Tim,
VisIt works very well with HDF5 formatted files. One question, is do you
want a 3D image or a 2D image? If you want a 3D image, there is a format
called VizSchema that might work for what you want. You can see the
format here.
https://ice.txcorp.com/trac/vizschema/wiki
Ciao,
Dave
Dave Kindig
Research Assistant - TechX Corp (www.txcorp.com)
303-444-2386
On 03/27/2012 08:50 AM, Tim Duly wrote:
Rich,
Thank you for the information. My data comes from an unformatted
Fortran file, and Python was the easiest way to read this data. I'd
prefer to use VisIt as I'd like to extend this project with a 2D plot
with time, and then to a 3D plot with time.
Perhaps I wasn't clear enough-- I have all the data read into Python
right now, but am having trouble writing the coordinate information
into the NetCDF. I am able to get the actual data into VisIt, but
it's not "applied" to the (200 x 100) matrix X and Y coordinate
information.
From my research, it doesn't look like NetCDF is able to do this.
Perhaps I should be using another data format for VisIt?
Thanks,
Tim
On Tue, Mar 27, 2012 at 9:20 AM, Rich Signell <rsignell@xxxxxxxx
<mailto:rsignell@xxxxxxxx>> wrote:
Tim,
You mention quite a few things here: unstructured grids, Matlab,
NetCDF, CF, Python and Visit.
If your goal is to truly to visualize unstructured grid data from
NetCDF files (or OPeNDAP datasets) using Python, take a look at this
screen shot using Mayavi2
http://dl.dropbox.com/u/12710282/Screenshot-Mayavi.png
and the simple code that produced it:
http://dl.dropbox.com/u/12710282/triangular_mesh_demo.py
Mayavi2 comes with at least two scientific Python distributions:
Python(x,y) (free, works on 32 bit windows) and the Enthought Python
Distribution (free for educational use, works on 32/64 bit windows,
mac and linux). You should be able to run the above python script
without changes on either distribution.
However, it sounds like you actually have structured grid data in a
text file that you want to use. In python, I would use numpy
"genfromtxt" to read from the text file, and visualize with Mayavi2's
"surf" function. See:
http://github.enthought.com/mayavi/mayavi/auto/examples.html
If you want to save your data in a NetCDF file, I'd use the
NetCDF4Python package (also included in the above scientific python
distributions). This would allow you to visualize it in other tools
as well, like Unidata's IDV.
Good Luck,
-Rich
On Mon, Mar 26, 2012 at 3:31 PM, Tim Duly <duly2@xxxxxxxxxxxx
<mailto:duly2@xxxxxxxxxxxx>> wrote:
> Hello,
>
> I have a relatively simple task. I have 2D data, of dimension
200x100 that
> belong to an unstructured grid that contains X and Y, both of
which are
> dimension 200x100. In other words, I have DATA = f(X,Y).
>
> I'm trying to plot this in VisIt, but am having a tough time
applying the
> unstructured grid to the actually data. In MATLAB, for example,
this is
> easily accomplished with surf(X,Y,DATA), but I'm having
difficulties finding
> the equivalent in NetCDF. How do I do this? Is this problem
solved in
> NetCDF or in VisIt?
>
> I am using the Python library NetCDF to transform unformatted
Fortran data
> into NetCDF format. I have read this page
> (
http://cf-pcmdi.llnl.gov/documents/cf-conventions/1.4/cf-conventions.html#id2984605
)
> but I do not understand how to do this with the NetCDF library
in python.
> Should I use another data format besides NetCDF?
>
> Any help would be greatly appreciated.
>
> Thanks,
> Tim
>
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--
Dr. Richard P. Signell (508) 457-2229 <tel:%28508%29%20457-2229>
USGS, 384 Woods Hole Rd.
Woods Hole, MA 02543-1598
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