Well we have upgraded the firmware to RRF 3.3 and the config.g has the correct settings now.
; Configuration file for Duet WiFi (firmware version 3)
; executed by the firmware on start-up
;
; generated by RepRapFirmware Configuration Tool v3.2.3 on Thu Jun 24 2021 09:31:20 GMT-0600 (Central Standard Time)
; General preferences
G90 ; send absolute coordinates...
M83 ; ...but relative extruder moves
M550 P"modix_big_meter" ; set printer name
; Network
M552 P0.0.0.0 S1 ; enable network and acquire dynamic address via DHCP
M586 P0 S1 ; enable HTTP
M586 P1 S0 ; disable FTP
M586 P2 S0 ; disable Telnet
; Drives
M569 P0 S0 ; physical drive 0 X1 reverse
M569 P1 S1 ; physical drive 1 X2 forward
M569 P2 R-1 ; Physical drive 2 not used
M569 P3 S1 ; physical drive 3 E0 forward
M569 P4 S0 ; physical drive 4 E1 reverse
; additional drives on duex5 expansion board
M569 P5 S0 ; Physical drive 5 Y reverse
M569 P6 S0 ; Physical drive 6 Z1 (0,1000) reverse
M569 P7 S0 ; Physical drive 7 Z2 (0,0) reverse
M569 P8 S0 ; Physical drive 8 Z3 (1000,0) reverse
M569 P9 S0 ; Physical drive 9 Z4 (1000,1000) reverse
;M584 X0 Y1 Z7 E3:4 ; set drive mapping
M584 X0:1 Y5 Z6:7:8:9 U1 E3:4 P3 ; map motors to axis
M671 X-181:-181:1049:1049 Y1066:-58:-58:1066 S10 ; CCW positions of Z motors
;~ M350 X16 Y16 Z16 E16:16 I1 ; configure microstepping with interpolation
;~ M92 X100.00 Y100.00 Z2000.00 E412.00:412.00 ; set steps per mm
;~ M566 X240.00 Y360.00 Z30.00 E120.00:120.00 ; set maximum instantaneous speed changes (mm/min)
;~ M203 X9000.00 Y9000.00 Z199.80 E1200.00:1200.00 ; set maximum speeds (mm/min)
;~ M201 X1000.00 Y1000.00 Z120.00 E250.00:250.00 ; set accelerations (mm/s^2)
;~ M906 X1800 Y1800 Z1800 E1000:1000 I30 ; set motor currents (mA) and motor idle factor in per cent
;~ M84 S30 ; Set idle timeout
M350 X16 Y16 Z16 E16 U16 I1 ; Configure microstepping with interpolation
M92 X100.00 Y100.00 Z2000.00 E412.32 U100.00 ; Set steps per mm
M566 X240 Y360 Z30.00 E120.00 U240 P1 ; Set maximum instantaneous speed changes (mm/min)
M203 X9000.00 Y9000.00 Z200.00 E1200.00 U9000.00 ; Set maximum speeds (mm/min)
M201 X1000 Y1000 Z120.00 E250.00 U1000 ; Set accelerations (mm/s^2)
M204 P500 T1000 ; Set print and travel accelerations (mm/s^2)
M906 X1800 Y1800.00 E1000.00 U1800 I30 ; Set motor currents (mA) and motor idle factor in per cent
M906 Z1800.00 I50 ; Set motor currents (mA) and motor idle factor in per cent
M84 S60 X Y U E0 E1 ; Set idle timeout - one minute
; Axis Limits
M208 X0 Y0 Z0 U0 S1 ; set axis minima
M208 X1000 Y1000 Z1000 U1000 S0 ; set axis maxima
; Endstops
;~ M574 X1 S1 P"xstop" ; configure active-high endstop for low end on X via pin xstop
;~ M574 Y2 S1 P"ystop" ; configure active-high endstop for high end on Y via pin ystop
; X1 = X end stop low end
; Y2 = Y end stop high end
; U1 = U end stop low end (U is second X)
; S1 = all active high
; M574 X1 Y2 U1 S1 ; Set active low and disabled endstops
; Z end stop is actually a probe, high limit
; M574 Z2 S2
M574 X1 S1 P"xstop"
M574 Y2 S1 P"ystop"
M574 U1 S1 P"e0stop"
; Z-Probe
M950 S0 C"duex.e6heat" ; create servo pin 0 for BLTouch
;~ M558 P9 C"^zprobe.in" H5 F120 T6000 ; set Z probe type to bltouch and the dive height + speeds
M558 P9 C"^zprobe.in" H5 F120 T9000 R0.7 ; set Z probe type to bltouch and the dive height + speeds
;~ G31 P500 X-14 Y21 Z1.081 ; set Z probe trigger value, offset and trigger height
;~ M557 X0:974 Y21:1000 S52 ; define mesh grid
; Set endstops controlled by probe
; heater 7 output used for PWM of BL touch (e6 heat)
;~ M307 H7 A-1 C-1 D-1 ; Disable heater on PWM channel for BLTouch
;~ M558 P9 H5 F120 T9000 A1 R0.7 ; Set Z probe type to bltouch and the dive height + speeds
