Code Optimization and Scalability Testing of an Artificial Bee Colony Based Software for Massively Parallel Multiple Sequence Alignment on the Intel MIC Architecture

This activity with the project is aimed to investigate and to improve the performance of the multiple sequence alignment software MSA_BG on the computer system EURORA at CINECA, for the case study of the influenza virus sequences. The objective is code optimization, porting, scaling and performance evaluation of the parallel multiple sequence alignment software MSA_BG for Intel Xeon Phi (the MIC architecture). For this purpose a parallel multithreaded optimization including OpenMP has been implemented and verified. The experimental results show that the hybrid parallel implementation utilizing MPI and OpenMP provides considerably better performance than the original code