| 1 | % $Id: program_control.tex 1515 2015-01-02 11:35:51Z raasch $ |
|---|
| 2 | \input{header_tmp.tex} |
|---|
| 3 | %\input{header_LECTURE.tex} |
|---|
| 4 | |
|---|
| 5 | \usepackage[utf8]{inputenc} |
|---|
| 6 | \usepackage{ngerman} |
|---|
| 7 | \usepackage{pgf} |
|---|
| 8 | \usepackage{subfigure} |
|---|
| 9 | \usepackage{units} |
|---|
| 10 | \usepackage{multimedia} |
|---|
| 11 | \usepackage{hyperref} |
|---|
| 12 | \newcommand{\event}[1]{\newcommand{\eventname}{#1}} |
|---|
| 13 | \usepackage{xmpmulti} |
|---|
| 14 | \usepackage{tikz} |
|---|
| 15 | \usetikzlibrary{shapes,arrows,positioning,decorations.pathreplacing} |
|---|
| 16 | \def\Tiny{\fontsize{4pt}{4pt}\selectfont} |
|---|
| 17 | \def\Tinytwo{\fontsize{3pt}{3pt}\selectfont} |
|---|
| 18 | |
|---|
| 19 | %---------- neue Pakete |
|---|
| 20 | \usepackage{amsmath} |
|---|
| 21 | \usepackage{amssymb} |
|---|
| 22 | \usepackage{multicol} |
|---|
| 23 | \usepackage{pdfcomment} |
|---|
| 24 | \usepackage{listings} |
|---|
| 25 | \lstset{showspaces=false,language=fortran,basicstyle= |
|---|
| 26 | \ttfamily,showstringspaces=false, captionpos=b,aboveskip=0pt,belowskip=0pt} |
|---|
| 27 | |
|---|
| 28 | \institute{Institute of Meteorology and Climatology, Leibniz UniversitÀt Hannover} |
|---|
| 29 | \selectlanguage{english} |
|---|
| 30 | \date{last update: \today} |
|---|
| 31 | \event{PALM Seminar} |
|---|
| 32 | \setbeamertemplate{navigation symbols}{} |
|---|
| 33 | |
|---|
| 34 | \setbeamertemplate{footline} |
|---|
| 35 | {% |
|---|
| 36 | \begin{beamercolorbox}[rightskip=-0.1cm]& |
|---|
| 37 | {\includegraphics[height=0.65cm]{imuk_logo.pdf}\hfill \includegraphics[height=0.65cm]{luh_logo.pdf}} |
|---|
| 38 | \end{beamercolorbox} |
|---|
| 39 | \begin{beamercolorbox}[ht=2.5ex,dp=1.125ex,% |
|---|
| 40 | leftskip=.3cm,rightskip=0.3cm plus1fil]{title in head/foot}% |
|---|
| 41 | {\leavevmode{\usebeamerfont{author in head/foot}\insertshortauthor} \hfill \eventname \hfill \insertframenumber \; / \inserttotalframenumber}% |
|---|
| 42 | \end{beamercolorbox}% |
|---|
| 43 | % \begin{beamercolorbox}[colsep=1.5pt]{lower separation line foot}% |
|---|
| 44 | % \end{beamercolorbox} |
|---|
| 45 | }%\logo{\includegraphics[width=0.3\textwidth]{luhimuk_logo.eps}} |
|---|
| 46 | |
|---|
| 47 | \title[Program Control by Physical Parameters]{Program Control by Physical Parameters} |
|---|
| 48 | \author{PALM group} |
|---|
| 49 | |
|---|
| 50 | % Notes: |
|---|
| 51 | % jede subsection bekommt einen punkt im menu (vertikal ausgerichtet. |
|---|
| 52 | % jeder frame in einer subsection bekommt einen punkt (horizontal ausgerichtet) |
|---|
| 53 | \begin{document} |
|---|
| 54 | % Folie 1 |
|---|
| 55 | \begin{frame} |
|---|
| 56 | \titlepage |
|---|
| 57 | \end{frame} |
|---|
| 58 | |
|---|
| 59 | \section{Program Control by Physical Parameters} |
|---|
| 60 | \subsection{Program Control by Physical Parameters} |
|---|
| 61 | |
|---|
| 62 | % Folie 2 |
|---|
| 63 | \begin{frame} |
|---|
| 64 | \frametitle{Steering of PALM and Interpreting the Output} |
|---|
| 65 | \begin{itemize} |
|---|
| 66 | \item<1->{This section section describes how to steer the model and how to interpret the model output (\textbf{it does not explain, how to start and control model runs}).} |
|---|
| 67 | \item<2->{It gives a general overview of the input and output files and explaines the contents of the most important files in some detail.} |
