81 research outputs found
Direct -body code on low-power embedded ARM GPUs
This work arises on the environment of the ExaNeSt project aiming at design
and development of an exascale ready supercomputer with low energy consumption
profile but able to support the most demanding scientific and technical
applications. The ExaNeSt compute unit consists of densely-packed low-power
64-bit ARM processors, embedded within Xilinx FPGA SoCs. SoC boards are
heterogeneous architecture where computing power is supplied both by CPUs and
GPUs, and are emerging as a possible low-power and low-cost alternative to
clusters based on traditional CPUs. A state-of-the-art direct -body code
suitable for astrophysical simulations has been re-engineered in order to
exploit SoC heterogeneous platforms based on ARM CPUs and embedded GPUs.
Performance tests show that embedded GPUs can be effectively used to accelerate
real-life scientific calculations, and that are promising also because of their
energy efficiency, which is a crucial design in future exascale platforms.Comment: 16 pages, 7 figures, 1 table, accepted for publication in the
Computing Conference 2019 proceeding
MYRIAD: A new N-body code for simulations of Star Clusters
We present a new C++ code for collisional N-body simulations of star
clusters. The code uses the Hermite fourth-order scheme with block time steps,
for advancing the particles in time, while the forces and neighboring particles
are computed using the GRAPE-6 board. Special treatment is used for close
encounters, binary and multiple sub-systems that either form dynamically or
exist in the initial configuration. The structure of the code is modular and
allows the appropriate treatment of more physical phenomena, such as stellar
and binary evolution, stellar collisions and evolution of close black-hole
binaries. Moreover, it can be easily modified so that the part of the code that
uses GRAPE-6, could be replaced by another module that uses other
accelerating-hardware like the Graphics Processing Units (GPUs). Appropriate
choice of the free parameters give a good accuracy and speed for simulations of
star clusters up to and beyond core collapse. Simulations of Plummer models
consisting of equal-mass stars reached core collapse at t~17 half-mass
relaxation times, which compares very well with existing results, while the
cumulative relative error in the energy remained below 0.001. Also, comparisons
with published results of other codes for the time of core collapse for
different initial conditions, show excellent agreement. Simulations of King
models with an initial mass-function, similar to those found in the literature,
reached core collapse at t~0.17, which is slightly smaller than the expected
result from previous works. Finally, the code accuracy becomes comparable and
even better than the accuracy of existing codes, when a number of close binary
systems is dynamically created in a simulation. This is due to the high
accuracy of the method that is used for close binary and multiple sub-systems.Comment: 24 pages, 29 figures, accepted for publication to Astronomy &
Astrophysic
A pilgrimage to gravity on GPUs
In this short review we present the developments over the last 5 decades that
have led to the use of Graphics Processing Units (GPUs) for astrophysical
simulations. Since the introduction of NVIDIA's Compute Unified Device
Architecture (CUDA) in 2007 the GPU has become a valuable tool for N-body
simulations and is so popular these days that almost all papers about high
precision N-body simulations use methods that are accelerated by GPUs. With the
GPU hardware becoming more advanced and being used for more advanced algorithms
like gravitational tree-codes we see a bright future for GPU like hardware in
computational astrophysics.Comment: To appear in: European Physical Journal "Special Topics" : "Computer
Simulations on Graphics Processing Units" . 18 pages, 8 figure
Dynamical Processes in Globular Clusters
Globular clusters are among the most congested stellar systems in the
Universe. Internal dynamical evolution drives them toward states of high
central density, while simultaneously concentrating the most massive stars and
binary systems in their cores. As a result, these clusters are expected to be
sites of frequent close encounters and physical collisions between stars and
binaries, making them efficient factories for the production of interesting and
observable astrophysical exotica. I describe some elements of the competition
among stellar dynamics, stellar evolution, and other processes that control
globular cluster dynamics, with particular emphasis on pathways that may lead
to the formation of blue stragglers.Comment: Chapter 10, in Ecology of Blue Straggler Stars, H.M.J. Boffin, G.
Carraro & G. Beccari (Eds), Astrophysics and Space Science Library, Springe
N-body simulations of gravitational dynamics
We describe the astrophysical and numerical basis of N-body simulations, both
of collisional stellar systems (dense star clusters and galactic centres) and
collisionless stellar dynamics (galaxies and large-scale structure). We explain
and discuss the state-of-the-art algorithms used for these quite different
regimes, attempt to give a fair critique, and point out possible directions of
future improvement and development. We briefly touch upon the history of N-body
simulations and their most important results.Comment: invited review (28 pages), to appear in European Physics Journal Plu
Bcl-2 and β1-integrin predict survival in a tissue microarray of small cell lung cancer.
INTRODUCTION: Survival in small cell lung cancer (SCLC) is limited by the development of chemoresistance. Factors associated with chemoresistance in vitro have been difficult to validate in vivo. Both Bcl-2 and β(1)-integrin have been identified as in vitro chemoresistance factors in SCLC but their importance in patients remains uncertain. Tissue microarrays (TMAs) are useful to validate biomarkers but no large TMA exists for SCLC. We designed an SCLC TMA to study potential biomarkers of prognosis and then used it to clarify the role of both Bcl-2 and β(1)-integrin in SCLC. METHODS: A TMA was constructed consisting of 184 cases of SCLC and stained for expression of Bcl-2 and β(1)-integrin. The slides were scored and the role of the proteins in survival was determined using Cox regression analysis. A meta-analysis of the role of Bcl-2 expression in SCLC prognosis was performed based on published results. RESULTS: Both proteins were expressed at high levels in the SCLC cases. For Bcl-2 (n=140), the hazard ratio for death if the staining was weak in intensity was 0.55 (0.33-0.94, P=0.03) and for β(1)-integrin (n=151) was 0.60 (0.39-0.92, P=0.02). The meta-analysis showed an overall hazard ratio for low expression of Bcl-2 of 0.91(0.74-1.09). CONCLUSIONS: Both Bcl-2 and β(1)-integrin are independent prognostic factors in SCLC in this cohort although further validation is required to confirm their importance. A TMA of SCLC cases is feasible but challenging and an important tool for biomarker validation
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