I can list all folders(project folders) when i use shell commands in the as400 screen. I have accesss to this server and all project folders or directories are listed in my zend studio. But i cannot see one folder and its subdirectories. What will be the reason for this? Did administrator hide this folder ? How ? Where can i check?
Yes, you can "hide" folders by removing authorization to them. But if I understand you correctly, you have authorization since you can see them on the green-screen (assuming that you are using the same login).
As a sidenote: If you aren't getting anywhere here. You could also ask your question on WEB400 there are many using Zend Studio on the IBM i there. They are quite friendly and can at least point you in a direction.