Commits November 2011

commits@lists.einsteintoolkit.org

13 participants
183 discussions

[svn:einsteintoolkit] Paper_EinsteinToolkit_2010/ (Rev. 200)
by cott＠tapir.caltech.edu 14 Nov '11

14 Nov '11

User: cott Date: 2011/11/14 12:38 AM Modified: / ET.tex Log: * improve acknowledgements File Changes: Directory: / ============ File [modified]: ET.tex Delta lines: +10 -6 =================================================================== --- ET.tex 2011-11-14 06:30:24 UTC (rev 199) +++ ET.tex 2011-11-14 06:38:16 UTC (rev 200) @@ -2978,12 +2978,16 @@ National Science Foundation under the grant numbers 0903973/0903782/0904015 (CIGR\@). Related grants contribute directly and indirectly to the success of CIGR, including NSF OCI-0721915, NSF -OCI-0725070, NSF OCI-0832606, NSF OCI-0905046, and NSF OCI-0941653, NSF -AST-0855535, NSF DMS-0820923, and NASA 08-ATFP08-0093. Results presented in this article were obtained through -computations on the Louisiana Optical Network Initiative under -allocation loni\_cactus05 and loni\_numrel06, as well as on the NSF -Teragrid under allocations TG-MCA02N014 and TG-PHY060027N, DOE repository m152, HLRB at -the LRZ, and Compute Canada project cfz-411-aa. +OCI-0725070, NSF OCI-0832606, NSF OCI-0905046, NSF OCI-0941653, +NSF AST-0855535, NSF DMS-0820923, and NASA 08-ATFP08-0093. Results +presented in this article were obtained through computations on the +Louisiana Optical Network Initiative under allocation loni\_cactus05 +and loni\_numrel07, as well as on NSF XSEDE under allocations +TG-MCA02N014, TG-PHY060027N, TG-PHY100033, at the National Energy +Research Scientific Computing Center (NERSC), which is supported by +the Office of Science of the US Department of Energy under contract +DE-AC03-76SF00098, at the Leibniz Rechenzentrum of the Max Planck +Society, and on Compute Canada resources via project cfz-411-aa. \section*{References}

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[svn:einsteintoolkit] Paper_EinsteinToolkit_2010/ (Rev. 199)
by knarf＠cct.lsu.edu 14 Nov '11

14 Nov '11

User: knarf Date: 2011/11/14 12:30 AM Modified: / ET.tex Log: cosmetics in design File Changes: Directory: / ============ File [modified]: ET.tex Delta lines: +4 -4 =================================================================== --- ET.tex 2011-11-14 06:28:18 UTC (rev 198) +++ ET.tex 2011-11-14 06:30:24 UTC (rev 199) @@ -332,15 +332,15 @@ ({\tt trac.einsteintoolkit.org}), with submissions also open to the public. Despite this open design, some actions naturally have to be restricted to a smaller -group of maintainers. This is true for, e.g., administrative tasks like the +group of maintainers. This is true for administrative tasks like the setup and maintenance of the services themselves, or to avoid large amounts of spam. One of the most important tasks of an Einstein Toolkit maintainer is to review and apply patches sent by users in order to ensure a high software quality level. Every substantial change or addition to -the toolkit has to be reviewed by another Einstein Toolkit maintainer, +the toolkit must be reviewed by another Einstein Toolkit maintainer, and is generally open for discussion on the users mailing list. This convention, -despite not being technically enforced, works well in practice, and is at the -same time promoting active development. +though not being technically enforced, works well in practice and promotes +active development. \section{Core Technologies}

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[svn:einsteintoolkit] Paper_EinsteinToolkit_2010/ (Rev. 198)
by knarf＠cct.lsu.edu 14 Nov '11

