More than 20 candidates are vying to become Somali president, with the top three proceeding to a second round of voting and the top two from that round going forward to a third and final vote.
Incumbent President Hassan Sheikh Mohamud is standing for re-election and analysts say he is likely to be one of those who goes forward to the later rounds.
Results are expected later on Wednesday.
The airport is viewed as the most secure site in the Somali capital and voting was moved there from a police academy because of growing security concerns.
Wednesday's security measures will include a ban on flights to and from Mogadishu airport.
Correspondents said most schools and offices remained open on Tuesday but people had had to walk to reach their destination.
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