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The city was on the main route for smugglers , and sheltered a number of very successful crime lords . By the time he moved on the main , second storey the Great Church and Main Staircase were ready , as were the private apartments of Empress Catherine , Peter III 's wife , in the western wing , opposite the Admiralty , and rooms for their young son , the heir to the throne Pavel ( Paul ) Petrovich , in the southern wing that overlooked Palace Square . The work on the John Day River focussed on the main branch from its headwaters in the Blue Mountains to Clarno , Oregon .