|---|
| 68 | \end{itemize} |
|---|
| 69 | \end{frame} |
|---|
| 70 | |
|---|
| 71 | % Folie 3 |
|---|
| 72 | \begin{frame} |
|---|
| 73 | \frametitle{PALM Input/Output Overview (I)} |
|---|
| 74 | \tikzstyle{start} = [ellipse, draw, fill=green!20, font=\small] |
|---|
| 75 | \tikzstyle{yellow1} = [rectangle, draw, fill=yellow!20, text width=0.2\textwidth, font=\Tiny] |
|---|
| 76 | \tikzstyle{yellow2} = [rectangle, draw, fill=yellow!20, text width=0.1\textwidth, font=\Tiny] |
|---|
| 77 | \tikzstyle{yellow3} = [rectangle, draw, fill=yellow!20, text width=0.03\textwidth, font=\Tiny] |
|---|
| 78 | \tikzstyle{red} = [rectangle, draw, fill=red!100, text width=0.1\textwidth, font=\Tiny] |
|---|
| 79 | \tikzstyle{red2} = [rectangle, draw, fill=red!100, text width=0.03\textwidth, font=\Tiny] |
|---|
| 80 | \tikzstyle{orange1} = [rectangle, draw, fill=orange!50, text width=0.1\textwidth, font=\Tiny] |
|---|
| 81 | \tikzstyle{orange2} = [rectangle, draw, fill=orange!50, text width=0.11\textwidth, font=\Tiny] |
|---|
| 82 | \tikzstyle{orange3} = [rectangle, draw, fill=orange!50, text width=0.03\textwidth, font=\Tiny] |
|---|
| 83 | |
|---|
| 84 | \tikzstyle{line} = [draw, -latex'] |
|---|
| 85 | |
|---|
| 86 | \begin{tikzpicture} [auto] |
|---|
| 87 | \node[start] (palm) {\textbf{PALM}}; |
|---|
| 88 | |
|---|
| 89 | \uncover<2->{\node[yellow1] (parameterfile) [above left=1.5cm of palm] {parameter file \\ for steering};} |
|---|
| 90 | \uncover<6->{\node[red] (restartdata1) [above right=1.8cm of palm] {restart data};} |
|---|
| 91 | \uncover<5->{\node[red] (restartdata2) [below=4.5cm of restartdata1] {restart data};} |
|---|
| 92 | |
|---|
| 93 | \uncover<4->{ |
|---|
| 94 | \node[orange1] (timeseries) [below left=4.4cm of palm] {time series}; |
|---|
| 95 | \node[orange2] (2dsectionstime) [right=0.5cm of timeseries] {2D sections \\ time averaged}; |
|---|
| 96 | \node[orange2] (3ddatatime) [right=0.39cm of 2dsectionstime] {3D data \\ time averaged}; |
|---|
| 97 | |
|---|
| 98 | \path<4->[line] (palm) -- (timeseries); |
|---|
| 99 | \path<4->[line] (palm) -- (2dsectionstime); |
|---|
| 100 | \path<4->[line] (palm) -- (3ddatatime); |
|---|
| 101 | |
|---|
| 102 | \node[orange1] (1dmean) [above=0.2cm of timeseries] {1D mean \\ profiles}; |
|---|
| 103 | \node[orange1] (2dsections) [right=0.5cm of 1dmean] {2D sections}; |
|---|
| 104 | \node[orange1] (3ddata) [right=0.5cm of 2dsections] {3D data};} |
|---|
| 105 | |
|---|
| 106 | \path<4->[line] (palm) -- (1dmean); |
|---|
| 107 | \path<4->[line] (palm) -- (2dsections); |
|---|
| 108 | \path<4->[line] (palm) -- (3ddata); |
|---|
| 109 | |
|---|
| 110 | \uncover<3->{\node[yellow2] (headerfile) [above=0.5cm of 2dsections]{header file};} |
|---|
| 111 | \uncover<3->{\node[yellow1] (runcontrol) [right=0.5cm of headerfile]{run control output\\ (parameter settings + \\ timestep informations)};} |
|---|
| 112 | \uncover<3->{\node[yellow2] (cpumeasure) [left=0.5cm of headerfile]{cpu\\ measurements};} |
|---|
| 113 | |
|---|
| 114 | \node (program) [right=2.8cm of palm] {program}; |
|---|
| 115 | \uncover<2->{\node (steeringdata) [right=0.45cm of restartdata1] {steering data};} |
|---|
| 116 | \uncover<3->{\node (run) [right=2.7cm of runcontrol] {run informations};} |
|---|
| 117 | \uncover<4->{\node (analysis) [right=3.8cm of 3ddata] {analysis data};} |
