Hybrid Distributed/Shared Memory Model for the RI-MP2 Method in the Fragment Molecular Orbital Framework

The general distributed data interface (GDDI) that was developed for the fragment molecular orbital (FMO) method is combined with the shared memory OpenMP parallel middleware to support a threading multilevel parallelism. First, GDDI partitions [logical] compute nodes into groups, which are statically or dynamically assigned to different fragments. A small number of processes are created on each compute node. Each process subsequently spawns multiple threads for the actual computation. The performance of the hybrid GDDI/OpenMP approach relative to the pure GDDI model was examined in terms of the FMO/RI-MP2 method; that is, the second-order Moller-Plesset (MP2) correlation energy was evaluated using the resolution-of-the-identity (RI) and the FMO approximations. The GDDI and OpenMP workload balances are handled by an arithmetic progression and a loop fusion, respectively. Other OpenMP properties, such as threadprivate or shared memory, are combined with the low memory demand of the RI two-electron integrals to enhance the performance. Benchmark calculations demonstrate that because the hybrid parallel model can make use of multiprocessor resources more efficiently than the regular distributed memory-based GDDI model, calculations for small to large water clusters containing 139-2165 molecules and an ionic liquid cluster exhibit node linear scaling and speedups of a factor of 10×.