Tomas Berdych is into the last four at The Championships after Novak retired with an elbow injury early in the second set.
Three-time former champion beat Adrian Mannarino 6-2, 7-6 (5), 6-4 to move into his ninth Wimbledon quarter-final.
Three-time former champion booked his place in the Wimbledon last 16 with a comprehensive 6-4, 6-1, 7-6 victory over Ernests Gulbis.
The second seed clinched a one-way win on No.1 Court over Adam Pavlasek 6-2, 6-2, 6-1. He next faces Ernests Gulbis of Latvia.
Novak is through to the second round of Wimbledon after Martin Klizan pulled out with a calf injury, trailing 3-6, 0-2, 0/30.
Gentlemen’s singles draw has been made for Wimbledon, the most prestigious tennis tournament in the world (July 3-16).
The reigning title holder started his Roland Garros campaign with a 6-3, 6-4, 6-2 win over Marcel Granollers.
Novak won his first French Open title in 2016 and completed career Grand Slam beating Andy Murray in the final (3-6, 6-1, 6-2, 6-4).
The defending champion passed a tough first-round assignment with a 6-1, 7-6, 6-2 victory over Spaniard Fernando Verdasco (ATP #40).
Top seed and defending champion will open campaign in his 12th US Open appearance against Jerzy Janowicz (Poland).