|---|
| 118 | |
|---|
| 119 | \uncover<7->{ |
|---|
| 120 | \node[yellow3] (yellow) [below=0.5 of timeseries] {}; |
|---|
| 121 | \node (ascii) [right=0.1cm of yellow] {ASCII}; |
|---|
| 122 | \node[orange3] (orange) [right=0.4cm of ascii] {}; |
|---|
| 123 | \node (netcdf) [right=0.1cm of orange] {netCDF}; |
|---|
| 124 | \node[red2] (red) [right=0.4cm of netcdf] {}; |
|---|
| 125 | \node (binary) [right=0.1cm of red] {binary};} |
|---|
| 126 | |
|---|
| 127 | \path<2->[line] (parameterfile) -- (palm); |
|---|
| 128 | \path<3->[line] (palm) -- (cpumeasure); |
|---|
| 129 | \path<3->[line] (palm) -- (headerfile); |
|---|
| 130 | \path<3->[line] (palm) -- (runcontrol); |
|---|
| 131 | \path<5->[line] (palm) -- (restartdata2); |
|---|
| 132 | \path<6->[line] (restartdata1) -- (palm); |
|---|
| 133 | \path<6->[line,dashed] (restartdata2) -- (restartdata1); |
|---|
| 134 | \end{tikzpicture} |
|---|
| 135 | \end{frame} |
|---|
| 136 | |
|---|
| 137 | % Folie 4 |
|---|
| 138 | \begin{frame} |
|---|
| 139 | \frametitle{PALM Input/Output Overview (II)} |
|---|
| 140 | \tikzstyle{start} = [ellipse, draw, fill=green!20, font=\small] |
|---|
| 141 | \tikzstyle{yellow1} = [rectangle, draw, fill=yellow!20, text width=0.2\textwidth, font=\Tiny] |
|---|
| 142 | \tikzstyle{yellow2} = [rectangle, draw, fill=yellow!20, text width=0.1\textwidth, font=\Tiny] |
|---|
| 143 | \tikzstyle{yellow3} = [rectangle, draw, fill=yellow!20, text width=0.03\textwidth, font=\Tiny] |
|---|
| 144 | \tikzstyle{yellow4} = [rectangle, draw, fill=yellow!100, text width=1.8cm, font=\Tiny] |
|---|
| 145 | \tikzstyle{red} = [rectangle, draw, fill=red!100, text width=0.1\textwidth, font=\Tiny] |
|---|
| 146 | \tikzstyle{red2} = [rectangle, draw, fill=red!100, text width=0.03\textwidth, font=\Tiny] |
|---|
| 147 | \tikzstyle{orange1} = [rectangle, draw, fill=orange!50, text width=0.1\textwidth, font=\Tiny] |
|---|
| 148 | \tikzstyle{orange2} = [rectangle, draw, fill=orange!50, text width=0.11\textwidth, font=\Tiny] |
|---|
| 149 | \tikzstyle{orange3} = [rectangle, draw, fill=orange!50, text width=0.03\textwidth, font=\Tiny] |
|---|
| 150 | |
|---|
| 151 | \tikzstyle{line} = [draw, -] |
|---|
| 152 | |
|---|
| 153 | \begin{tikzpicture} [auto] |
|---|
| 154 | \node[start] (palm) {\textbf{PALM}}; |
|---|
| 155 | |
|---|
| 156 | \node[yellow1] (parameterfile) [above left=1cm of palm] {parameter file \\ for steering}; |
|---|
| 157 | \node[red] (restartdata1) [above right=1.3cm of palm] {restart data}; |
|---|
| 158 | \node[red] (restartdata2) [below=2.5cm of restartdata1] {restart data}; |
|---|
| 159 | |
|---|
| 160 | \node[yellow1] (runcontrol) [below=0.4cm of palm]{run control output\\ (parameter settings + \\ timestep informations)}; |
|---|
| 161 | \node[yellow2] (headerfile) [left=0.5cm of runcontrol]{header file}; |
|---|
| 162 | \node[yellow2] (cpumeasure) [left=0.5cm of headerfile]{cpu\\ measurements}; |
|---|
| 163 | |
|---|
| 164 | \node[orange1] (1dmean) [below=0.3cm of cpumeasure] {1D mean \\ profiles}; |
|---|
| 165 | \node[orange1] (2dsections) [right=0.5cm of 1dmean] {2D sections}; |
|---|
| 166 | \node[orange1] (3ddata) [right=0.5cm of 2dsections] {3D data}; |
|---|
| 167 | |
|---|
| 168 | \node[orange1] (timeseries) [below=0.2cm of 1dmean] {time series}; |
|---|
| 169 | \node[orange2] (2dsectionstime) [right=0.5cm of timeseries] {2D sections \\ time averaged}; |
