Parallel Protein Information Analysis (PAPIA) system implemented
on RWC PC cluster II

Yutaka Akiyama, Kentaro Onizuka, Tamotsu Noguchi, Makoto Ando, and Minoru Saito

We have implemented the Parallel Protein Information Analysis (PAPIA) system on RWC PC cluster II (PCC2) which consists of 64 Pentium Pro 200MHz node processors. The PAPIA system on PCC2 is capable to perform typical calculations in protein information analysis, such as similar structure search, homologous sequence search, and multiple sequence alignment, 50 times faster than a single processor.
Through a WWW browser, a user can submit tasks to the PAPIA system and obtain graphical outputs using JAVA. We have also developed a new cluster, PC Cluster IIa (64 Pentium Pro 200MHz), dedicated to the PAPIA system.
Parallel Application Laboratory, Tsukuba Research Center
Real World Computing Partnership
Tsukuba Mitsui Bldg., 1-6-1 Takezono, Tsukuba 305, Japan
E-mail: akiyama@trc.rwcp.or.jp