead of
`$PWD`.
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