|---|
| 170 | \node[orange2] (3ddatatime) [right=0.39cm of 2dsectionstime] {3D data \\ time averaged}; |
|---|
| 171 | |
|---|
| 172 | \node (program) [right=2.8cm of palm] {program}; |
|---|
| 173 | \node (steeringdata) [right=0.8cm of restartdata1] {steering data}; |
|---|
| 174 | \node (run) [right=2.5cm of runcontrol] {run informations}; |
|---|
| 175 | \node (analysis) [right=3.6cm of 3ddata] {analysis data}; |
|---|
| 176 | |
|---|
| 177 | \node[yellow3] (yellow) [below=0.3 of timeseries] {}; |
|---|
| 178 | \node (ascii) [right=0.1cm of yellow] {ASCII}; |
|---|
| 179 | \node[orange3] (orange) [right=0.4cm of ascii] {}; |
|---|
| 180 | \node (netcdf) [right=0.1cm of orange] {netCDF}; |
|---|
| 181 | \node[red2] (red) [right=0.4cm of netcdf] {}; |
|---|
| 182 | \node (binary) [right=0.1cm of red] {binary}; |
|---|
| 183 | |
|---|
| 184 | %--------- neue Ordner |
|---|
| 185 | \uncover<2->{ |
|---|
| 186 | \node[yellow4] (currentversion) [above=0.6cm of parameterfile] {current\_version/}; |
|---|
| 187 | \node[yellow4] (jobs) [right=0.3cm of currentversion] {JOBS/}; |
|---|
| 188 | \node[yellow4] (runidentifier) [right=0.4cm of jobs] {\textless run\_identifier \textgreater/}; |
|---|
| 189 | \node[yellow4] (input) [above right=1cm of runidentifier] {INPUT/}; |
|---|
| 190 | \node[yellow4] (monitoring) [below=0.1cm of input] {MONITORING/}; |
|---|
| 191 | \node[yellow4] (output) [below=0.1cm of monitoring] {OUTPUT/}; |
|---|
| 192 | \node[yellow4] (restart) [below=0.1cm of output] {RESTART\_DATA/};} |
|---|
| 193 | |
|---|
| 194 | \uncover<3->{\node[yellow4] (input2) [below=0.1cm of parameterfile] {INPUT/};} |
|---|
| 195 | \uncover<4->{\node[yellow4] (monitoring2) [above=0.6cm of headerfile] {MONITORING/};} |
|---|
| 196 | \uncover<6->{\node[yellow4] (restart2) [below=0.1cm of restartdata1] {RESTART\_DATA/};} |
|---|
| 197 | \uncover<7->{\node[yellow4] (tmpdata) [below=0.1cm of restart2] {/tmp\_data\_catalog/};} |
|---|
| 198 | \uncover<5->{\node[yellow4] (output2) [below=0.5cm of restartdata2] {OUTPUT/};} |
|---|
| 199 | |
|---|
| 200 | \path[line]<2-> (currentversion) -- (jobs); |
|---|
| 201 | \path[line]<2-> (jobs) -- (runidentifier); |
|---|
| 202 | \path[line]<2-> (runidentifier.east) -- (input.west); |
|---|
| 203 | \path[line]<2-> (runidentifier.east) -- (monitoring.west); |
|---|
| 204 | \path[line]<2-> (runidentifier.east) -- (output.west); |
|---|
| 205 | \path[line]<2-> (runidentifier.east) -- (restart.west); |
|---|
| 206 | |
|---|
| 207 | \draw<4->[decorate,decoration={brace,raise=6pt,amplitude=9pt},thick] |
|---|
| 208 | (-4.5,-0.95)--(-1,-0.95) ; |
|---|
| 209 | \draw<5->[decorate,decoration={brace,mirror,raise=5pt,amplitude=6pt},thick] |
|---|
| 210 | (0.45,-3)--(0.45,-1.9) ; |
|---|
| 211 | \end{tikzpicture} |
|---|
| 212 | \end{frame} |
|---|
| 213 | |
|---|
| 214 | % Folie 5 |
|---|
| 215 | \begin{frame} |
|---|
| 216 | \frametitle{The Parameter File} |
|---|
| 217 | \tikzstyle{box} = [rectangle, draw, text width=0.9\textwidth, font=\tiny] |
|---|
| 218 | \tikzstyle{line} = [draw, thick, -latex'] |
|---|
| 219 | \footnotesize |
|---|
| 220 | \begin{itemize} |
|---|
| 221 | \item<1->{Physical and numerical features of a PALM run (e.g. initial and boundary conditions, numerical methods) |
|---|
| 222 | are controlled by a so called \textbf{parameter file} which uses FORTRAN-NAMELIST syntax.} |
