Rory passes through the portal onto the ship. He lands in a spacious area that would make a great observation deck if it were open to tourists. All the nice windows overlooking space. Rory sees his dad lying unconscious on the gurney. Other people are in a similar state, although lying on marble platforms. The PTs approach Rory with syringes.
The Doctor, Kate and Amy make their way through the hospital. "How many deaths have been recorded?" the Doctor asks. "We don't know; we think it could be a third of the population," Kate says. Professor Brian Cox better be okay, damn it. While Kate and a handful of UNIT soldiers go off to do... something... the Doctor and Amy go in search of the wormhole that the Doctor's sure is there. He waves the sonic screwdriver around while Amy holds him up. He finds the little girl with the freaky blue eyes. "Hello! You are giving off some very strange signals," the Doctor says. Her whole face glows blue. The Doctor scans her and announces: "Outlier droid, monitoring everything." Um... okay. He shuts her down. He flails about some more, so Amy grabs a nearby defibrillator, rips open his shirt and gives him a zap, all while he protests that it won't work. It does work, and he hops up to start dancing around like he's got a bad case of Saturday Night Fever.
Eventually he remembers they've got other things to do and they work their way to the elevator. The portal shimmers. He and Amy exchange excited grins. It's not like a third of the planet is dead or dying or anything. Take your time and enjoy the adventure! They clasp hands and jump through the portal.
They land in the ship and see Rory lying a platform with Brian nearby. Amy wakes them with some alien smelling salts. An energy weapon fires over their heads. As Amy drags Rory and Brian to safety, the Doctor looks up and sees their attacker. It looks like a geriatric Borg with a pair of earbuds embedded in his face. "So many of them," he says, "crawling the planet, seeping into every corner." His image flickers, disappears, then reappears in front of a series of hexagonal computer screens. The Doctor studies him more closely. "It's not possible," he whispers. Long story short: The guy is a member of the Shakri, a people the Doctor had heretofore believed were a myth, and there's something significant about the number seven but nobody says exactly what. The Shakri says they are "serving the word of the Tally," which is just a mystical way of saying they're in the field of pest control and humans are the pests. They're culling the human population before they can venture further out into space. Amy and Rory return to help out and ask more questions about the Tally. "Before the Closure, there is the Tally," says their host. "The Shakri serves the Tally!" The Doctor tries to make a case for humanity that sounds kind of inspirational, but not entirely convincing. The Shakri laughs. "The Tally must be met! The second wave will be released." They're going to drop a bunch of dodecahedra on the planet or some crap like that.