On Optimal Partitioning For Sparse Matrices In Variable Block Row Format (2005.12414v2)

Abstract: The Variable Block Row (VBR) format is an influential blocked sparse matrix format designed for matrices with shared sparsity structure between adjacent rows and columns. VBR groups adjacent rows and columns, storing the resulting blocks that contain nonzeros in a dense format. This reduces the memory footprint and enables optimizations such as register blocking and instruction-level parallelism. Existing approaches use heuristics to determine which rows and columns should be grouped together. We show that finding the optimal grouping of rows and columns for VBR is NP-hard under several reasonable cost models. In light of this finding, we propose a 1-dimensional variant of VBR, called 1D-VBR, which achieves better performance than VBR by only grouping rows. We describe detailed cost models for runtime and memory consumption. Then, we describe a linear time dynamic programming solution for optimally grouping the rows for 1D-VBR format. We extend our algorithm to produce a heuristic VBR partitioner which alternates between optimally partitioning rows and columns, assuming the columns or rows to be fixed, respectively. Our alternating heuristic produces VBR matrices with the smallest memory footprint of any partitioner we tested.