|---|
| 223 | \item<2->{General structure of a FORTRAN-NAMELIST file} |
|---|
| 224 | \end{itemize} |
|---|
| 225 | \begin{tikzpicture}[auto] |
|---|
| 226 | \uncover<3->{ |
|---|
| 227 | \node[box](firstbox){ \begin{tabbing} |
|---|
| 228 | \quad \&abcd \quad \=no\_of\_eggs = 100, litres\_of\_milk = 50.0, \= \\ |
|---|
| 229 | \>kilos\_of\_butter = 20.0, \> / \end{tabbing}}; |
|---|
| 230 | \node[font=\tiny] (leading_blank) at (-5,0.8) {\textbf{leading blank}}; |
|---|
| 231 | \node[font=\tiny] (namelist) at (-2,0.8) {\textbf{NAMELIST group}}; |
|---|
| 232 | \node[font=\tiny] (terminating) at (3,0.8) {\textbf{terminating character}}; |
|---|
| 233 | \path[line] (-5,0.7) -- (-4.8,0); |
|---|
| 234 | \path[line] (-2,0.7) -- (-4,0); |
|---|
| 235 | \path[line] (3,0.7) -- (0.2,-0.3);} |
|---|
| 236 | \end{tikzpicture} |
|---|
| 237 | \begin{itemize} |
|---|
| 238 | \item<4->{This file can be read from a FORTRAN program in the following way:} |
|---|
| 239 | \end{itemize} |
|---|
| 240 | \begin{tikzpicture}[auto, node distance=0] |
|---|
| 241 | \uncover<4->{ |
|---|
| 242 | \node[box](secondbox){ \begin{tabbing} |
|---|
| 243 | INTEGER :: \=no\_of\_eggs = 30 \\ |
|---|
| 244 | REAL :: \> litres\_of\_milk = 0.0, kilos\_of\_butter, kilos\_of\_cream = 33.0 \\ |
|---|
| 245 | \\ |
|---|
| 246 | NAMELIST /abcd/ \quad no\_of\_eggs, litres\_of\_milk, kilos\_of\_butter, kilos\_of\_cream \\ |
|---|
| 247 | \\ |
|---|
| 248 | OPEN ( 1, FILE='Filename' ) \\ |
|---|
| 249 | \\ |
|---|
| 250 | READ ( 1, abcd ) \end{tabbing}};} |
|---|
| 251 | \end{tikzpicture} |
|---|
| 252 | \normalsize |
|---|
| 253 | \end{frame} |
|---|
| 254 | |
|---|
| 255 | % Folie 6 |
|---|
| 256 | \begin{frame} |
|---|
| 257 | \frametitle{An Example of PALM - NAMELIST Input} |
|---|
| 258 | \tikzstyle{box} = [rectangle, draw, text width=\textwidth, font=\tiny] |
|---|
| 259 | \begin{tikzpicture}[auto, node distance=0] |
|---|
| 260 | \node[box](box){ \begin{tabbing} |
|---|
| 261 | \&inipar \=nx = 39, ny = 39, nz = 40, \\ |
|---|
| 262 | \>dx = 50.0, dy = 50.0, dz = 50.0, \\ |
|---|
| 263 | \\ |
|---|
| 264 | \>initializing\_actions = 'set\_constant\_profiles', \\ |
|---|
| 265 | \>ug\_surface = 0.0, vg\_surface = 0.0, \\ |
|---|
| 266 | \\ |
|---|
| 267 | \>pt\_vertical\_gradient \qquad = 0.0, 1.0, \\ |
|---|
| 268 | \>pt\_vertical\_gradient\_level = 0.0, 800.0, \\ |
|---|
| 269 | \\ |
|---|
| 270 | \>surface\_heatflux = 0.1, bc\_pt\_b ='neumann', / \\ |
|---|
| 271 | \\ |
|---|
| 272 | \\ |
|---|
| 273 | \&d3par \>end\_time = 3600.0, \\ |
|---|
| 274 | \\ |
|---|
| 275 | \>dt\_dopr = 900.0, averaging\_interval\_pr = 600.0, \\ |
|---|
| 276 | \>data\_output\_pr = 'pt', 'u', 'v', / \\ \end{tabbing}}; |
|---|
| 277 | \end{tikzpicture} |
|---|
| 278 | \footnotesize |
|---|
| 279 | \vspace{-3mm} |
|---|
| 280 | \begin{itemize} |
|---|
| 281 | \item<2->{There are two NAMELIST groups ({\tt \&inipar} and {\tt \&d3par}).} |
|---|
| 282 | \item<3->{Assignments to parameters in {\tt\&inipar} are ignored within restart runs \\ |
|---|
| 283 | (exception: {\tt initializing\_actions} = {\tt'read\_restart\_data'} is obligatory for restart runs).} |
|---|
| 284 | \item<4->{Values of {\tt \&d3par} parameters can be changed for restart runs.} |
|---|
| 285 | \end{itemize} |
|---|
| 286 | \end{frame} |
|---|
| 287 | |
|---|
