Changeset 1649


Ignore:
Timestamp:
Sep 15, 2015 4:34:42 PM (6 years ago)
Author:
knoop
Message:

Latex lecture update for PALM seminar in Hong Kong

Location:
palm/trunk
Files:
13 edited

Legend:

Unmodified
Added
Removed
  • palm/trunk/SCRIPTS/mbuild

    r1623 r1649  
    1 #!/bin/bash
     1#!/bin/ksh
    22
    33# mbuild - script for compiling the PALM code and its utility programs
  • palm/trunk/SCRIPTS/mrun

    r1623 r1649  
    1 #!/bin/ksh 
     1#!/bin/ksh
    22
    33# mrun - script for running PALM jobs
  • palm/trunk/TUTORIAL/SOURCE/exercise_cbl.tex

    r1534 r1649  
    165165   \onslide<2-> You will find some more detailed information to solve this exercise in the PALM-online-documentation under:\\
    166166   \ \\
    167    \small\url{http://palm.muk.uni-hannover.de/wiki/doc/app/examples/cbl}\\
     167   \small\url{http://palm.muk.uni-hannover.de/trac/wiki/doc/app/examples/cbl}\\
    168168   \ \\
    169169   \normalsize (Attention: This documentation is for atmospheric convection with free upper lid.)
     
    172172   \onslide<3-> \normalsize Please also visit\\
    173173   \ \\
    174    \small\url{http://palm.muk.uni-hannover.de/wiki/doc/app/netcdf}\\
     174   \small\url{http://palm.muk.uni-hannover.de/trac/wiki/doc/app/netcdf}\\
    175175   \ \\
    176176   \normalsize where the complete PALM netCDF-data-output and the respective steering parameters are described.
  • palm/trunk/TUTORIAL/SOURCE/exercise_cumulus.tex

    r1544 r1649  
    214214      \item<5-> Do not forget to adapt \texttt{user\_check\_data\_output\_pr} (for defining your user-profiles) and your parameter file (\texttt{userpar} namelist) for the output (with the parameter \texttt{data\_output\_pr\_user = 'your\_profile'})!
    215215      \item<6-> Check the online documentation of PALM for more detailed information on the implementation of user profiles:\\
    216       \texttt{\hphantom{aaa}http://palm.muk.uni-hannover.de/wiki/doc/app/userint/output\#part\_1}\\
     216      \texttt{\hphantom{aaa}http://palm.muk.uni-hannover.de/trac/wiki/doc/app/userint/output\#part\_1}\\
    217217      Further examples are also provided within the subroutines \texttt{user\_statistics} and \texttt{user\_check\_data\_output\_pr}.
    218218     
  • palm/trunk/TUTORIAL/SOURCE/exercise_topography.tex

    r1541 r1649  
    190190   \scriptsize
    191191   Please see under \\
    192    \textbf{http://palm.muk.uni-hannover.de/wiki/doc/app/netcdf}  \\
     192   \textbf{http://palm.muk.uni-hannover.de/trac/wiki/doc/app/netcdf}  \\
    193193   \par\medskip 
    194194   where the complete PALM netCDF-data-output and the respective steering parameters are described.
    195195   \par\medskip
    196196   For topography, see \\
    197    \textbf{http://palm.muk.uni-hannover.de/wiki/doc/app/inipar\#topo}\\
     197   \textbf{http://palm.muk.uni-hannover.de/trac/wiki/doc/app/inipar\#topo}\\
    198198   \par\medskip
    199199   and especially for raster topography, see also
    200    \textbf{http://palm.muk.uni-hannover.de/wiki/doc/app/iofiles\#TOPOGRAPHY\_DATA} \\
     200   \textbf{http://palm.muk.uni-hannover.de/trac/wiki/doc/app/iofiles\#TOPOGRAPHY\_DATA} \\
    201201   \par\medskip
    202202   as well as the presentation ''Using topography (I)''.
  • palm/trunk/TUTORIAL/SOURCE/final_remarks.tex

