Special education students at a Brooklyn charter school did not get mandated services and were punished for behavior that arose from their disabilities, according to a lawsuit filed in federal court on Thursday. The suit, filed on behalf of five students at Achievement First Crown Heights, described a “systemic failure to provide them a free appropriate public education, in violation of their rights.” It said that students did not get physical therapy and other services for weeks at a time, and that a student with autism was disciplined for not looking in the direction a teacher instructed or for hiding under his desk…