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I would like to use the 5-pin arrangement for programming, debugging and I2C bridge. I am assuming that the I2C user module pins need to be routed to P1[1,0]. Creator will not allow me to make this connection.
Miniprog3 can be used as USB-I2C Bridge and when used as USB-I2C Bridge, it acts an I2C Master. To use the I2C bridge, PSoC should be configured as I2C Slave. On the PSoC side any pin can be assigned as I2C pins.
P1 and P1 are the SWDIO and SWDCK pins which are used for programming and debugging. If debug is enabled in the CYDWR file as shown in figure below, these pins can not be used as GPIO. For P1 and P1 to be available as GPIO, disable debug. Note that, to miniprog3 as USB I2C bridge any pins can be used.