    r1531 r1649  
    100100   \vspace{-2mm}
    101101   \begin{itemize}
    102       \item<2->{... about application for urban flows: \\ \par\medskip
     102      \item<2->{... about the current model status (PALM 4.0)  \\ \par\medskip
     103            \tiny{\textbf{Maronga, B., Gryschka, M., Heinze, R., Hoffmann, F., Kanani-SÃŒhring, F., Keck, M., Ketelsen, K., Letzel, M. O., SÃŒhring, M., and Raasch, S., 2015}: The Parallelized Large-Eddy Simulation Model (PALM)
     104            version 4.0 for atmospheric and oceanic flows: model formulation, recent developments, and future perspectives, Geosci. Model Dev., 8, 2515-2551, doi:10.5194/gmd-8-2515-2015.
     105      \item<3->{... about application for urban flows: \\ \par\medskip
    103106            \tiny{\textbf{Letzel, M.O., M. Krane and S. Raasch, 2008}: High resolution urban large-eddy simulation studies
    104             from street canyon to neighbourhood scale, Atmos. Env., 42, 8770-8784, doi:10.1016/j.atmosenv.2008.08.001. \\
    105             \textbf{Contact person}:    Marius Keck      keck@muk.uni-hannover.de}}
    106       \item<3->{... about non-cyclic boundary conditions: \\ \par\medskip
     107            from street canyon to neighbourhood scale, Atmos. Env., 42, 8770-8784, doi:10.1016/j.atmosenv.2008.08.001.
     108      \item<4->{... about non-cyclic boundary conditions: \\ \par\medskip
    107109            \tiny{\textbf{Gryschka, M. and S. Raasch, 2005}: Roll Convection During a Cold Air Outbreak: A Large Eddy Simulation with Stationary Model Domain.
    108110            Geophys. Res. Lett., 32, L14805, doi:10.1029/2005GL022872. \\ \par\medskip
    109111            \textbf{Gryschka, M., C. DrÃŒe, D. Etling and S. Raasch. 2008}: On the influence of sea-ice inhomogeneities onto roll convection in
    110             cold-air outbreaks, Geophys. Res. Lett., 35, L23804, doi:10.1029/2008GL035845.\\
    111             \textbf{Contact person}:    Micha Gryschka     gryschka@muk.uni-hannover.de}}
    112       \item<4->{... about the Lagrangian particle model: \\ \par\medskip
     112            cold-air outbreaks, Geophys. Res. Lett., 35, L23804, doi:10.1029/2008GL035845.
     113      \item<5->{... about the Lagrangian particle model: \\ \par\medskip
    113114            \tiny{\textbf{Steinfeld, G., S. Raasch and T. Markkanen, 2008}: Footprints in homogeneously and heterogeneously driven boundary layers derived
    114115            from a Lagrangian stochastic particle model embedded into large-eddy simulation, Boundary-Layer Meteorol., 129, 225-248.\\ \par\medskip
    115             \textbf{Riechelmann, T., Y. Noh and S. Raasch, 2012}: A new method for large-eddy simulations of clouds with Lagrangian droplets including the effects of turbulent collision., New J. Phys., 14, 065008.\\
    116             \textbf{Contact person}:    Fabian Hoffmann    hoffmann@muk.uni-hannover.de}}
    117       \item<5->{... on our webpage: \\
     116            \textbf{Riechelmann, T., Y. Noh and S. Raasch, 2012}: A new method for large-eddy simulations of clouds with Lagrangian droplets including the effects of turbulent collision., New J. Phys., 14, 065008.
     117      \item<6->{... on our webpage: \\
    118118            \tiny{\textbf{http://palm.muk.uni-hannover.de}}}
    119       \item<6->{Current model status (PALM 4.0) will be published soon \\in \textit{Geoscientific Model Development}}
     119      \item<7->{Current model status (PALM 4.0) will be published soon \\in \textit{Geoscientific Model Development}}
    120120   \end{itemize}
    121121\end{frame}
     
    132132      \item<4->{Read the online documentation.}
    133133      \item<5->{Discuss with colleagues (if you have).}
    134       \item<6->{See the ticket system under  \textbf{http://palm.muk.uni-hannover.de/wiki/tickets} \\ if anyone reported a similar problem before.}
    135       \item<7->{Use the ticket system under \textbf{http://palm.muk.uni-hannover.de/newticket} \\ and provide informations as detailed as possible
     134      \item<6->{See the ticket system under  \textbf{http://palm.muk.uni-hannover.de/trac/wiki/tickets} \\ if anyone reported a similar problem before.}
     135      \item<7->{Use the ticket system under \textbf{http://palm.muk.uni-hannover.de/trac/newticket} \\ and provide informations as detailed as possible
    136136           (revision number that you are using, job protocol with error message, parameter file, run control file, other relevant
    137137           output files, other relevant informations).}
     
