refactor: do not use deno_fs::FileSystem everywhere (#27508)

This changes the cli to mostly use `std::fs` via `sys_traits` instead of
the implemention of `deno_fs::FileSystem`.

cli/main.rs

@@ -20,6 +20,7 @@ mod ops;
 mod resolver;
 mod shared;
 mod standalone;
+mod sys;
 mod task_runner;
 mod tools;
 mod tsc;