You posted this in the windows help, does that mean we can ignore the linux half of your dual boot and your problem is trying to run php from the command line in windows?
If so, windows doesn't need or use the #!<shebang> thingy.
Is "cannot read input file" the exact error message? A message like that hints that the input file is corrupted or you have a file permissions issue where your user account, or the file, or php.exe has incorrect access permission settings.
If you're asking about php in linux, well, nevermind 🙂