    146146   \frametitle{PALM - Future Developments}
    147147   \begin{itemize}
    148       \item<1->{Hybrid MPI/OpenACC mode running on multiple GPUs}
     148      \item<1->{Immersed boundary layer method / viscous topography}
    149149      \vspace{5mm}
    150       \item<2->{Porting for Intel Xeon-Phi}
     150      \item<2->{Hybrid MPI/OpenACC mode running on multiple GPUs}
    151151      \vspace{5mm}
    152       \item<3->{Ready for deep convection using anelastic system of equations}
     152      \item<3->{Porting for Intel Xeon-Phi}
    153153      \vspace{5mm}
    154       \item<4->{Nesting methods are under development}
     154      \item<4->{Ready for deep convection using anelastic system of equations}
     155      \vspace{5mm}
     156      \item<5->{Nesting methods are under development}
    155157   \end{itemize}
    156158\end{frame}
  • palm/trunk/TUTORIAL/SOURCE/fundamentals_of_les.tex

    r1526 r1649  
    163163         \item<4->{\textbf{Problem:}}
    164164         \begin{itemize}
    165             \item<4->{Limited computer resources  (1996: $\sim$ $10^8$, today: $\sim$ $10^{11}$ gridpoints,
     165            \item<4->{Limited computer resources  (1996: $\sim$ $10^8$, today: $\sim$ $10^{12}$ gridpoints,
    166166                      but $\sim$ $10^{18}$ gridpoints needed, see prior slide).}
    167167            \item<4->{$\unit[1]{h}$ simulation of $10^9$ ($2048^3$) gridpoints on $512$ processors of the HLRN supercomputer needs $\unit[10]{h}$ CPU time.}
  • palm/trunk/TUTORIAL/SOURCE/installation.tex

    r1234 r1649  
    100100      %\item<4->{We will start with installing PALM on a \textcolor{green}{local} computer and running it interactively.}
    101101      \item<4->{The installation instructions can also be found in the PALM online-documentation under\\ \par\medskip
    102             \url{http://palm.muk.uni-hannover.de/wiki/doc/install}}
     102            \url{http://palm.muk.uni-hannover.de/trac/wiki/doc/install}}
    103103   \end{itemize}
    104104\end{frame}
     
    111111%       \item<1->{The following slides describe the installation procedure for running PALM on a \textcolor{green}{local} computer and how to verify the installation.}\\ \par\medskip
    112112%       \item<2->{The installation instructions can also be found in the PALM online-documentation under\\ \par\medskip
    113 %             \url{http://palm.muk.uni-hannover.de/wiki/doc/install}}
     113%             \url{http://palm.muk.uni-hannover.de/trac/wiki/doc/install}}
    114114%    \end{itemize}
    115115% \end{frame}
  • palm/trunk/TUTORIAL/SOURCE/mrun_steering_parameters.tex

    r1608 r1649  
    149149\begin{frame}
    150150   \frametitle{PALM - General Steering Parameters - Overview (II)}
    151    \footnotesize A complete alphabetical list of all parameters can be found under: \url{http://palm.muk.uni-hannover.de/wiki/doc/app/parlist}
     151   \footnotesize A complete alphabetical list of all parameters can be found under: \url{http://palm.muk.uni-hannover.de/trac/wiki/doc/app/parlist}
    152152
    153153   \begin{itemize}
  • palm/trunk/TUTORIAL/SOURCE/ncl.tex

    r1532 r1649  
    280280                   configuration file \texttt{.ncl.config} or in the
    281281                   documentation:\\
    282                    \uncover<3->{\texttt{http://palm.muk.uni-hannover.de/wiki/doc/app/nclparlist}}\\
     282                   \uncover<3->{\texttt{http://palm.muk.uni-hannover.de/trac/wiki/doc/app/nclparlist}}\\
    283283      \vspace{2mm}
    284284      \item<4-> Parameters specified in the prompt override parameters given
     
