this issue was about using Jackrabbit with JBoss, but that's a rather dirty 
hack. the details where the subject is obtained from is not the task of the 
repository.
I should rather do the following when I do a login:

Context ctx = new InitialContext();
  | Subject subject = (Subject)ctx.lookup("java:comp/env/security/subject");
  | final Repository repository = ....  // probably also from jndi
  | 
  | Session s = (Session) Subject.doAs(subject, new PrivilegedAction() {
  |      public Object run() {
  |          return repository.login();
  |      }
  | });


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