14 Nov '11

User: knarf Date: 2011/11/14 12:28 AM Modified: / ET.tex Log: cosmetics in social requirements File Changes: Directory: / ============ File [modified]: ET.tex Delta lines: +9 -11 =================================================================== --- ET.tex 2011-11-14 06:22:01 UTC (rev 197) +++ ET.tex 2011-11-14 06:28:18 UTC (rev 198) @@ -290,27 +290,25 @@ \subsection{Academic and Social} A primary concern for research groups is securing reliable funding -to support graduate students and postdoctoral researchers. This goal -is easier to achieve if it can be shown that science goals can be +to support graduate students and postdoctoral researchers. This +is easier to achieve if it can be shown that scientific goals can be attacked directly with fewer potential infrastructure problems, one of the goals of the Einstein Toolkit. -While the Einstein Toolkit does have a large group of users, many of them -are not directly collaborating on science problems, and some can even be -seen as competitors. However, all groups agree that sharing the development +While the Einstein Toolkit does have a large group of users, many of themdo not directly collaborate on science problems, and some compete. +However, all groups agree that sharing the development of the underlying infrastructure is mutually beneficial for every group and the wider community as well. - This is achieved by lifting much of the -otherwise necessary burden of creating such an infrastructure off the -research groups' shoulders, while at the same time increasing the amount -of code review, and by doing so, code quality. +This is achieved by lifting off the research groups' shoulders much of the +otherwise necessary burden of creating such an infrastructure, while at the same +time increasing the amount of code review and thus, code quality. In addition, the Einstein Toolkit provides computer scientists an ideal platform to perform state-of-the-art research, which directly benefits research in other areas of science and provides an immediate application of their research. One of the most prominent examples within the Einstein Toolkit is the {\tt Cactus} computational toolkit, -a framework developed by computer scientists and now used by researchers -is many other fields. +a framework developed by computer scientists now used by researchers +in many other fields. \section{Design and Strategy}

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[svn:einsteintoolkit] Paper_EinsteinToolkit_2010/ (Rev. 197)
by knarf＠cct.lsu.edu 14 Nov '11

14 Nov '11

User: knarf Date: 2011/11/14 12:22 AM Modified: / ET.tex Log: cosmetics in future work File Changes: Directory: / ============ File [modified]: ET.tex Delta lines: +4 -4 =================================================================== --- ET.tex 2011-11-14 06:17:50 UTC (rev 196) +++ ET.tex 2011-11-14 06:22:01 UTC (rev 197) @@ -2936,13 +2936,13 @@ the computational domain, it does not increase the convergence order of the underlying numerical methods. Simulations of BHs can easily make use of high-order numerical methods, with eighth-order - convergence commonly seen at present. However, - most GRMHD schemes, while implementing high-resolution + convergence common at present. However, + most GRMHD schemes, though they implement high-resolution shock-capturing methods, - are still limited to 2nd-order numerical accuracy in the + are limited to 2nd-order numerical accuracy in the hydrodynamic/MHD sector while performing curvature evolution with 4th-order accuracy or more. Higher order - GRMHD schemes are in use in fixed-background simulations + GRMHD schemes are used in fixed-background simulations (e.g.,~\cite{Tchekhovskoy:2007zn}), but still await implementation in fully dynamical simulations.

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[svn:einsteintoolkit] Paper_EinsteinToolkit_2010/ (Rev. 196)
by knarf＠cct.lsu.edu 14 Nov '11