    439439                look to the NCL documentation\\
    440440               
    441                 \quad \texttt{http://palm.muk.uni-hannover.de/wiki/doc/app/nclparlist}\\
     441                \quad \texttt{http://palm.muk.uni-hannover.de/trac/wiki/doc/app/nclparlist}\\
    442442               
    443443                for detailed information
  • palm/trunk/TUTORIAL/SOURCE/numerics_bc.tex

    r1515 r1649  
    685685            \left. \frac{\partial \theta}{\partial z} \right\vert_{t=0}$$
    686686         \item<3-> Pressure: Dirichlet $p=0$
    687             or Neumann $\dfrac{\partial p}{\partial z} = 0$
     687            ( Neumann $\dfrac{\partial p}{\partial z} = 0$ is better )
    688688         \item<4-> SGS-TKE: Neumann $\dfrac{\partial e}{\partial z} = 0$
    689689         \item<5-> A damping layer can be switched on in order to absorb
  • palm/trunk/TUTORIAL/SOURCE/program_control.tex

    r1515 r1649  
    301301   \begin{tikzpicture}[scale=0.51, every node/.style={scale=0.51}]
    302302      \node [green]{\begin{lstlisting} 
    303  ******************************      ------------------------------------------
    304  * PALM 3.10  Rev: 1443       *      atmosphere - 3D - run without 1D - prerun
    305  ******************************      ------------------------------------------
    306 
    307  Date:                 30-07-14      Run:       example_cbl         
    308  Time:                 14:41:23      Run-No.:   00
    309  Run on host:           lccrayh
    310  Number of PEs:               8      Processor grid (x,y): (  2,  4) calculated
     303 ******************************    --------------------------------------------
     304 * PALM 4.0  Rev: 1648        *    atmosphere - 3D - run without 1D - prerun
     305 ******************************    --------------------------------------------
     306
     307 Date:                 15-09-15    Run:       example_cbl         
     308 Time:                 17:34:44    Run-No.:   00
     309 Run on host:             lcmuk
     310 Number of PEs:               4    Processor grid (x,y): (   2,   2) calculated
    311311 ------------------------------------------------------------------------------
    312312.
     
    391391   \begin{tikzpicture}[scale=0.75, every node/.style={scale=0.75}]
    392392      \node [green]{\begin{lstlisting}
    393 PALM 3.10  Rev: 1443  run: example_cbl.00  host: lccrayh  30-07-14 14:41:23
     393PALM 4.0  Rev: 1648  run: example_cbl.00  host: lcmuk  15-09-15 17:34:44
    394394-----------
    395395
    396 CPU measures for     8 PEs (    2(x) *     4(y) tasks *    1 threads):
     396CPU measures for     4 PEs (    2(x) *     2(y) tasks *    1 threads):
    397397
    398398gridpoints (x/y/z):                        40 *    40 *    40
    399399nr of timesteps:                          253
    400 cpu time per grid point and timestep:       0.27546 * 10**-6 s
     400cpu time per grid point and timestep:       0.57070 * 10**-6 s
    401401----------------------------------------------------------------------
    402402
     