G31 P500 X-14 Y21 Z1.031 ; Set Z probe trigger value, offset and trigger height(Z-offset)
;M557 X-14:974 Y21:1009 S52 ; Define mesh grid. 400 Points - no longer works with v3, no offset outside of maxima
M557 X30:970 Y30:970 S49 ; Define mesh grid. 400 Points
M376 H10 ; Height (mm) over which to taper off the bed compensation
; Heaters
M140 H-1 ; disable heated bed (overrides default heater mapping)
;~ M308 S0 P"e0temp" Y"thermistor" T100000 B4138 ; configure sensor 0 as thermistor on pin e0temp
;~ M950 H0 C"e0heat" T0 ; create nozzle heater output on e0heat and map it to sensor 0
;~ M308 S0 P"e0temp" Y"pt1000"
;~ M950 H0 C"e0heat" T0 ; create nozzle heater output on e0heat and map it to sensor 0
M308 S0 P"spi.cs1" Y"rtd-max31865" R395 F60
M950 H1 C"e0heat" T0 ; heater 0 uses the e0_heat pin and sensor 1
M307 H1 B0 S1.00 ; disable bang-bang mode for heater and set PWM limit
M143 H1 S285 ; set temperature limit for heater 0 to 285C
M308 S1 P"e1temp" Y"thermistor" T100000 B4725 C7.06e-8 ; configure sensor 1 as thermistor on pin e1temp
M950 H2 C"e1heat" T1 ; create nozzle heater output on e1heat and map it to sensor 1
M307 H2 B0 S1.00 ; disable bang-bang mode for heater and set PWM limit
M143 H2 S285 ; set temperature limit for heater 1 to 285C
; Fans
M950 F0 C"fan0" Q500 ; T0 ; create fan 0 on pin fan0 and set its frequency
M106 P0 S0 H-1 ; set fan 0 value. Thermostatic control is turned off
M950 F1 C"fan1" Q500 ; T1 ; create fan 1 on pin fan1 and set its frequency
M106 P1 S0 H-1 ; set fan 1 value. Thermostatic control is turned off
M950 F2 C"fan2" Q500 ; create fan 2 on pin fan2 and set its frequency
M106 P2 S0 H-1 ; set fan 2 value. Thermostatic control is turned off
M950 F3 C"duex.fan3" Q500 ; create fan 3 on pin duex.fan3 and set its frequency
M106 P3 I-1 ; set fan 3 value. Thermostatic control is turned off
M950 F4 C"duex.fan4" Q500 ; create fan 4 on pin duex.fan4 and set its frequency
M106 P4 I-1 ; set fan 4 value. Thermostatic control is turned off
M950 F5 C"duex.fan5" Q500 ; create fan 5 on pin duex.fan5 and set its frequency
M106 P5 S1 H0 T46 ; extruder 0 ; set fan 5 value. Thermostatic control is turned on
M950 F6 C"duex.fan6" Q500 ; create fan 6 on pin duex.fan6 and set its frequency
M106 P6 S1 H1 T46 ; extruder 1 ; set fan 6 value. Thermostatic control is turned on
; apparently these disabled defines still seize the IO; don't define so we can use for LED later
;M950 F7 C"duex.fan7" Q500 ; create fan 7 on pin duex.fan7 and set its frequency
;M106 P7 I-1 ; set fan 7 value. Thermostatic control is turned off
M950 F8 C"duex.fan8" Q500 ; create fan 8 on pin duex.fan8 and set its frequency
M106 P8 I-1 ; set fan 8 value. Thermostatic control is turned off
; Tools
M563 P0 S"E0 Primary" D0 H1 F0 ; define tool 0, E0 drive, heater 1, fan 0
G10 P0 X0 Y0 Z0 ; set tool 0 axis offsets
G10 P0 R0 S0 ; set initial tool 0 active and standby temperatures to 0C
M563 P1 S"E1 SEcondary" D1 H2 F1 ; define tool 1
G10 P1 X-0.2 Y52.5 Z0 ; set tool 1 axis offsets
G10 P1 R0 S0 ; set initial tool 1 active and standby temperatures to 0C
; Custom settings are not defined
; Miscellaneous
M575 P1 S1 B57600 ; enable support for PanelDue
M501 ; load saved parameters from non-volatile memory
; Automatic power saving____________________________________________
M911 S22.5 R29.0 P"M913 X0 Y0 G91 M83 G1 Z3 E-5 F1000" ; Set voltage thresholds and actions to run on power loss. Power Failure Pause
; Custom settings___________________________________________________
;M591 D0:1 P1 C4 S1 ; Regular filament sensor for E0 and E1
; disabled, fixme
; _______________GPIOs____________________
; LED strip on GPIO 'P1', duex fan7 output
M950 P1 C"duex.fan7" Q500