visualization with paraview - hpc...

Visualization with ParaView

Arizona State University 2014

Before we begin… • Make sure you have ParaView 4.1.0 installed so you

can follow along in the lab section – http://paraview.org/paraview/resources/software.php

http://paraview.org/paraview/resources/software.php

Background • http://www.paraview.org/ • Open-source, multi-platform parallel data analysis

and visualization application • Mature, feature-rich interface • Good for general-purpose, rapid visualization • Built upon the Visualization ToolKit (VTK) library • Primary contributors:

– Kitware, Inc. – Sandia National Laboratory – Los Alamos National Laboratory – Army Research Laboratory

http://www.paraview.org/

Data Types • Supports a wide variety of data types

– Structured grids • uniform rectilinear, non-uniform rectilinear, and

curvilinear – Unstructured grids – Polygonal data – Images – Multi-block – AMR

• Time series support

*http://www.paraview.org/Wiki/images/c/c6/ParaViewTutorial312.pdf

*

http://www.paraview.org/Wiki/images/c/c6/ParaViewTutorial312.pdf

Visualization Algorithms • Supports a wide variety of visualization

algorithms -> Filters – Isosurfaces – Cutting planes – Streamlines – Glyphs – Volume rendering – Clipping – Height maps – …

Special Features

• Supports derived variables – New scalar / vector variables that are

functions of existing variables in your data set • Scriptable via Python • Saves animations • Can run in parallel / distributed mode for

large data visualization

Data Formats • Supports a wide variety of data formats

– VTK (http://www.vtk.org/VTK/img/file-formats.pdf) – EnSight – Plot3D – Various polygonal formats

• Users can write data readers to extend support to other formats

• Conversion to the VTK format is straightforward

http://www.vtk.org/VTK/img/file-formats.pdf

Data Formats

• VTK Simple Legacy Format • ASCII or binary • Supports all VTK grid

types • Easiest for data

conversion

• Note: use VTK XML format for parallel I/O

VTK simple legacy format (http://www.vtk.org/VTK/img/file-formats.pdf)

http://www.vtk.org/VTK/img/file-formats.pdf

Data Formatting Example • Data set: 4x4x4 rectilinear grid

with one scalar variable

ParaView Visualization Pipeline

• All processing operations (filters) produce data sets

• Can further process the result of every operation to build complex visualizations – e.g. can extract a cutting plane, and apply

glyphs (i.e. vector arrows) to the result • Gives a plane of glyphs through your 3D volume

Demonstration • WRF weather forecast data set

– Rectilinear grid – Multiple scalar and vector variables – Time series

• Can show:

– Clouds – Wind – Temperature – …

ParaView Test-Drive

Getting Started

• Download example data file • ‘disk_out_ref.ex2’

– http://portal.longhorn.tacc.utexas.edu/training/ – Right-click, Save link as…

• Open ParaView

ParaView Menu Bar

Toolbars

Pipeline Browser

Object Inspector

3D View

(well, this is a Mac)

ParaView Undo/Redo

Camera Controls

View Controls (undo/redo)

VCR Controls

Common Controls

Active Variable Controls

ParaView Today we will: • Create isosurfaces for a scalar

variable • Clip and slice the surfaces • Use glyphs to display a vector

field • Use streamlines to show flow

through a vector field • Edit color maps • Add slices to show variable

values over a plane • Add color legends • Create volume rendering • Create a plot over a line

ParaView

Open the file disk_out_ref.ex2

• Click File -> Open • Select

disk_out_ref.ex2 • Click OK • Select ALL variables • Click blue Apply • Cylinder outline of

dataset extent displayed

ParaView



disk_out_ref.ex2 and click OK

ParaView



disk_out_ref.ex2 and click OK

• Select ALL variables

ParaView



disk_out_ref.ex2 • Click OK • Select ALL variables • Click blue Apply

ParaView



disk_out_ref.ex2 • Click OK • Select ALL variables • Click blue Apply

Cylinder outline of

dataset extent displayed

ParaView Manipulate Representation and color • Use the Active Variable

Controls to change color Solid Color -> Pres



• Use Representation toolbar to change representation

Surface -> Surface With Edges



• Use Representation toolbar to change representation

Surface -> Surface With Edges

• Show Colorbar annotation

• Explore dataset with mouse

ParaView

• Click +Z view button


ParaView

• Click +Z view button • Huh?


