так там регистр большой, вы уверены что туда записали?
CC1S[1:0]: Capture/compare 1 selection
This bitfield defines the direction of the channel (input/output) and the used input.
00: CC1 channel is configured as output
01: CC1 channel is configured as input, IC1 is mapped on TI1FP1
10: CC1 channel is configured as input, IC1 is mapped on TI2FP1
11: CC1 channel is configured as input, IC1 is mapped on TRC. This mode works only if an internal
trigger input is selected through the TS bit (TIM1_SMCR register).
Note: CC1S bits are writable only when the channel is OFF (CC1E = 0 in TIM1_CCER1).