How completely to isolate a CPU core ?

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I have an application that requires a CPU core to be completely
isolated in order to achieve fast and precise GPIO timing. I have
tried some libraries like WiringOP on Orange PI and able to achieve
relatively fast  GPIO switching (1.7 MHz), but it seems the Linux
kernel adds some delays. According to this discussion: Max ARISC CLK
and step-rates ?
(, “at least
50 us of latency every millisecond”.

Any way to avoid or minimize  those delays ?

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