Michael Moynihan, 59, who was sentenced to five months in jail followed by two years of supervised release, is now at the Metropolitan Detention Center.
Located near the Gowanus Bay, the prison is classified as an administrative facility, a type of institution intended for the detention of pretrial offenders, dangerous or escape-prone inmates, or for treatment of inmates with medical problems, according to the Federal Bureau of Prisons.
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The Brooklyn facility is capable of holding male and female inmates in all security categories.
Moynihan was to report to prison Sept. 3; a prison employee on Thursday would not confirm when he reported.
Moynihan resigned from St. Michael the Archangel Roman Catholic Church in 2007 amid allegations he diverted hundreds of thousands of dollars in church funds to pay for personal expenses.
He pleaded guilty in December 2011 to the obstruction charge, which stemmed from lies he told federal officials investigating the possible misappropriation of funds.