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It happened around 7:40 p.m. on Thursday in north Harris County.
According to the sheriff's department, deputies received a call from a woman who said she heard noises coming from downstairs and believed someone was trying to break into her home.
Officials said after she got off the phone with deputies, she called her father, who lives nearby. Her father drove to her home.
"There was some sort of an encounter at which time one of the deputies discharged his firearm, striking the male in the leg," said Jason Spencer, the sheriff's public information officer.
Spencer said when deputies arrived, the father's pickup truck was parked in the yard on the grass.
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"They encountered the man at the front door," he said. "It was a somewhat chaotic situation. There were multiple people inside the home."
The sheriff's office says the deputy was not injured. The man was taken to the hospital for treatment.
"Officers don't know when they're arriving, who's a good guy and who's a bad guy," said Spencer. "They don't know when they walk up to a scene who's who. Anything you can do, as a citizen, to identify yourself and to comply with deputies is a good thing."
The incident will be investigated by the Harris County Sheriff's Office homicide unit, its internal affairs division and the district attorney's office.