[Commits] [svn:einsteintoolkit] Workshop_Spring_2012/ (Rev. 59)

Thu Apr 5 00:36:03 CDT 2012

User: rhaas
Date: 2012/04/05 12:36 AM

Added:
 /handson_viz/
  Makefile, add_isosurface.png, add_pseudocolor.png, add_reflection.png, annotation_menu.png, change_colour_scheme.png, disable_x_axis.png, final_plot_snapshot.png, handson_viz.tex, initial_plot_snapshot.png, isocontour_options.png, movie_frame_options.png, open_file.png, pseudocolour_options.png, reflection_options.png, render_frames_menu.png, rendering_options.png

Log:
 add first version of visualization hands on
 
 this is really just a collection of images of where to click on not
 quite sure how else to guide them through VisIt and still be done on
 time.

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--- handson_viz/Makefile	                        (rev 0)
+++ handson_viz/Makefile	2012-04-05 05:36:03 UTC (rev 59)
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+all: handson_viz.pdf
+
+%.pdf: %.tex
+	pdflatex $*
+
+clean:
+	/bin/bash -exec "rm -f handson_viz.{aux,log,nav,out,snm,pdf,toc} *~"
+
+.PHONY: all clean
+

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--- handson_viz/handson_viz.tex	                        (rev 0)
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+\input{../preamble.tex}
+\usepackage{ragged2e}
+\usepackage{amsmath}
+\usepackage{listings}
+\newcommand{\Heaviside}{\operatorname{\Theta}}
+
+\subtitle[Visualization hands-on]{{\large Einstein Toolkit
+Workshop}\\*[0.3em]Hands-on exercise: visualizing density oscillations and
+gravitational waves}
+\author{Roland Haas}
+\date{Apr 05 2012}
+
+\usecolortheme[RGB={200,200,200}]{structure}
+
+\begin{document}
+
+\begin{frame}
+\titlepage
+\end{frame}
+
+\begin{frame}
+\frametitle{Installing software}
+To turn the rendered frames into a movie we will use \texttt{ffmpeg} which
+unfortunately did not make it into the virtual machine. To install it, enter
+on a command prompt:
+\begin{alltt}
+    sudo apt-get install ffmpeg
+\end{alltt}
+Enter \texttt{etk-user} (ie. your password) when asked for the password.
+\end{frame}
+
+\begin{frame}
+\frametitle{TOV files to visualize}
+You can either use the output files from the \texttt{fast\_tov.par} run you
+started yesterday, or download a (slightly different) dataset from
+\url{http://www.physics.gatech.edu/~rhaas3/Workshop\_Spring\_2012/rho.rl4.h5.xz}
+(about 4MB). Copy the file to a folder of your choice and decompress it via 
+\begin{alltt}
+    xz -d -f --keep path-to-folder/rho.rl4.h5.xz
+\end{alltt}
+
+The former file will work but will be a bit boring. The later one I tweaked a
+bit to get nice large oscillations.
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{itemize}
+    \item type \texttt{\$HOME/VisIt/bin/visit} at a command prompt to start
+        visit
+    \item You can try enabling 3D acceleration, but at least on Intel graphics
+	  chips this tends to make VisIt fail at startup.
+    \item open the output file of your choice
+\end{itemize}
+\begin{center}
+\includegraphics[height=48mm]{open_file}
+\end{center}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{columns}
+\column{60mm}
+\begin{itemize}
+\item add a pseudocolor plot from the "Plots" drop-down button
+\item we will display a number of isocontour lines in the star to show its oscillations
+\item we will use the \texttt{IsoSurface} operator to compute the contour surfaces
+\item \texttt{VisIt} also offers a \texttt{Contour} plot which however is limited in the transparency options compared to the \texttt{IsoSurface}, \texttt{PseudoColor} combination we use
+\end{itemize}
+\column{60mm}
+\includegraphics[width=60mm]{add_pseudocolor}
+\end{columns}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{itemize}
+\item add \texttt{IsoSurface} operator from \texttt{Operators/Slicing/Isosurface}
+\item add \texttt{Reflect} operator from \texttt{Operators/Transforms/Reflect}, to populate the ``missing'' octants
+\end{itemize}
+\begin{columns}
+\column{60mm}
+\includegraphics[width=60mm]{add_reflection}
+\column{60mm}
+\includegraphics[width=60mm]{add_isosurface}
+\end{columns}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{columns}
+\column{60mm}
+\begin{itemize}
+\item double-click on the \texttt{Pseudocolor} entry in the list of plots to display its options page. Your might have to expand the list using the triangle shaped button on the left first
+\item add transparency by reducing the opacity to about 25\% and set limits of $[10^{-8},10^{-3}]$ for the plot range. We will use the same range when creating isocontours in the next step
+\item you have to click on \texttt{Apply} then on \texttt{Dismiss} to apply the new settings
+\end{itemize}
+\column{60mm}
+\includegraphics[width=60mm]{pseudocolour_options}
+\end{columns}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{itemize}
+\item double click on the \texttt{Reflect} operator, change to \texttt{3D} and activate all octants except the original ($+X+Y+Z$) one and the $+X-Y+Z$ one, change the reflection point to the origin.
