<div dir="ltr">Hi Matt,<div><br></div><div>I greatly appreciate the help. The pictures you see are what I get on a first run using</div><div>%<span style="font-family:arial,sans-serif;font-size:13.333333969116211px">run scatter3DAthenaData.py</span></div>
<div><font face="arial, sans-serif">Whether or not I then close the plot window, issuing %</font><span style="font-family:arial,sans-serif;font-size:13.333333969116211px">run scatter3DAthenaData.py again brings up a new plot with the mess of points. </span></div>
<div><span style="font-family:arial,sans-serif;font-size:13.333333969116211px">So maybe this is just specific to my install? I suppose I should try running it on my linux box then. </span></div><div><span style="font-family:arial,sans-serif;font-size:13.333333969116211px"><br>
</span></div><div>Here is the output of yt instinfo:</div><div><div>(yt-x86_64)Macbook$ yt instinfo:</div><div>%</div><div>yt module located at:</div><div> /Users/Macbook/Virtualenvs/yt/yt-x86_64/src/yt-hg</div><div>The supplemental repositories are located at:</div>
<div> /Users/Macbook/Virtualenvs/yt/yt-x86_64/src/yt-supplemental</div><div><br></div><div>The current version of the code is:</div><div><br></div><div>---</div><div>cde0a641f1bf</div><div>---</div><div><br></div><div>
This installation CAN be automatically updated.</div><div>yt dependencies were last updated on</div><div>Tue Aug 13 16:45:11 PDT 2013</div><div>%</div></div><div><br></div><div>Also, here is the output from %<span style="font-family:arial,sans-serif;font-size:13.333333969116211px">run scatter3DAthenaData.py:</span></div>
<div><span style="font-family:arial,sans-serif;font-size:13.333333969116211px"><br></span></div><div><font face="arial, sans-serif">%</font></div><div><span style="font-family:arial,sans-serif;font-size:13.333333969116211px"><div>
yt : [INFO ] 2013-08-20 09:59:25,321 Temporarily setting domain_right_edge = -domain_left_edge. This will be corrected automatically if it is not the case.</div><div>yt : [INFO ] 2013-08-20 09:59:25,323 Parameters: current_time = 15.0</div>
<div>yt : [INFO ] 2013-08-20 09:59:25,323 Parameters: domain_dimensions = [32 32 32]</div><div>yt : [INFO ] 2013-08-20 09:59:25,324 Parameters: domain_left_edge = [-0.5 -0.5 -0.5]</div><div>yt : [INFO ] 2013-08-20 09:59:25,325 Parameters: domain_right_edge = [ 0.5 0.5 0.5]</div>
<div>yt : [INFO ] 2013-08-20 09:59:25,325 Parameters: cosmological_simulation = 0.0</div><div>Nx,Ny,Nz = [40 40 40]</div><div>cell sizes (x,y,z) = [ 0.03125 0.03125 0.03125]</div><div>yt : [INFO ] 2013-08-20 09:59:25,327 Getting field x from 1</div>
<div>yt : [INFO ] 2013-08-20 09:59:25,345 Getting field y from 1</div><div>yt : [INFO ] 2013-08-20 09:59:25,353 Getting field z from 1</div><div>yt : [INFO ] 2013-08-20 09:59:25,361 Getting field density from 1</div>
<div>yt : [INFO ] 2013-08-20 09:59:25,370 Getting field momentum_x from 1</div><div>yt : [INFO ] 2013-08-20 09:59:25,381 Getting field momentum_y from 1</div><div>yt : [INFO ] 2013-08-20 09:59:25,389 Getting field momentum_z from 1</div>
</span></div><div>%</div><div><br></div><div>Thanks again!</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On Tue, Aug 20, 2013 at 8:43 AM, Matthew Turk <span dir="ltr"><<a href="mailto:matthewturk@gmail.com" target="_blank">matthewturk@gmail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi Tim,<br>
<br>
Thanks for writing, and welcome to yt!<br>
<div class="im"><br>
On Sun, Aug 18, 2013 at 8:53 PM, Timothy Waters<br>
<<a href="mailto:waterst3@unlv.nevada.edu">waterst3@unlv.nevada.edu</a>> wrote:<br>
> Hi,<br>
><br>
> Here is the data and simple script to make a scatter or profile plot of my<br>
> simulation output,<br>
> <a href="https://www.dropbox.com/sh/ibpda938ltsxl0j/2AA2FYDUH8#/" target="_blank">https://www.dropbox.com/sh/ibpda938ltsxl0j/2AA2FYDUH8#/</a><br>
><br>
> This is a spherically symmetric (cartesian [-0.5,0.5]^3, 32cells^3) hydro<br>
> simulation with initial conditions<br>
> density = 1.0 if radius <= 1/3;<br>
> density falls off as 1/r^2 if r > 1/3;<br>
> velocity is everywhere 0<br>
><br>
> The output with these ICs is WP12.0000.vtk. When I run my script the first<br>
> time using iyt I get the first image with the expected ICs. Running it<br>
> again gives the second image and I don't know why. I'm hoping those other<br>
> points don't actually exist in my data. Maybe I am just missing something<br>
> simple?<br>
<br>
</div>I'm not sure. I haven't been able to replicate the problem here, but<br>
I have a handful of suspicions. I was able to generate these two<br>
images, one for the 0000 dataset and the second for 0030.<br>
<br>
<a href="http://i.imgur.com/cxnDVjO.png" target="_blank">http://i.imgur.com/cxnDVjO.png</a><br>
<a href="http://i.imgur.com/MPUSQVH.png" target="_blank">http://i.imgur.com/MPUSQVH.png</a><br>
<br>
Can you tell me a bit more specifically how you're running the script?<br>
You start up iyt, then do %run , and then %run again? Does it happen<br>
if you do:<br>
<br>
%run scatter3DAthenaData.py<br>
%run scatter3DAthenaData.py<br>
<br>
and look at the resultant plot? (It does not for me, FWIW.) Does it<br>
happen if you do multiple datasets in a row?<br>
<br>
What's the output of:<br>
<br>
yt instinfo<br>
<br>
specifically, the changeset hash it provides.<br>
<div class="im"><br>
><br>
> The evolved data, WP12.0030.vtk, is provided as well. Running this data<br>
> 'cleans the slate' so that I can then go back to see the problem with my<br>
> initial conditions again. Of course, the problem shows up in this data too.<br>
<br>
</div>Interesting. I do not believe that there is a problem with your data,<br>
but we'll get to the bottom of it!<br>
<br>
Best,<br>
<br>
Matt<br>
<br>
><br>
> Thanks in advance!<br>
> Tim<br>
><br>
><br>
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</blockquote></div><br></div>