14 Nov '11

User: knarf Date: 2011/11/14 12:17 AM Modified: / plot_defaults.py /examples/collapse/ H_convergence_at0.pdf, H_convergence_at0.py, make_plots.sh, radii.pdf /examples/cosmology/figs/ err.pdf, kasner.pdf /examples/kerr/figs/ ah_mass.pdf, ah_mass_conv.pdf, qlm_mass.pdf, qlm_spin.pdf, waves.pdf, waves_conv.pdf, waves_l4.pdf, waves_l4_conv.pdf /examples/tov/ mode_spectrum.pdf, rho_max.pdf Log: change default line width in plots to 1 File Changes: Directory: / ============ File [modified]: plot_defaults.py Delta lines: <Unavailable> Directory: /examples/collapse/ ============================== File [modified]: H_convergence_at0.pdf Delta lines: <Unavailable> File [modified]: H_convergence_at0.py Delta lines: <Unavailable> File [modified]: make_plots.sh Delta lines: <Unavailable> File [modified]: radii.pdf Delta lines: <Unavailable> Directory: /examples/cosmology/figs/ ==================================== File [modified]: err.pdf Delta lines: <Unavailable> File [modified]: kasner.pdf Delta lines: <Unavailable> Directory: /examples/kerr/figs/ =============================== File [modified]: ah_mass.pdf Delta lines: <Unavailable> File [modified]: ah_mass_conv.pdf Delta lines: <Unavailable> File [modified]: qlm_mass.pdf Delta lines: <Unavailable> File [modified]: qlm_spin.pdf Delta lines: <Unavailable> File [modified]: waves.pdf Delta lines: <Unavailable> File [modified]: waves_conv.pdf Delta lines: <Unavailable> File [modified]: waves_l4.pdf Delta lines: <Unavailable> File [modified]: waves_l4_conv.pdf Delta lines: <Unavailable> Directory: /examples/tov/ ========================= File [modified]: mode_spectrum.pdf Delta lines: <Unavailable> File [modified]: rho_max.pdf Delta lines: <Unavailable>

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[svn:einsteintoolkit] Paper_EinsteinToolkit_2010/cactus-benchmarks/ (Rev. 195)
by knarf＠cct.lsu.edu 14 Nov '11

14 Nov '11

User: knarf Date: 2011/11/14 12:17 AM Modified: /cactus-benchmarks/ results-best.pdf, results-best.py Log: final matplotlib script for figure File Changes: Directory: /cactus-benchmarks/ ============================== File [modified]: results-best.pdf Delta lines: +0 -0 =================================================================== (Binary files differ) File [modified]: results-best.py Delta lines: +21 -15 =================================================================== --- cactus-benchmarks/results-best.py 2011-11-14 06:15:25 UTC (rev 194) +++ cactus-benchmarks/results-best.py 2011-11-14 06:17:09 UTC (rev 195) @@ -3,12 +3,8 @@ # Plot evolution of central density from plot_defaults import * -# todo: Zeilenabstand Legende -# X-Achse in 2^x beschriften - - # stuff -xlim = (10,15000) +xlim = (16,16384) ylim = (0,40) # load data @@ -34,21 +30,21 @@ ax = fig.add_subplot(1,1,1) # plot -Fx,Fy = load_machine('franklin', {'steps': '==128', 'size': '==25', 'procs': '>=16', 'tpp': '==1', 'iter': '==0'}) -ax.semilogx(Fx, Fy, linestyle='-', marker='+', color='red', label='Franklin') - Fx,Fy = load_machine('hlrb2', {'steps': '==128', 'size': '==25', 'procs': '>=16', 'tpp': '==1', 'iter': '==10'}) ax.semilogx(Fx, Fy, linestyle='--', marker='x', color='green', label='HLRB II') -Fx,Fy = load_machine('kraken', {'steps': '==128', 'size': '==25', 'ppn': '==4', 'procs': '>=16', 'tpp': '==1', 'iter': '==50'}) -ax.semilogx(Fx, Fy, linestyle='--', marker='*', color='blue', label='Kraken') - Fx,Fy = load_machine('queenbee', {'steps': '==128', 'size': '==25', 'ppn': '==8', 'procs': '>=16', 'tpp': '==2', 'iter': '==0'}) ax.semilogx(Fx, Fy, linestyle='--', marker='s', color='purple', label='Queen Bee') Fx,Fy = load_machine('ranger', {'steps': '==128', 'size': '==25', 'ppn':'==16', 'procs': '>=16', 'tpp': '==1', 'iter': '==71'}) ax.semilogx(Fx, Fy, linestyle='-', marker='s', color='black', label='Ranger') +Fx,Fy = load_machine('kraken', {'steps': '==128', 'size': '==25', 'ppn': '==4', 'procs': '>=16', 'tpp': '==1', 'iter': '==50'}) +ax.semilogx(Fx, Fy, linestyle='--', marker='*', color='blue', label='Kraken') + +Fx,Fy = load_machine('franklin', {'steps': '==128', 'size': '==25', 'procs': '>=16', 'tpp': '==1', 'iter': '==0'}) +ax.semilogx(Fx, Fy, linestyle='-', marker='+', color='red', label='Franklin', basex=2) + # plot properties ax.set_xlim(xlim) ax.set_ylim(ylim) @@ -56,18 +52,28 @@ #plt.title('PSD', fontsize=fontsize) ax.set_xlabel(r'Number of cores') -#ax.xaxis.set_major_locator(mticker.MaxNLocator(7)) -#ax.xaxis.set_minor_locator(mticker.MaxNLocator(14)) ax.xaxis.grid(False) ax.set_ylabel(r'time per RHS evalutation $[\mu s]$') + +def base2format(n, pos): + if (n<1024): + return "%i" % n; + else: + if (n%1024 == 0): + return "%ik" % (n/1024); + else: + return "%i" % n; + +ax.xaxis.set_major_formatter(mticker.FuncFormatter(base2format)); ax.yaxis.set_major_locator(mticker.MaxNLocator(5)) ax.yaxis.set_minor_locator(mticker.MaxNLocator(10)) ax.yaxis.grid(False) set_tick_sizes(ax, 8, 4) handles, labels = ax.get_legend_handles_labels() -leg = ax.legend(handles, labels, loc='best', handlelength=4) +leg = ax.legend(handles, labels, loc='best', handlelength=4, ncol=2) +leg.draw_frame(False) #plt.show() -plt.savefig('test.pdf') +plt.savefig('results-best.pdf')

