TSUBAME Grand Challenge Program
SuperCon Programming Contest
TSUBAME Grand Chalenge

The TSUBAME Grand Challenge solicits proposals for grand challenge problems
that can utilize all nodes of TSUBAME3.0 and has two categories.
Category A Exclusive use of all nodes for 24 hours
Category B Exclusive use of 1/3 of the nodes for up to 1 week
Number of Accepted Proposals
2019

2018

2017

2016

2015

2014

2013

2012

2011 Total

FS

F

S FS

FS

FS

FS

FSFSFS

Category A00012011121201223423

Category B12020101132211002019Total

120321122534122254

42We started this program in 2011, and have continued to performthe Grand Challenge runs twice a year.
Under this program, we have adopted total 42 grand challenge projects
some of which were awarded Gordon Bell prizes as below.

2011 ACM Gordon Bell Prize: Special Achievements
in Scalability and Time-to-Solution“Peta-scale Phase-Field Simulation for Dendritic
Solidifcation on the TSUBAME 2.0 Supercomputer”

2011 ACM Gordon Bell Prize:
Honorable Mention
Large scale bioﬂuidics
simulations on TSUBAME2SuperCon programming contest
The SuperCon programming context is held every summer in cooperation
with Osaka University, where high school students come to ourcampuses to compete in a programming context using oursupercomputers. SuperCon started back in 1995 and has been
held yearly. There is a qualifying round where students use theirlocal environment to solve a given problem. About 10 teams
consisting of 2-3 members each, will go on to the final round,which is held at Tokyo Tech, and Osaka University, for teams
from the east and west side of Japan, respectively.
This year the students solve a hierarhical N-body problem on
TSUBAME3.0 and most of them were able to utilize the GPU.
The following teams won the competition:
1st place: team Ner (Hamamatsu Technical High School)
2nd place: team atKoder (High School at Komaba, U. Tsukuba)
3rd place: team supercon (Kaisei High School)2011 Graph500 Challenge
on TSUBAME 2.0

Grand Challenge Project 1:
Distributed Parallel Homology Search
System with Pwrake and Gfarm

Teams at Tokyo Tech.

Grand Challenge Project 2:
Calculation of Various Atomic
Properties for Studies on Fundamental
Physics Using Large-scale HPC
Bhanu Pratap Das, Nanako Shitara, Kazuyuki Sanada,
Toshio Watanabe (Tokyo Institute of Technology)

Kenta Machida, Osamu Tatebe (University of Tsukuba)

Motivation

Metagenomics is a study of genetic material recovered directly fromenvironmental samples. The genomic sample data is acquired by
NGS (Next Generation Sequencer) and recently its size has been
increasing rapidly. For that reason, existing homology search tools
such as BLAST have performance and memory problems in a studyof genome analysis due to increased execution time and memoryshortage.

Our approach to solve the problems- Distribute both query and DB and execute homology search in parallelon the platform consisting of Gfarm filesystem and Pwrake workflow
engine- Use GHOSTZ-GPU optimized for NVMe SSD

Results of Grand Challenge

In an experiment for large genomic data, input data were 62 GB of
DB provided by NCBI and 70 GB of queries provided by HMP.
Although there were some problems found in a system, the proposedsystem completed all processing in about 2 hours.

Teams at Osaka U.

Motivation

Because the permanent electric dipole moment of the electron (eEDM)
is a signature of CP-violation beyond the Standard Model (SM) ofparticle physics, its measurement is expected to reveal new physics
beyond the SM. To obtain an upper limit for the magnitude of the eEDM,
experimental measurements must be combined with theoretical results,
which often require computationally intensive calculations. In this work,
we calculate the enhancement factor R of the francium (Fr) atom, apromising eEDM search candidate.

MethodWe use the relativistic Coupled-Cluster (RCC) method to calculate thewavefunction of the ground state of the Fr atom. The RCC wavefunction
takes the Dirac-Fock (DF) state, which neglects correlation effects between
electrons, and adds terms corresponding to particle-hole excitations of theDF state, which reflect the effects of electron correlation.

Key results
Included correction terms

Enhancement factor R

Dirac-Coulomb (DC) Hamiltonian only

812.19DC Hamiltonian + Breit interaction terms

804.08DC Hamiltonian + approximate QED terms

811.57

http://www.gsic.titech.ac.jp/sc20