| 288 | % Folie 7 |
|---|
| 289 | \begin{frame}[fragile] |
|---|
| 290 | \tikzstyle{green} = [rectangle, draw, fill=green!30, text width=2.1\textwidth, font=\Tinytwo] |
|---|
| 291 | \frametitle{The Run Control File} |
|---|
| 292 | \scriptsize |
|---|
| 293 | \begin{itemize} |
|---|
| 294 | \item<1->{For initial runs, the parameter settings and many additional informations about the run (header informations) are printed at the beginning of this file.} |
|---|
| 295 | \item<2->{The parameter settings are followed by values of specific model variables for certain timesteps (one line for each timestep, the output intervall can be |
|---|
| 296 | controlled by run parameter {\tt dt\_run\_control}).} |
|---|
| 297 | \end{itemize} |
|---|
| 298 | \onslide<3->{\textbf{Contents of this timestep output should be carefully checked after each run, because it allows a first control, if the model had run correctly, or if any |
|---|
| 299 | errors have occurred!}} |
|---|
| 300 | \par\bigskip |
|---|
| 301 | \begin{tikzpicture}[scale=0.51, every node/.style={scale=0.51}] |
|---|
| 302 | \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 |
|---|
| 311 | ------------------------------------------------------------------------------ |
|---|
| 312 | . |
|---|
| 313 | . |
|---|
| 314 | . |
|---|
| 315 | Run-control output: |
|---|
| 316 | ------------------ |
|---|
| 317 | |
|---|
| 318 | RUN ITER. HH:MM:SS.SS DT(E) UMAX VMAX WMAX U* W* THETA* Z_I ENERG. DISTENERG DIVOLD DIVNEW UMAX(KJI) VMAX(KJI) WMAX(KJI) ADVECX ADVECY MGCYC |
|---|
| 319 | --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- |
|---|
| 320 | 0 0 00:00:00.00 20.0000A -0.2192D -0.2169D -0.1214 0.000 1.38 0.000E+00 800. 0.106E-02 0.000E+00 0.000E+00 0.000E+00 11 32 5 5 37 29 4 26 0 0.000 0.000 0 |
|---|
| 321 | 0 1 00:00:20.00 20.0000A -0.2192 -0.2169 -0.1214 0.001 0.69 -0.124E+03 100. 0.105E-02 0.948E-03 0.491E-05 0.355E-15 11 32 5 5 37 29 4 26 0 0.000 0.000 0 |
|---|
| 322 | 0 2 00:00:40.00 20.0000D -0.2151 -0.2176 -0.1209 0.001 0.69 -0.125E+03 100. 0.104E-02 0.940E-03 0.802E-05 0.359E-15 11 32 5 5 37 29 4 26 0 0.000 0.000 0 |
|---|
| 323 | . |
|---|
| 324 | . |
|---|
| 325 | |
|---|
| 326 | \end{lstlisting} |
|---|
| 327 | }; |
|---|
| 328 | \end{tikzpicture} |
|---|
| 329 | \end{frame} |
|---|
| 330 | |
|---|
| 331 | % Folie 8 |
|---|
| 332 | \begin{frame}[fragile] |
|---|
| 333 | \tikzstyle{green} = [rectangle, draw, fill=green!30, text width=0.9\textwidth, font=\Tiny] |
|---|
| 334 | \frametitle{The Header File} |
|---|
| 335 | \scriptsize |
|---|
| 336 | \begin{itemize} |
|---|
| 337 | \item{The header file contains nearly the same informations as the header of the run control file of the initial run.} |
|---|
| 338 | \item<2->{It is generated for \textbf{every} run (initial run as well as restart runs).} |
|---|
| 339 | \item<3->{It is created at the beginning \textbf{and} at the end of a run (overwrites the file created at beginning).} |
|---|
| 340 | \item<4->{Only at the end, cpu time information is included!} |
|---|
| 341 | \end{itemize} |
|---|
| 342 | \begin{center} |
|---|
| 343 | \begin{tikzpicture}[scale=1, every node/.style={scale=1}] |
|---|
| 344 | \node [green]{\begin{lstlisting} |
|---|
| 345 | . |
|---|
| 346 | . |
|---|
| 347 | . |
|---|
| 348 | Run time and time step information: |
|---|
| 349 | ---------------------------------- |
