The main error sources affect the machining accuracy of machine tool spindle thermal temperature variation of structural thermal deformation generated by the thermal error. So we focused on machine tool spindle thermal error compensation of the measurement and the real machine. In this study, using high speed double column machining center manufacturing by TK machinery Co., Ltd, and collocate the FANUC series 18i-MB controller. Choose built-in spindle of NEO, the maximum speed is 20000rpm. Take the intelligent machining module to establish of measurement system of thermal displacement and temperature variation, total of 8 IC-type temperature sensors and 3 Eddy-Current displacement sensors consider with axial spindle head and column on multi-point temperature changes, to coordinate environment temperature under different experiment condition, measurement the temperature and displacement data. Organize this data and put in Excel, last, using Minitab statistical analysis software for linear regression analysis to establish of the compensation model, using this model compiler MEM file and loading in to the controller, through the MACRO EXECUTOR monitor screen to validation model. Experiment result show that the compensation spindle Z direction thermal error deformation reduced from 104μm to 38μm[1].