Hosted by the Liberation Association, the ceremony took place at a separate venue after being denied access to the cemetery's memorial hall.
The Ministry of Patriots and Veterans Affairs had rejected the association's request to use the hall, citing concerns over possible conflicts between those with different historical views.
Friday's event served as an alternative commemoration ahead of the memorial day for those who sacrificed for Korea's independence. Korea was forced to sign the Eulsa Protectorate Treaty on Nov. 17, 1905 by Japan, which deprived it of its diplomatic rights.