The award show, presented by the International Animated Film Society, honored the best in animation over the past year.
The Disney video-game romp beat a list of reputable features including "Brave," "Frankenweenie," "ParaNorman," and "Hotel Transylvania" for best animated feature. It dominated the film categories and won Annies for best directing by Rich Moore and best music by Henry Jackman.
"Wreck-It Ralph" is a comedy hit about a bad guy in a video-game who wants a shot to be a hero for a change. The PG movie is about his journey and the characters he meets along the way.
"The Avengers" won the Annie for animated effects. "Life of Pi" won an award for character animation. "Robot Chicken" won for best general audience animated show.
The ceremony took place at UCLA's Royce Hall.
"Wreck-It Ralph" might pick up another honor soon. The animated film is also an Oscar hopeful.
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The Oscars will air live on ABC7 on Feb. 24.
The Associated Press contributed to this report.