A method of manufacturing a semiconductor device includes etching a via through a dielectric layer and an etch stop layer (ESL) to a source/drain contact, forming a recess in the top surface of the source/drain contact such that the top surface of the source/drain contact is concave, and forming an oxide liner on the sidewalls of the via. The oxide liner traps impurities left behind by the etching of the via through the dielectric layer and the ESL, wherein the etching, the forming the recess, and the forming the oxide liner are performed in a first chamber. The method further includes performing a pre-cleaning that removes the oxide liner and depositing a metal in the via.