In case @Old_Grey 's comment isn’t clear the parts check script has this to say (and is correct, there is no hole being generated for pin1 in the gerber as only the square is present, it needs a circular pad just like all the rest under the square to generate the hole):
Error 74: File
’svg.pcb.MPU6050_GY521_782354e339f672575bb20992ece4ab1b_9_pcb.svg.bak’
At line 65
Connector connector0pin has no radius no hole will be generated
Peter