|---|
| 350 | |
|---|
| 351 | Timestep: variable maximum value: 20.000 s CFL-factor: 0.90 |
|---|
| 352 | Start time: 0.000 s |
|---|
| 353 | End time: 3600.000 s |
|---|
| 354 | |
|---|
| 355 | Time reached: 3601.930 s |
|---|
| 356 | CPU-time used: 4.391 s per timestep: 0.017 s |
|---|
| 357 | per second of simulated time: 0.001 s |
|---|
| 358 | |
|---|
| 359 | |
|---|
| 360 | Computational grid and domain size: |
|---|
| 361 | ---------------------------------- |
|---|
| 362 | |
|---|
| 363 | Grid length: dx = 50.000 m dy = 50.000 m dz = 50.000 m |
|---|
| 364 | . |
|---|
| 365 | . |
|---|
| 366 | . |
|---|
| 367 | \end{lstlisting} |
|---|
| 368 | }; |
|---|
| 369 | \end{tikzpicture} |
|---|
| 370 | \end{center} |
|---|
| 371 | \normalsize |
|---|
| 372 | \end{frame} |
|---|
| 373 | |
|---|
| 374 | % Folie 9 |
|---|
| 375 | \begin{frame}[fragile] |
|---|
| 376 | \tikzstyle{green} = [rectangle, draw, fill=green!30, text width=1.4\textwidth, font=\Tiny] |
|---|
| 377 | \frametitle{CPU Measurements File} |
|---|
| 378 | \begin{columns}[c] |
|---|
| 379 | \column{0.42\textwidth} |
|---|
| 380 | \scriptsize |
|---|
| 381 | \begin{itemize} |
|---|
| 382 | \item{Contains informations about the CPU requirements of single parts of the program.} |
|---|
| 383 | \item<2->{It should be inspected regularly in order to find out, if the code is still well optimized (e.g. load balance).} |
|---|
| 384 | \item<3->{Prognostic-equations and pressure solver ({\tt pres}) should be the main consumer.} |
|---|
| 385 | \item<4->{For larger grids ($1024^3$ points), {\tt pres} may need up to 50\% of the total time or more.} |
|---|
| 386 | \item<5->{Time needed for communication (sum of {\tt exchange\_horiz}({\tt \_2d}) and {\tt mpi\_alltoall}) should not exceed about 10-15\% of the total time.} |
|---|
| 387 | \end{itemize} |
|---|
| 388 | \normalsize |
|---|
| 389 | \column{0.58\textwidth} |
|---|
| 390 | \vspace{-5mm} |
|---|
| 391 | \begin{tikzpicture}[scale=0.75, every node/.style={scale=0.75}] |
|---|
| 392 | \node [green]{\begin{lstlisting} |
|---|
| 393 | PALM 3.10 Rev: 1443 run: example_cbl.00 host: lccrayh 30-07-14 14:41:23 |
|---|
| 394 | ----------- |
|---|
| 395 | |
|---|
| 396 | CPU measures for 8 PEs ( 2(x) * 4(y) tasks * 1 threads): |
|---|
| 397 | |
|---|
| 398 | gridpoints (x/y/z): 40 * 40 * 40 |
|---|
| 399 | nr of timesteps: 253 |
|---|
| 400 | cpu time per grid point and timestep: 0.27546 * 10**-6 s |
|---|
| 401 | ---------------------------------------------------------------------- |
|---|
| 402 | |
|---|
| 403 | place: mean counts min max rms |
|---|
| 404 | sec. % sec. sec. sec. |
|---|
| 405 | ------------------------------------------------------------------------------ |
|---|
| 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 |
|---|
| 424 | average_3d_data 0.000 0.00 2 0.000 0.000 0.000 |
|---|
| 425 | |
|---|
| 426 | special measures: |
|---|
| 427 | ------------------------------------------------------------------------------- |
|---|
| 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 |
|---|
| 439 | \end{lstlisting} |
|---|
| 440 | }; |
|---|
| 441 | \end{tikzpicture} |
|---|
| 442 | \end{columns} |
|---|
| 443 | \end{frame} |
|---|
| 444 | |
|---|
| 445 | % Folie 10 |
|---|
| 446 | \begin{frame} |
|---|
| 447 | \frametitle{Other Files} |
|---|
| 448 | \small |
|---|
| 449 | \begin{itemize} |
