- 2013 - 3D Structures of Biological Macromolecules Floating Point Operations and Benchmarking of Computer Performance. Jürgen Sühnel firstname.lastname@example.org. Leibniz Institute for Age Research, Fritz Lipmann Institute, Jena Centre for Bioinformatics Jena / Germany.
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3D Structuresof Biological Macromolecules
Floating Point Operations
and Benchmarking of Computer Performance
Leibniz Institute for Age Research, Fritz Lipmann Institute,
Jena / Germany
Supplementary Material: http://www.fli-leibniz.de/www_bioc/3D/
- A Floating Point Operation is a mathematical operation with floating point numbers.
- Floating point number: 23.452 = 23452 x 10-3
significant digits x base exponent
- They cover easily extremely large number ranges between astronomy
and particle physics.
- A Floating Point Unit is a part of a computer system specifically designed to carry out
operations on floating point numbers.
- FLOPS is in computing to a measure of computer performance -
-floating point operations per second (note plural and per second).
(CPU-Takt in GHz) ×
(Anzahl der CPU-Kerne) ×
(CPU-Instruktionen pro Takt) ×
(Anzahl der CPU im Rechnerknoten)
Beispiel: Zwei Sockel-Server mit 8 Kernen und einer Taktfrequenz von 2.6 GHz
und 8 Instruktionen per Zyklus (z.B. Intel E5-2600-Reihe)
GFLOPS = 2.6 x 8 x 8 x 2 = 332.8 GFLOPS
Adjusted Peak Performance is significantly lower.
LINPACK – software library for performing numerical linear algebra on computers,
is now widely used for measuring computer performance
Linpack Benchmark - Java Version´- (http://www.netlib.org/benchmark/linpackjava/)
The problem solved is a dense 500x500 system of linear equations with one right hand side, Ax=b.
The matrix is generated randomly and the right hand side is constructed so the solution has all components
equal to one.
800 – 1100 Mflops/s
Measured in Pflops.