Recently, proposal-free instance segmentation has received increasing attention due to its concise and efficient pipeline. Generally, proposal-free methods generate instance-agnostic semantic segmentation labels and instance-aware features to group pixels into different object instances. However, previous methods mostly employ separate modules for these two sub-tasks and require multiple passes for inference. We argue that treating these two subtasks separately is suboptimal. In fact, employing multiple separate modules significantly reduces the potential for application. The mutual benefits between the two complementary sub-tasks are also unexplored. To this end, this work proposes a single-shot proposal-free instance segmentation method that requires only one single pass for prediction. Our method is based on a pixel-pair affinity pyramid, which computes the probability that two pixels belong to the same instance in a hierarchical manner. The affinity pyramid can also be jointly learned with the semantic class labeling and achieve mutual benefits. Moreover, incorporating with the learned affinity pyramid, a novel cascaded graph partition module is presented to sequentially generate instances from coarse to fine. Unlike previous time-consuming graph partition methods, this module achieves 5× speedup and 9% relative improvement on Average-Precision (AP). Our approach achieves new state of the art on the challenging Cityscapes dataset.