|---|
| 450 | \item<1->{Data output files (1D profiles and timeseries, 2D cross sections, 3D volume data) are by default in \textbf{netCDF} format which is suitable to be processed by |
|---|
| 451 | public domain graphics software like \textbf{ncview}, \textbf{ferret}, \textbf{ncl} (used by PALM group), \textbf{IDL}, etc. \\ |
|---|
| 452 | \par\bigskip |
|---|
| 453 | For a first look, {\tt ncview} is a convenient tool.} |
|---|
| 454 | \item<2->{{\tt ncdump} can be used to display the netCDF file contents in ASCII format ({\tt ncdump -c} displays only header informations).} |
|---|
| 455 | \item<3->{The simple viewer for netCDF-data - {\tt ncview} - as well as ncl graphic software is available on the notebooks and on the IMUK-cluster.} |
|---|
| 456 | \end{itemize} |
|---|
| 457 | \end{frame} |
|---|
| 458 | |
|---|
| 459 | % Folie 11 |
|---|
| 460 | \begin{frame} |
|---|
| 461 | \frametitle{Steering by Unix Environment Variables} |
|---|
| 462 | \scriptsize |
|---|
| 463 | Most features of PALM are controlled by the parameter file but a few are exclusively controlled by unix environment variables. The most important one is {\tt write\_binary}. \\ |
|---|
| 464 | \par\bigskip |
|---|
| 465 | Setting \\ |
|---|
| 466 | \par\medskip |
|---|
| 467 | {\centering \texttt{ write\_binary = true} \\ |
|---|
| 468 | \par\medskip |
|---|
| 469 | within the shell causes PALM to write binary data for restart runs at the end of a run.} |
|---|
| 470 | \par\bigskip |
|---|
| 471 | \uncover<2->{Setting of these environment variables is automatically done by {\tt mrun}. It generates a local file (named {\tt ENVPAR}) in FORTRAN-NAMELIST-format, which is then |
|---|
| 472 | read by PALM. This file includes the following variables:} \\ |
|---|
| 473 | \par\bigskip |
|---|
| 474 | \tiny |
|---|
| 475 | \uncover<3->{ |
|---|
| 476 | \begin{tabular}{|p{3cm}|p{4cm}|p{3cm}|} \hline |
|---|
| 477 | \textbf{Variable} & \textbf{Meaning} & \textbf{Value set by {\tt mrun}-option} \\ |
|---|
| 478 | \hline |
|---|
| 479 | {\tt host} & host identifier that mrun is using for the host on which the job is running & {\tt -h} \\ |
|---|
| 480 | {\tt maximum\_cpu\_time\_allowed} & cpu time allowed for the job & {\tt -t} \\ |
|---|
| 481 | {\tt run\_identifier} & identification string for the run & {\tt -d} \\ |
|---|
| 482 | {\tt tasks\_per\_node} & number of MPI tasks to be started on each node & {\tt -T} \\ |
|---|
| 483 | {\tt write\_binary} & switch for writing binary data to be used for restart runs & {\tt -r} (+setting in configuration file {\tt .mrun.config)} \\ |
|---|
| 484 | \hline |
|---|
| 485 | \end{tabular}} |
|---|
| 486 | \normalsize |
|---|
| 487 | \end{frame} |
|---|
| 488 | |
|---|
| 489 | % Folie 12 |
|---|
| 490 | \begin{frame} |
|---|
| 491 | \frametitle{PALM / netCDF Documentation} |
|---|
| 492 | \begin{itemize} |
|---|
| 493 | \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: \\ |
|---|
| 494 | \par\bigskip |
|---|
| 495 | \textbf{http://palm.muk.uni-hannover.de/wiki/doc/toc}} |
|---|
| 496 | \par\bigskip |
|---|
| 497 | \item<2->{General information about the netCDF data format can be found under \\ |
|---|
| 498 | \par\bigskip |
|---|
| 499 | \textbf{http://www.unidata.ucar.edu/software/netcdf/}} |
|---|
| 500 | \end{itemize} |
|---|
| 501 | \end{frame} |
|---|
| 502 | |
|---|
| 503 | \end{document} |
|---|
