We were struggling to get the eQEP to count before I found post 427910 about a HALCoGen issue. Hoping that 04.05.00 would fix the problem, I upgraded. Unfortunately, the HL_pinmux.c file generated will not compile now (PINMUX_BALL_R4_ is undefined, PINMUX_BALL_R3_, and PINMUX_BALL_P3_ undefined errors). When I try to select GIOB[7], GIOB[6] and GIOB[3] in HALCoGen in the PINMUX tab, I get conflicts for each pin. Any ideas on how to work around this or should I go back to 04.04.00 with User Code in HL_pinmux.c for PINMUX[81] and PINMUX[82]? Thanks.
Project files are attached for reference.