+\end{itemize}
+\begin{center}
+\includegraphics[height=60mm]{reflection_options}
+\end{center}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{itemize}
+\item double click on the \texttt{IsoSurface} operator and select the range used for the \texttt{Pseudocolor} plot, use $6$ levels and leave the scaling at \texttt{linear}
+\end{itemize}
+\begin{center}
+\includegraphics[width=60mm]{isocontour_options}
+\end{center}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{itemize}
+\item click on \texttt{Draw} to see how your plot looks like
+\item rotate to an orientation that looks nice, by grabbing the plot with the mouse
+\end{itemize}
+\begin{center}
+\includegraphics[width=60mm]{initial_plot_snapshot}
+\end{center}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{columns}
+\column{60mm}
+\begin{itemize}
+\item next we will change \texttt{VisIt}'s rendering options to add shadows and change the background to something more attractive
+\item unfortunately this means we will eventually loose the transparancy (at least in the virtual machine)
+\item first though open the \texttt{Annotation} control page
+\end{itemize}
+\column{60mm}
+\includegraphics[width=60mm]{annotation_menu}
+\end{columns}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{itemize}
+\item in the \texttt{X-Axis} subtab of the \texttt{3D} tab, disable the axis title
+\item repeat for the other two axes
+\item in the \texttt{Colors} tab, change the background to black and the foreground to white
+\item add a gradient to the background, with a dark gray as the second colour
+\end{itemize}
+\begin{center}
+\includegraphics[width=58mm]{disable_x_axis}
+\hfill
+\includegraphics[width=58mm]{change_colour_scheme}
+\end{center}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{columns}
+\column{60mm}
+\begin{itemize}
+\item open \texttt{VisIt}'s rendering options from the \texttt{Options/Rendering...} menu
+\item on the \texttt{Advanced} tab, enable \texttt{scalable rendering}, \texttt{Shadows} and \texttt{Depth Cueing}
+\end{itemize}
+\column{60mm}
+\includegraphics[width=60mm]{rendering_options}
+\end{columns}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{itemize}
+\item click on \texttt{Draw} to see how your plot looks like
+\end{itemize}
+\begin{center}
+\includegraphics[width=60mm]{final_plot_snapshot}
+\end{center}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{columns}
+\column{60mm}
+\begin{itemize}
+\item in this penultimate step we will let \texttt{VisIt} rendering frames of a small movie showing the oscillations
+\item to start the movie wizard, select \texttt{Save movie...} from the \texttt{File} menu
+\end{itemize}
+\column{60mm}
+\includegraphics[width=60mm]{render_frames_menu}
+\end{columns}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{columns}
+\column{60mm}
+\begin{itemize}
+\item in this penultimate step we will let \texttt{VisIt} rendering frames of a small movie showing the oscillations
+\item to start the movie wizard, select \texttt{Save movie...} from the \texttt{File} menu
+\end{itemize}
+\column{60mm}
+\includegraphics[width=60mm]{render_frames_menu}
+\end{columns}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{columns}
+\column{60mm}
+\begin{itemize}
+\item Finally, inside the wizard, change the frame size to approximately $640\times640$ pixels (multiples of $16$ are best)
+\item choose \texttt{png} output
+\item add the movie format to the list on the right using the \texttt{->} button
+\item click on next and accept the defaults for all other steps, maybe choosing a different output directory for the frames
+\end{itemize}
+\column{60mm}
+\includegraphics[width=60mm]{movie_frame_options}
+\end{columns}
+\end{frame}
+
+\begin{frame}
+\frametitle{Visualizing density oscillations}
+\begin{itemize}
+\item once \texttt{VisIt} is done, which will take some minutes, we can render the frames into an actual movie
+\item for this, \texttt{cd} into the folder containing the frames and enter
+\begin{alltt}
+ffmpeg -loop\_input -vframes 200 -qscale 1 -b 1000 -i movie\%04d.png movie.avi
+\end{alltt}
+\begin{itemize}
+\item \texttt{-loop\_input} makes \texttt{ffmpeg} wrap around when looking for frames
+\item \texttt{-vframes 200} is the number of frames to include in the movie, we set this to twice as many as we have actual frames, ie. the movie will loop twice
+\item \texttt{-qscale 1} sets the quality scale for the encoder. $1$ is best quality.
+\item \texttt{-b 1000} asks for a bitrate of $1000$ kilobits per second
+\item \texttt{-i movie\%04d.png} tells \texttt{ffmpeg} the names of the input files, it accepts \texttt{printf} format specifiers to construct a file name based on the frame number. \texttt{ffmpeg} stops encoding once it generates a name for which no or no valid file is found.
+\end{itemize}
+\item play the movie using \texttt{ffplay}
+\end{itemize}
+\end{frame}
+\end{document}

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