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[svn:einsteintoolkit] Paper_EinsteinToolkit_2010/ (Rev. 194)
by knarf＠cct.lsu.edu 14 Nov '11

14 Nov '11

User: knarf Date: 2011/11/14 12:15 AM Modified: / ET.tex Log: left/right -> top/bottom File Changes: Directory: / ============ File [modified]: ET.tex Delta lines: +2 -2 =================================================================== --- ET.tex 2011-11-14 06:14:52 UTC (rev 193) +++ ET.tex 2011-11-14 06:15:25 UTC (rev 194) @@ -2831,10 +2831,10 @@ \begin{figure} \includegraphics[width=0.9\textwidth]{examples/cosmology/figs/kasner.pdf} \includegraphics[width=0.9\textwidth]{examples/cosmology/figs/err.pdf} - \caption{Left: the evolution of a vacuum spacetime of the type~\eref{eq:gowdyT3}, + \caption{Top: the evolution of a vacuum spacetime of the type~\eref{eq:gowdyT3}, with $P=Q=\lambda=0$; the initial data are chosen as $\gamma_{ij}=\delta_{ij}$ and $K_{ij}={\rm diag}(-2/3,-2/3,1/3)$. - Right: the numerical error for a sequence of four time resolutions $dt=[0.0125,0.025,0.05,0.1]$; + Bottom: the numerical error for a sequence of four time resolutions $dt=[0.0125,0.025,0.05,0.1]$; the errors are scaled according to the expectation for fourth-order convergence. \label{fig:kasner}} \end{figure}

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[svn:einsteintoolkit] Paper_EinsteinToolkit_2010/ (Rev. 193)
by knarf＠cct.lsu.edu 14 Nov '11

