It was reconstructed after the 1748 and 1749 fires: a new presbytery and two towers were built on, and in a place of a Gothic apse a new portal was erected.
The church was adapted for the display of the original Image of Merciful Jesus, painted according to the vision of Saint Faustina Kowalska by artist Eugeniusz Kazimirowski in 1934.
The Shrine is also decorated with two sgraffiti made by Nijolė Vilutytė: the Virgin of Mercy of the Gate of Dawn and the prayer Jesus I trust in you in eleven languages.
After the Image of Merciful Jesus was completed in June 1934, it was kept in the corridor of the convent of the Bernardine Sisters beside the Church of St. Michael were Blessed Michał Sopoćko was rector.
Jesus, in one of Faustina's visions, had expressed to her his wish that the image be put in a place of honor, above the main altar of the church.