This study use Micro CT Scan to obtain every cross-section image of the in-situ drill core and man-made specimens and then separate crack and aggregate segments by image processing. After image processing, we can measure the crack width and the size, proportion and the particle size distribution of aggregate with the Matlab and then produce the quantification analysis result. Finally, we can use these cross-section images to build 3D reconstruction models for observing the orientation and distribution of crack and aggregate.