Hi Matt,<div><br></div><div> The command (on ranger, btw) gives</div><div><br></div><div><div><font face="courier new, monospace"><b>yt module located at:</b></font></div><div><font face="courier new, monospace"><b> /share/home/01686/msalem/yt-x86_64/src/yt-hg</b></font></div>
<div><font face="courier new, monospace"><b><br></b></font></div><div><font face="courier new, monospace"><b>The current version of the code is:</b></font></div><div><font face="courier new, monospace"><b><br></b></font></div>
<div><font face="courier new, monospace"><b>---</b></font></div><div><font face="courier new, monospace"><b>6f3c1cf6960d (stable)</b></font></div><div><font face="courier new, monospace"><b>---</b></font></div><div><font face="courier new, monospace"><b><br>
</b></font></div><div><font face="courier new, monospace"><b>This installation CAN be automatically updated.</b></font></div><div><font face="courier new, monospace"><b>Updated successfully.</b></font></div></div><div><br>
</div><div class="gmail_extra"><br><br><div class="gmail_quote">On Wed, Nov 28, 2012 at 3:30 PM, 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 Munier,<br>
<br>
That's weird, it should be in there. What's the output of "yt<br>
instinfo", particularly the hash?<br>
<br>
-Matt<br>
<div class="HOEnZb"><div class="h5"><br>
On Wed, Nov 28, 2012 at 3:29 PM, Munier Azzam Salem<br>
<<a href="mailto:msalem@astro.columbia.edu">msalem@astro.columbia.edu</a>> wrote:<br>
> Hi Nathan,<br>
><br>
> Thanks for the tips. I think the fixed-resolution buffer is exactly<br>
> what I need here. Unfortunately, when I run the command:<br>
><br>
> frb = proj.to_frb(width, res, center=c)<br>
><br>
><br>
> I get the error<br>
><br>
> Traceback (most recent call last):<br>
> File "smllPlt.py", line 16, in <module><br>
> frb = proj.to_frb(width,res)<br>
> AttributeError: 'AMRQuadTreeProj' object has no attribute 'to_frb'<br>
><br>
> I tried updating my version of yt and deleting any .yt files, but the<br>
> error stuck.<br>
><br>
> best,<br>
> Munier<br>
><br>
><br>
><br>
> On Wed, Nov 28, 2012 at 2:34 PM, Nathan Goldbaum <<a href="mailto:nathan12343@gmail.com">nathan12343@gmail.com</a>><br>
> wrote:<br>
>><br>
>> Hi Munier,<br>
>><br>
>> I suspect that the projection of the particle field is zero in the<br>
>> locations that are colored white in your image. This causes these regions<br>
>> to 'fall off' the bottom end of the logarithmic color bar.<br>
>><br>
>> I think you have two options. One would be to use a linear colorbar. You<br>
>> can do this following the instructions here:<br>
>> <a href="http://yt-project.org/doc/faq/index.html#how-do-i-modify-whether-or-not-yt-takes-the-log-of-a-particular-field" target="_blank">http://yt-project.org/doc/faq/index.html#how-do-i-modify-whether-or-not-yt-takes-the-log-of-a-particular-field</a><br>
>><br>
>> Another option would be to make the plot by hand using a<br>
>> FixedResolutionBuffer. In this case you would make the projection object by<br>
>> hand, extract the raw image buffer using an FRB, and then make the plot<br>
>> manually using matplotlib. There's an example in the yt docs that covers<br>
>> how to do this:<br>
>> <a href="http://yt-project.org/doc/visualizing/manual_plotting.html?highlight=manual%20plotting" target="_blank">http://yt-project.org/doc/visualizing/manual_plotting.html?highlight=manual%20plotting</a><br>
>><br>
>> In the latter case if you want the areas that project to zero to appear<br>
>> with a logarithmic colorbar, you'll need to manually set the regions in the<br>
>> FRB that are equal to zero to some small number.<br>
>><br>
>> Cheers,<br>
>><br>
>> Nathan<br>
>><br>
>> On Nov 28, 2012, at 9:29 AM, Munier Azzam Salem wrote:<br>
>><br>
>> Hi yt gurus,<br>
>><br>
>> I've been making projections of star_density from enzo output files<br>
>> and they seem to be working out fine. However, wherever particles do not<br>
>> exist the background remains white instead of following my chosen colormap.<br>
>> Is there a way to paint these areas to follow the colormap?<br>
>><br>
>> thanks!<br>
>> Munier<br>
>><br>
>> I've attached an image of what gets plotted, and the relevant bits of my<br>
>> script are:<br>
>><br>
>> from yt.mods import *<br>
>><br>
>> fName = "DD0006/test_sim_0006"<br>
>> var = "star_density"<br>
>> axis = 0<br>
>><br>
>> pf = load(fName)<br>
>> pf.h<br>
>><br>
>> pc = PlotCollection(pf)<br>
>> p = pc.add_projection(var,axis)<br>
>> #p.modify["particles"](1.0)<br>
>><br>
>> radius = .02;<br>
>><br>
>> pc.set_xlim(.5-radius,.5+radius)<br>
>> pc.set_ylim(.5-radius,.5+radius)<br>
>><br>
>> pc.save(fName)<br>
>><br>
>><br>
>> --<br>
>> Munier A. Salem // 845.489.6450<br>
>><br>
>> <test_sim_0006_Projection_x_star_density.png>_______________________________________________<br>
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>><br>
>><br>
>><br>
>> _______________________________________________<br>
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>> <a href="mailto:yt-users@lists.spacepope.org">yt-users@lists.spacepope.org</a><br>
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>><br>
><br>
><br>
><br>
> --<br>
> Munier A. Salem // <a href="tel:845.489.6450" value="+18454896450">845.489.6450</a><br>
><br>
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<br>
</div></div></blockquote></div><br><br clear="all"><div><br></div>-- <br>Munier A. Salem // 845.489.6450<br>
</div>