    404404                           sec.      %                sec.      sec.      sec.
    405405------------------------------------------------------------------------------
    406 total                     4.460   100.00       1     4.460     4.460     0.001
    407 all progn.equations       2.943    65.98     759     2.905     2.982     0.028
    408 pres                      0.611    13.70     760     0.611     0.611     0.000
    409 diffusivities             0.338     7.59     759     0.338     0.339     0.001
    410 exchange-horiz-progn      0.146     3.28     759     0.108     0.185     0.028
    411 calculate_timestep        0.118     2.64     253     0.070     0.125     0.018
    412 flow_statistics           0.103     2.31     254     0.102     0.104     0.001
    413 prandtl_fluxes            0.062     1.40     759     0.062     0.063     0.000
    414 initialisation            0.062     1.39       1     0.061     0.061     0.001
    415 data_output_2d            0.028     0.62      10     0.021     0.028     0.002
    416 sum_up_3d_data            0.004     0.10     146     0.004     0.005     0.000
    417 disturb_field             0.004     0.08      10     0.003     0.007     0.001
    418 run_control               0.003     0.07     254     0.000     0.000     0.008
    419 last actions              0.003     0.07       1     0.003     0.003     0.000
    420 data_output_tseries       0.003     0.06     253     0.000     0.000     0.007
    421 data_output_profiles      0.001     0.02       4     0.000     0.000     0.002
    422 swap_timelevel            0.000     0.01     759     0.000     0.000     0.000
    423 user_actions              0.000     0.01     759     0.000     0.000     0.000
     406total                     9.241   100.00       1     9.241     9.241     0.000
     407all progn.equations       5.899    63.83     759     5.827     5.977     0.056
     408pres                      1.508    16.32     760     1.506     1.508     0.002
     409diffusivities             0.632     6.84     759     0.624     0.642     0.006
     410exchange-horiz-progn      0.412     4.45     759     0.333     0.441     0.056
     411flow_statistics           0.270     2.92     254     0.269     0.271     0.001
     412calculate_timestep        0.205     2.21     253     0.150     0.223     0.031
     413prandtl_fluxes            0.150     1.63     759     0.148     0.153     0.002
     414sum_up_3d_data            0.016     0.17     146     0.016     0.016     0.000
     415initialisation            0.014     0.15       1     0.014     0.014     0.000
     416disturb_field             0.006     0.06      10     0.005     0.006     0.001
     417data_output_2d            0.004     0.04      10     0.003     0.004     0.000
     418data_output_tseries       0.003     0.04     253     0.000     0.000     0.006
     419run_control               0.003     0.03     254     0.000     0.000     0.005
     420swap_timelevel            0.001     0.01     759     0.001     0.001     0.000
     421last actions              0.001     0.01       1     0.000     0.001     0.000
    424422average_3d_data           0.000     0.00       2     0.000     0.000     0.000
     423user_actions              0.000     0.00     759     0.000     0.000     0.000
     424data_output_profiles      0.000     0.00       4     0.000     0.000     0.000
    425425
    426426special measures:
    427427-------------------------------------------------------------------------------
    428 timesteps                 4.391    98.45     253     4.391     4.391     0.000
    429 poisfft                   0.441     9.90     760     0.440     0.443     0.001
    430 exchange_horiz            0.233     5.22    6866     0.193     0.275     0.029
    431 fft_y                     0.122     2.73     760     0.121     0.122     0.000
    432 fft_x                     0.121     2.71     760     0.121     0.121     0.000
    433 transpo invers            0.084     1.89     760     0.084     0.085     0.000
    434 transpo forward           0.077     1.72     760     0.075     0.078     0.001
    435 mpi_alltoall              0.063     1.42    4560     0.060     0.065     0.002
    436 divergence                0.043     0.97    1520     0.043     0.044     0.000
    437 tridia                    0.036     0.81     760     0.036     0.036     0.000
    438 exchange_horiz_2d         0.021     0.47    3795     0.019     0.022     0.001
     428timesteps                 9.222    99.80     253     9.222     9.222     0.000
     429poisfft                   0.871     9.42     760     0.868     0.873     0.002
     430exchange_horiz            0.588     6.37    6866     0.505     0.619     0.058
     431divergence                0.259     2.81    1520     0.258     0.261     0.001
     432fft_y                     0.239     2.59     760     0.236     0.244     0.003
     433fft_x                     0.238     2.58     760     0.236     0.243     0.002
     434transpo forward           0.195     2.12     760     0.187     0.202     0.006
     435mpi_alltoall              0.162     1.75    4560     0.148     0.169     0.008
     436transpo invers            0.113     1.22     760     0.109     0.114     0.002
     437tridia                    0.083     0.90     760     0.082     0.084     0.000
     438exchange_horiz_2d         0.040     0.44    3795     0.034     0.046     0.005
    439439\end{lstlisting}
    440440      };
     
    493493      \item<1->{A detailed description of how to use PALM and a complete list of steering parameters and their meaning can be found on the PALM-server: \\
    494494            \par\bigskip
    495             \textbf{http://palm.muk.uni-hannover.de/wiki/doc/toc}}
     495            \textbf{http://palm.muk.uni-hannover.de/trac/wiki/doc/toc}}
    496496      \par\bigskip
    497497      \item<2->{General information about the netCDF data format can be found under \\
  • palm/trunk/TUTORIAL/SOURCE/user_defined_code.tex

    r1531 r1649  
    516516   \ \\
    517517   See PALM online documentation under \\
    518    \textbf{http://palm.muk.uni-hannover.de/wiki/doc/app/userint}\\
     518   \textbf{http://palm.muk.uni-hannover.de/trac/wiki/doc/app/userint}\\
    519519   for detailed explanations.
    520520
     
    786786      \item<6-> The online documentation gives very detailed instructions about how to modify the interface in order to output user-defined quantities under\\
    787787      \vspace{1mm}
    788       \textbf{http://palm.muk.uni-hannover.de/wiki/doc/app/userint/output}
     788      \textbf{http://palm.muk.uni-hannover.de/trac/wiki/doc/app/userint/output}
    789789   \end{itemize}
    790790\end{frame}
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