ParaView


• Move it around


ParaView


• Move it around

• Change Representation

ParaView

Filters • Click Filters on

menu bar and find Contour

– Alphabetical – Common

(Or on toolbar)

ParaView




(Or on toolbar)

• Contour by AsH3

ParaView




(Or on toolbar)




(Or on toolbar)

• Contour by AsH3

• Hit Apply

ParaView

Filters • With Contour1

selected, use Active Variable Control to color by CH4

• And drag one of the colorbars elsewhere

ParaView

Filters (2) • Click Filters on

menu bar and find Clip


(Or on toolbar)

ParaView

Filters (2) • Choose orientation

axes

ParaView

Filters (2) • Hit Apply

• Note: all three

objects are visible – Wireframe of

dataset – Contour surface – Surface of clipped

dataset

ParaView

Color Mapping • Select Clip1

ParaView

Color Mapping • Select Edit Color Map

ParaView

Color Mapping • Select Choose Preset

ParaView

Color Mapping • Select Black-Body R…

and Update

ParaView

Color Mapping • Select Black-Body R…

and Close

ParaView

Color Mapping • Close Colormap

window

ParaView

Filters (3) • Select original

dataset

• Click Filters on menu bar and find Stream Tracer


(Or on toolbar)

ParaView

Filters (3) • Scroll down on

Properties pane until you see seeds sub-pane

ParaView

Filters (3) • Change Point Source to High Resolution

Line Source

• Update

ParaView

Filters (3) • You can manipulate

the ‘rake’ interactively

• You can change the number of seed points

• You can change the interpolation method yadda yadda

ParaView

Filters (3) • With

StreamTracer1 selected,

• Click Filters on menu bar and find Tube

– Alphabetical – ?

• Update

ParaView

Filters (3)

ParaView

Filters (3) • Turn on Wire Frame

of original dataset • Hide Tube’d

Stream lines

ParaView

Glyphs • With original dataset

selected…

• Click Filters on menu bar and find Glyph


(Or on toolbar) • Apply

ParaView

Glyphs • A bunch of points

are selected, sampled from the dataset and an Arrow glyph is applied

• Note V vectors and Arrow glyph type;

Scalars option is not enabled

ParaView

Glyphs • Scroll down in

properties window and change Scale Mode to scalar

• Scroll back …

• Set Glyph Type to sphere

• Choose any variable and Apply

ParaView

Glyphs Spheres radii are

proportional to value or magnitude

ParaView

Glyphs • With the Glyphs

selected…

• Edit->Change Input…

ParaView

Glyphs • Select the Stream

Trace, Apply

ParaView

Glyphs Note dependency

tree

• With the Glyph selected, change Scale Mode to Vector, Glyph Type to Arrow, and choose variable v

• Apply

ParaView

Glyphs Glyphs are now

tangential arrows

ParaView

Volume Rendering • Delete everything

except original dataset

• Set Representation to Volume

ParaView

Volume Rendering • Open Colormap

Editor

• Fiddle Opacity Transfer Function

ParaView

Volume Rendering • … to look like this

• Close Colormap

Editor

ParaView

Volume Rendering

• And we can then

add a new contour, streamlines, yadda yadda

ParaView

Volume Rendering • Notice smallwrf

directory

• Enter it

ParaView

Animation • Notice wrf_small-….vtr • Expand it and see

that it consists of a number of sequentially ordered files

• Select it and Apply

ParaView

Animation • Select Contour

• Contour By: QRAIN

• Set Value Range 0.0001 • Apply

• Hit Play

ParaView

Saving Animation • File->Save Animation…

• Set output resolution • Hit Save Animation

ParaView

Saving Animation • Create Directory

• e.g. movie1

• Enter that directory

ParaView

Saving Animation • Set File Name

• e.g. ‘frame’

• Set Files to Type

• I use ‘avi’

• OK

Questions?

• More tutorials available: – http://www.paraview.org/Wiki/The_ParaView_Tutorial

http://www.paraview.org/Wiki/The_ParaView_Tutorial

visualization with paraview - hpc...

Documents