14 Nov '11

User: knarf Date: 2011/11/14 12:14 AM Modified: / ET.tex Log: adapt figure size File Changes: Directory: / ============ File [modified]: ET.tex Delta lines: +1 -1 =================================================================== --- ET.tex 2011-11-14 06:12:50 UTC (rev 192) +++ ET.tex 2011-11-14 06:14:52 UTC (rev 193) @@ -486,7 +486,7 @@ \todo{if you use many cores in your runs: please speak up} \begin{figure} \centering - \includegraphics[width=0.5\textwidth]{cactus-benchmarks/results-best} + \includegraphics[width=0.85\textwidth]{cactus-benchmarks/results-best} \caption{Results from weak scaling tests evolving the Einstein equations on a mesh refinement grid structure with nine levels. This shows the time required per grid point,

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[svn:einsteintoolkit] Paper_EinsteinToolkit_2010/examples/collapse/ (Rev. 192)
by knarf＠cct.lsu.edu 14 Nov '11

14 Nov '11

User: knarf Date: 2011/11/14 12:12 AM Modified: /examples/collapse/ H.convergence.at0.asc Log: mask nan File Changes: Directory: /examples/collapse/ ============================== File [modified]: H.convergence.at0.asc Delta lines: +1 -1 =================================================================== --- examples/collapse/H.convergence.at0.asc 2011-11-14 00:57:23 UTC (rev 191) +++ examples/collapse/H.convergence.at0.asc 2011-11-14 06:12:50 UTC (rev 192) @@ -8,7 +8,7 @@ 1.152000e+01 1.029033e+00 1.494299e+00 1.344000e+01 1.735465e+00 1.578037e+00 1.536000e+01 8.583783e-01 1.529218e+00 -1.728000e+01 nan 4.720153e-01 +#1.728000e+01 nan 4.720153e-01 1.920000e+01 1.082923e+00 1.374315e+00 2.112000e+01 1.084150e+00 1.326414e+00 2.304000e+01 1.215434e+00 1.389596e+00

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[svn:einsteintoolkit] Paper_EinsteinToolkit_2010/ (Rev. 191)
by eloisa.bentivegna＠aei.mpg.de 13 Nov '11

13 Nov '11

User: bentivegna Date: 2011/11/13 06:57 PM Added: /examples/cosmology/figs/ kasner.py, plot_defaults.py /examples/kerr/figs/ kerr.py, plot_defaults.py Modified: / ET.tex /examples/cosmology/figs/ err.pdf, kasner.pdf /examples/kerr/figs/ ah_mass.pdf, ah_mass_conv.pdf, qlm_mass.pdf, qlm_spin.pdf, waves.pdf, waves_conv.pdf, waves_l4.pdf, waves_l4_conv.pdf Log: Converted plots in Kerr and Kasner examples to matplotlib. File Changes: Directory: / ============ File [modified]: ET.tex Delta lines: <Unavailable> Directory: /examples/cosmology/figs/ ==================================== File [modified]: err.pdf Delta lines: <Unavailable> File [modified]: kasner.pdf Delta lines: <Unavailable> File [added]: kasner.py Delta lines: <Unavailable> File [added]: plot_defaults.py Delta lines: <Unavailable> Directory: /examples/kerr/figs/ =============================== File [modified]: ah_mass.pdf Delta lines: <Unavailable> File [modified]: ah_mass_conv.pdf Delta lines: <Unavailable> File [added]: kerr.py Delta lines: <Unavailable> File [added]: plot_defaults.py Delta lines: <Unavailable> File [modified]: qlm_mass.pdf Delta lines: <Unavailable> File [modified]: qlm_spin.pdf Delta lines: <Unavailable> File [modified]: waves.pdf Delta lines: <Unavailable> File [modified]: waves_conv.pdf Delta lines: <Unavailable> File [modified]: waves_l4.pdf Delta lines: <Unavailable> File [modified]: waves_l4_conv.pdf Delta lines: <Unavailable>

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Commits November 2011